From d8370b70b83f08711d53421d10d06a4cee369af5 Mon Sep 17 00:00:00 2001 From: Aaron Petkau Date: Thu, 24 Aug 2023 16:43:17 -0500 Subject: [PATCH 01/25] Bump version --- CHANGELOG.md | 2 ++ staramr/__init__.py | 2 +- 2 files changed, 3 insertions(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 2b97b3d..bf39046 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,3 +1,5 @@ +# Unreleased + # Version 0.10.0 * Updated the Plasmidfinder database to use the January 18th 2023 release. diff --git a/staramr/__init__.py b/staramr/__init__.py index 9d1bb72..fe2ef9e 100644 --- a/staramr/__init__.py +++ b/staramr/__init__.py @@ -1 +1 @@ -__version__ = '0.10.0' +__version__ = '0.11.0.dev0' From 329f68aee8ad02287c95e0af5de084c0cd86383a Mon Sep 17 00:00:00 2001 From: Steven Sutcliffe Date: Mon, 8 Jul 2024 19:08:07 -0400 Subject: [PATCH 02/25] Coerce PMID column into string not integer --- staramr/blast/pointfinder/PointfinderDatabaseInfo.py | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/staramr/blast/pointfinder/PointfinderDatabaseInfo.py b/staramr/blast/pointfinder/PointfinderDatabaseInfo.py index f6adfbe..915290f 100644 --- a/staramr/blast/pointfinder/PointfinderDatabaseInfo.py +++ b/staramr/blast/pointfinder/PointfinderDatabaseInfo.py @@ -37,12 +37,12 @@ def from_file(cls, file): with open(file) as f: line = f.readline() - + line = line.lstrip("#") column_names = line.split() pointfinder_info = pd.read_csv(file, sep='\t', index_col=False, comment='#', header=None, names=column_names) - + pointfinder_info["PMID"] = pointfinder_info["PMID"].astype(str) return cls(pointfinder_info, file) @classmethod @@ -53,7 +53,7 @@ def from_pandas_table(cls, database_info_dataframe): :return: A new PointfinderDatabaseInfo. """ return cls(database_info_dataframe) - + @staticmethod def to_codons(regex_match): # Sometimes, the regex will match a string with a comma and return multiple matches. @@ -120,7 +120,7 @@ def _get_resistance_codon_match(self, gene, codon_mutation): # so we need to convert to nucleotide coordinates before making the comparison. & (table['Ref_codon'] == codon_mutation.get_database_amr_gene_mutation()) & (table['Res_codon'].str.contains(codon_mutation.get_input_genome_mutation(), regex=False))] - + # We need to handle codon insertions as a special case: # Pointfinder mis-reports the position of codon insertions. For example: # ref: ACG --- ACG From 6af296a982a5feb93feb0c6670bd6f0a5fe68e07 Mon Sep 17 00:00:00 2001 From: Eric Date: Tue, 26 Nov 2024 10:08:22 -0600 Subject: [PATCH 03/25] Deprecation fixes. --- staramr/blast/results/BlastResultsParser.py | 2 +- staramr/subcommand/Search.py | 6 +++--- 2 files changed, 4 insertions(+), 4 deletions(-) diff --git a/staramr/blast/results/BlastResultsParser.py b/staramr/blast/results/BlastResultsParser.py index 210b7ff..0cf7eb0 100644 --- a/staramr/blast/results/BlastResultsParser.py +++ b/staramr/blast/results/BlastResultsParser.py @@ -93,7 +93,7 @@ def _get_out_file_name(self, in_file): def _handle_blast_hit(self, in_file, database_name, blast_file, results, hit_seq_records): blast_table = pd.read_csv(blast_file, sep='\t', header=None, names=JobHandler.BLAST_COLUMNS, index_col=False).astype( - dtype={'qseqid': np.unicode_, 'sseqid': np.unicode_}) + dtype={'qseqid': np.str_, 'sseqid': np.str_}) partitions = BlastHitPartitions() blast_table['plength'] = (blast_table.length / blast_table.qlen) * 100.0 diff --git a/staramr/subcommand/Search.py b/staramr/subcommand/Search.py index 5e09a48..9ab964e 100644 --- a/staramr/subcommand/Search.py +++ b/staramr/subcommand/Search.py @@ -194,13 +194,13 @@ def _print_dataframes_to_excel(self, outfile_path, summary_dataframe, resfinder_ for name in ['Summary', 'Detailed_Summary', 'ResFinder', 'PointFinder', 'PlasmidFinder', 'MLST_Summary']: if name in sheetname_dataframe: if name == 'Summary': - sheetname_dataframe[name].to_excel(writer, name, freeze_panes=[1, 2], float_format="%0.2f",na_rep=self.BLANK) + sheetname_dataframe[name].to_excel(writer, sheet_name=name, freeze_panes=[1, 2], float_format="%0.2f",na_rep=self.BLANK) else: - sheetname_dataframe[name].to_excel(writer, name, freeze_panes=[1, 1], float_format="%0.2f",na_rep=self.BLANK) + sheetname_dataframe[name].to_excel(writer, sheet_name=name, freeze_panes=[1, 1], float_format="%0.2f",na_rep=self.BLANK) self._resize_columns(sheetname_dataframe, writer, max_width=50) - settings_dataframe.to_excel(writer, 'Settings') + settings_dataframe.to_excel(writer, sheet_name='Settings') self._resize_columns({'Settings': settings_dataframe}, writer, max_width=75, text_wrap=False) writer.close() From 480eab38b7e708f642de82db3e349a27642864ec Mon Sep 17 00:00:00 2001 From: Eric Date: Wed, 27 Nov 2024 11:19:12 -0600 Subject: [PATCH 04/25] Updating resfinder DB. --- staramr/blast/results/BlastResultsParser.py | 2 +- staramr/databases/AMRDatabasesManager.py | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/staramr/blast/results/BlastResultsParser.py b/staramr/blast/results/BlastResultsParser.py index 0cf7eb0..1dc1518 100644 --- a/staramr/blast/results/BlastResultsParser.py +++ b/staramr/blast/results/BlastResultsParser.py @@ -107,7 +107,7 @@ def _handle_blast_hit(self, in_file, database_name, blast_file, results, hit_seq for hits_non_overlapping in partitions.get_hits_nonoverlapping_regions(): for hit in self._select_hits_to_include(hits_non_overlapping): blast_results = self._get_result_rows(hit, database_name) - if blast_results is not None: + if blast_results is not None and database_name != "all": logger.debug("record = %s", blast_results) results.extend(blast_results) hit_seq_records.append(hit.get_seq_record()) diff --git a/staramr/databases/AMRDatabasesManager.py b/staramr/databases/AMRDatabasesManager.py index f10aac5..046dbf1 100644 --- a/staramr/databases/AMRDatabasesManager.py +++ b/staramr/databases/AMRDatabasesManager.py @@ -14,7 +14,7 @@ class AMRDatabasesManager: # Update to commits corresponding to dates listed on (and PlasmidFinder) # As of May 26, 2022 DEFAULT_COMMITS = { - 'resfinder': 'fa32d9a3cf0c12ec70ca4e90c45c0d590ee810bd', # 2022-05-24 + 'resfinder': 'd1e607b8989260c7b6a3fbce8fa3204ecfc09022', # 2024-08-08 'pointfinder': '8c694b9f336153e6d618b897b3b4930961521eb8', # 2021-02-01 'plasmidfinder': 'c18e08c17a5988d4f075fc1171636e47546a323d', # 2023-01-18 } From 5f36252efc92e0d4e2f96b21f4c78c8eba221cfd Mon Sep 17 00:00:00 2001 From: Eric Date: Wed, 27 Nov 2024 11:39:54 -0600 Subject: [PATCH 05/25] Updating resfinder db commits. --- .github/workflows/ci-test.yml | 2 +- staramr/tests/integration/databases/test_AMRDatabasesManager.py | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/ci-test.yml b/.github/workflows/ci-test.yml index 7c631dd..58ea1f4 100644 --- a/.github/workflows/ci-test.yml +++ b/.github/workflows/ci-test.yml @@ -18,7 +18,7 @@ jobs: runs-on: ubuntu-latest env: - DATABASE_COMMITS: '--resfinder-commit fa32d9a3cf0c12ec70ca4e90c45c0d590ee810bd --pointfinder-commit 8c694b9f336153e6d618b897b3b4930961521eb8 --plasmidfinder-commit c18e08c17a5988d4f075fc1171636e47546a323d' + DATABASE_COMMITS: '--resfinder-commit d1e607b8989260c7b6a3fbce8fa3204ecfc09022 --pointfinder-commit 8c694b9f336153e6d618b897b3b4930961521eb8 --plasmidfinder-commit c18e08c17a5988d4f075fc1171636e47546a323d' strategy: fail-fast: False diff --git a/staramr/tests/integration/databases/test_AMRDatabasesManager.py b/staramr/tests/integration/databases/test_AMRDatabasesManager.py index e96f870..0944bc5 100644 --- a/staramr/tests/integration/databases/test_AMRDatabasesManager.py +++ b/staramr/tests/integration/databases/test_AMRDatabasesManager.py @@ -7,7 +7,7 @@ class AMRDatabasesManagerIT(unittest.TestCase): - RESFINDER_DEFAULT_COMMIT = 'fa32d9a3cf0c12ec70ca4e90c45c0d590ee810bd' + RESFINDER_DEFAULT_COMMIT = 'd1e607b8989260c7b6a3fbce8fa3204ecfc09022' POINTFINDER_DEFAULT_COMMIT = '8c694b9f336153e6d618b897b3b4930961521eb8' PLASMIDFINDER_DEFAULT_COMMIT = 'c18e08c17a5988d4f075fc1171636e47546a323d' From cd6f2febfdfb5da35d0fa20c67ba28ee039177ca Mon Sep 17 00:00:00 2001 From: Eric Date: Thu, 28 Nov 2024 13:31:29 -0600 Subject: [PATCH 06/25] Pointfinder first pass db-update. --- .github/workflows/ci-test.yml | 2 +- staramr/blast/results/BlastResultsParser.py | 9 ++++++++- .../BlastResultsParserPointfinderResistance.py | 14 +++++++------- .../blast/results/pointfinder/PointfinderHitHSP.py | 12 +++++++++++- .../pointfinder/nucleotide/PointfinderHitHSPRNA.py | 10 ++++++++++ staramr/databases/AMRDatabasesManager.py | 4 ++-- .../databases/test_AMRDatabasesManager.py | 2 +- 7 files changed, 40 insertions(+), 13 deletions(-) diff --git a/.github/workflows/ci-test.yml b/.github/workflows/ci-test.yml index 58ea1f4..76c5a92 100644 --- a/.github/workflows/ci-test.yml +++ b/.github/workflows/ci-test.yml @@ -18,7 +18,7 @@ jobs: runs-on: ubuntu-latest env: - DATABASE_COMMITS: '--resfinder-commit d1e607b8989260c7b6a3fbce8fa3204ecfc09022 --pointfinder-commit 8c694b9f336153e6d618b897b3b4930961521eb8 --plasmidfinder-commit c18e08c17a5988d4f075fc1171636e47546a323d' + DATABASE_COMMITS: '--resfinder-commit d1e607b8989260c7b6a3fbce8fa3204ecfc09022 --pointfinder-commit 694919f59a38980204009e7ade76bf319cb7df0b --plasmidfinder-commit c18e08c17a5988d4f075fc1171636e47546a323d' strategy: fail-fast: False diff --git a/staramr/blast/results/BlastResultsParser.py b/staramr/blast/results/BlastResultsParser.py index 1dc1518..d6a178d 100644 --- a/staramr/blast/results/BlastResultsParser.py +++ b/staramr/blast/results/BlastResultsParser.py @@ -91,6 +91,13 @@ def _get_out_file_name(self, in_file): pass def _handle_blast_hit(self, in_file, database_name, blast_file, results, hit_seq_records): + ignore_database = ["all", "campylobacter", + "enterococcus_faecalis", "enterococcus_faecium", + "escherichia_coli", "helicobacter_pylori", "klebsiella", + "mycobacterium_tuberculosis", "neisseria_gonorrhoeae", + "plasmodium_falciparum", "salmonella", + "staphylococcus_aureus"] + blast_table = pd.read_csv(blast_file, sep='\t', header=None, names=JobHandler.BLAST_COLUMNS, index_col=False).astype( dtype={'qseqid': np.str_, 'sseqid': np.str_}) @@ -107,7 +114,7 @@ def _handle_blast_hit(self, in_file, database_name, blast_file, results, hit_seq for hits_non_overlapping in partitions.get_hits_nonoverlapping_regions(): for hit in self._select_hits_to_include(hits_non_overlapping): blast_results = self._get_result_rows(hit, database_name) - if blast_results is not None and database_name != "all": + if blast_results is not None and database_name not in ignore_database: logger.debug("record = %s", blast_results) results.extend(blast_results) hit_seq_records.append(hit.get_seq_record()) diff --git a/staramr/blast/results/pointfinder/BlastResultsParserPointfinderResistance.py b/staramr/blast/results/pointfinder/BlastResultsParserPointfinderResistance.py index 11a079c..ed3b2bc 100644 --- a/staramr/blast/results/pointfinder/BlastResultsParserPointfinderResistance.py +++ b/staramr/blast/results/pointfinder/BlastResultsParserPointfinderResistance.py @@ -60,12 +60,12 @@ def _get_result(self, hit, db_mutation): else: mutation_position = db_mutation.get_mutation_position() - arg_drug = self._arg_drug_table.get_drug(self._blast_database.get_organism(), hit.get_amr_gene_id(), + arg_drug = self._arg_drug_table.get_drug(self._blast_database.get_organism(), hit.get_amr_gene_name(), mutation_position) - cge_drug = self._blast_database.get_cge_phenotype(hit.get_amr_gene_id(), db_mutation) + cge_drug = self._blast_database.get_cge_phenotype(hit.get_amr_gene_name(), db_mutation) - gene_name = hit.get_amr_gene_id() + " (" + db_mutation.get_mutation_string_short() + ")" + gene_name = hit.get_amr_gene_name() + " (" + db_mutation.get_mutation_string_short() + ")" if arg_drug is None: arg_drug = 'unknown[' + gene_name + ']' @@ -87,10 +87,10 @@ def _get_result(self, hit, db_mutation): hit.get_genome_contig_start(), hit.get_genome_contig_end(), db_mutation.get_pointfinder_mutation_string(), - self._blast_database.get_cge_notes(hit.get_amr_gene_id(), db_mutation), - self._blast_database.get_cge_required_mutation(hit.get_amr_gene_id(), db_mutation), - self._blast_database.get_cge_mechanism(hit.get_amr_gene_id(), db_mutation), - self._blast_database.get_cge_pmid(hit.get_amr_gene_id(), db_mutation), + self._blast_database.get_cge_notes(hit.get_amr_gene_name(), db_mutation), + self._blast_database.get_cge_required_mutation(hit.get_amr_gene_name(), db_mutation), + self._blast_database.get_cge_mechanism(hit.get_amr_gene_name(), db_mutation), + self._blast_database.get_cge_pmid(hit.get_amr_gene_name(), db_mutation), ] return result diff --git a/staramr/blast/results/pointfinder/PointfinderHitHSP.py b/staramr/blast/results/pointfinder/PointfinderHitHSP.py index ad1aca4..be68f09 100644 --- a/staramr/blast/results/pointfinder/PointfinderHitHSP.py +++ b/staramr/blast/results/pointfinder/PointfinderHitHSP.py @@ -28,7 +28,17 @@ def get_amr_gene_name(self): Gets the particular gene name for the PointFinder hit. :return: The gene name. """ - return self._blast_record['qseqid'] + + # As far back as 2020, CGE has been editing the FASTA file + # record headings used by Pointfinder to include accession + # numbers (pmrA -> pmrA_1_CP055130.1). This seems to be part + # of a larger initiative by CGE to move from the + # resistens-overview.txt file to a new phenotypes.txt file. + # However, we need to use the new FASTA record headers with + # the legacy resistens-overview.txt names, which unfortunately + # requires modifying the gene names back + # (pmrA_1_CP055130.1 -> pmrA). + return self._blast_record['qseqid'].split("_")[0] def _get_mutation_positions(self, start): mutation_positions = [] diff --git a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py index 5538b7f..f4e1c37 100644 --- a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py +++ b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py @@ -12,6 +12,16 @@ def __init__(self, file, blast_record): """ super().__init__(file, blast_record) + def get_amr_gene_name(self): + """ + Gets the particular gene name for the PointfinderHitHSPRNA hit. + :return: The gene name. + """ + + # This is explicitly overriding the parent class's function + # because we want to return this gene name without modification. + return self._blast_record['qseqid'] + def _get_mutation_positions(self, start): mutation_positions = [] diff --git a/staramr/databases/AMRDatabasesManager.py b/staramr/databases/AMRDatabasesManager.py index 046dbf1..5a31963 100644 --- a/staramr/databases/AMRDatabasesManager.py +++ b/staramr/databases/AMRDatabasesManager.py @@ -14,8 +14,8 @@ class AMRDatabasesManager: # Update to commits corresponding to dates listed on (and PlasmidFinder) # As of May 26, 2022 DEFAULT_COMMITS = { - 'resfinder': 'd1e607b8989260c7b6a3fbce8fa3204ecfc09022', # 2024-08-08 - 'pointfinder': '8c694b9f336153e6d618b897b3b4930961521eb8', # 2021-02-01 + 'resfinder': 'd1e607b8989260c7b6a3fbce8fa3204ecfc09022', # 2024-08-06 + 'pointfinder': '694919f59a38980204009e7ade76bf319cb7df0b', # 2024-08-08 'plasmidfinder': 'c18e08c17a5988d4f075fc1171636e47546a323d', # 2023-01-18 } diff --git a/staramr/tests/integration/databases/test_AMRDatabasesManager.py b/staramr/tests/integration/databases/test_AMRDatabasesManager.py index 0944bc5..c99fa0c 100644 --- a/staramr/tests/integration/databases/test_AMRDatabasesManager.py +++ b/staramr/tests/integration/databases/test_AMRDatabasesManager.py @@ -8,7 +8,7 @@ class AMRDatabasesManagerIT(unittest.TestCase): RESFINDER_DEFAULT_COMMIT = 'd1e607b8989260c7b6a3fbce8fa3204ecfc09022' - POINTFINDER_DEFAULT_COMMIT = '8c694b9f336153e6d618b897b3b4930961521eb8' + POINTFINDER_DEFAULT_COMMIT = '694919f59a38980204009e7ade76bf319cb7df0b' PLASMIDFINDER_DEFAULT_COMMIT = 'c18e08c17a5988d4f075fc1171636e47546a323d' def setUp(self): From 931bad02ca3322d73e9f5a74893d238d7a0bcdbf Mon Sep 17 00:00:00 2001 From: Eric Date: Wed, 4 Dec 2024 09:34:11 -0600 Subject: [PATCH 07/25] Whitespaces, gene names. --- .../plasmidfinder/PlasmidfinderBlastDatabase.py | 4 ++-- .../pointfinder/PointfinderBlastDatabase.py | 4 ++-- .../pointfinder/PointfinderDatabaseInfo.py | 2 +- .../nucleotide/PointfinderHitHSPRNA.py | 17 +++++++++++++---- .../integration/detection/test_AMRDetection.py | 8 ++++---- 5 files changed, 22 insertions(+), 13 deletions(-) diff --git a/staramr/blast/plasmidfinder/PlasmidfinderBlastDatabase.py b/staramr/blast/plasmidfinder/PlasmidfinderBlastDatabase.py index f9a2708..481bd03 100644 --- a/staramr/blast/plasmidfinder/PlasmidfinderBlastDatabase.py +++ b/staramr/blast/plasmidfinder/PlasmidfinderBlastDatabase.py @@ -75,8 +75,8 @@ def get_config_table(cls, database_dir: str) -> pd.DataFrame: A Class Method to get the config table from the plasmidfinder database root directory. :return: A DataFrame containing the config table. """ - config = pd.read_csv(path.join(database_dir, 'config'), sep='\t', comment='#', header=None, - names=['db_prefix', 'name', 'description']) + config = pd.read_csv(path.join(database_dir, 'config'), sep=r'\t|\s{4,}', comment='#', header=None, + names=['db_prefix', 'name', 'description'], engine='python') return config @classmethod diff --git a/staramr/blast/pointfinder/PointfinderBlastDatabase.py b/staramr/blast/pointfinder/PointfinderBlastDatabase.py index d018687..e71c3d9 100644 --- a/staramr/blast/pointfinder/PointfinderBlastDatabase.py +++ b/staramr/blast/pointfinder/PointfinderBlastDatabase.py @@ -167,8 +167,8 @@ def get_organisms(cls, database_dir): :param database_dir: The PointFinder database root directory. :return: A list of organisms. """ - config = pd.read_csv(path.join(database_dir, 'config'), sep='\t', comment='#', header=None, - names=['db_prefix', 'name', 'description']) + config = pd.read_csv(path.join(database_dir, 'config'), sep=r'\t|\s{4,}', comment='#', header=None, + names=['db_prefix', 'name', 'description'], engine='python') return config['db_prefix'].tolist() @classmethod diff --git a/staramr/blast/pointfinder/PointfinderDatabaseInfo.py b/staramr/blast/pointfinder/PointfinderDatabaseInfo.py index f6adfbe..a2ce2f5 100644 --- a/staramr/blast/pointfinder/PointfinderDatabaseInfo.py +++ b/staramr/blast/pointfinder/PointfinderDatabaseInfo.py @@ -41,7 +41,7 @@ def from_file(cls, file): line = line.lstrip("#") column_names = line.split() - pointfinder_info = pd.read_csv(file, sep='\t', index_col=False, comment='#', header=None, names=column_names) + pointfinder_info = pd.read_csv(file, sep=r'\t|\s{4,}', index_col=False, comment='#', header=None, names=column_names, engine='python') return cls(pointfinder_info, file) diff --git a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py index f4e1c37..6fb691d 100644 --- a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py +++ b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py @@ -17,10 +17,19 @@ def get_amr_gene_name(self): Gets the particular gene name for the PointfinderHitHSPRNA hit. :return: The gene name. """ - - # This is explicitly overriding the parent class's function - # because we want to return this gene name without modification. - return self._blast_record['qseqid'] + name = self._blast_record['qseqid'] + + # CGE has been changing FASTA record headers to include accession + # numbers, which need to be removed. See PointfinderHitHSP.get_amr_gene_name() + # for more information. Naming schemes are also inconsistent: + # pointfinder/campylobacter/23S.fsa -> 23S_1_LR134511.1 + # pointfinder/neisseria_gonorrhoeae/23S-rRNA-a1.fsa -> 23S-rRNA-a1_1_AE004969.1 + if name.startswith("16S_rrsD"): name = "16S_rrsD" + elif name.startswith("16S"): name = "16S" + elif name.startswith("23S"): name = "23S" + else: name = name.split("_")[0] + + return name def _get_mutation_positions(self, start): mutation_positions = [] diff --git a/staramr/tests/integration/detection/test_AMRDetection.py b/staramr/tests/integration/detection/test_AMRDetection.py index b676f8d..14bb368 100644 --- a/staramr/tests/integration/detection/test_AMRDetection.py +++ b/staramr/tests/integration/detection/test_AMRDetection.py @@ -1226,7 +1226,7 @@ def testPointfinderCampylobacterA70TSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA_1_LR134511.1'].seq.upper(), "records don't match") def testPointfinderCampylobacterA2075GSuccess(self): pointfinder_database = PointfinderBlastDatabase(self.pointfinder_dir, 'campylobacter') @@ -1266,7 +1266,7 @@ def testPointfinderCampylobacterA2075GSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['23S'].seq.upper(), records['23S'].seq.upper(), "records don't match") + self.assertEqual(expected_records['23S'].seq.upper(), records['23S_1_LR134511.1'].seq.upper(), "records don't match") """ def testPointfinderEFaecalisS97NSuccess(self): @@ -1652,7 +1652,7 @@ def testPointfinderEnterococcusFaecium466insSSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['pbp5'].seq.upper(), records['pbp5'].seq.upper().replace('-', ''), "records don't match") + self.assertEqual(expected_records['pbp5'].seq.upper(), records['pbp5_1_AAK43724.1'].seq.upper().replace('-', ''), "records don't match") def testResfinderCGEPredictedPhenotypes(self): file = path.join(self.test_data_dir, "beta-lactam-blaIMP-42-ins-start.fsa") @@ -1711,7 +1711,7 @@ def testPointfinderEcoliD87NSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['gyrA_1_CP073768.1'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records['gyrA_1_CP073768.1'].seq.upper(), records['gyrA_1_CP073768.1'].seq.upper(), "records don't match") From 06b09b882fae08f98f057cad91bd4f039ab0a974 Mon Sep 17 00:00:00 2001 From: Eric Date: Wed, 4 Dec 2024 12:46:32 -0600 Subject: [PATCH 08/25] Promoter names have changed from '_' to '-'. --- .../pointfinder/nucleotide/PointfinderHitHSPPromoter.py | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py index 4d74d3c..66620df 100644 --- a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py +++ b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py @@ -106,14 +106,14 @@ def _parse_database_name(self, database_name): Parses the name of the database in order to obtain the promoter offset. The database name is expected to have the following format: - [GENENAME]_promoter_size_[SIZE]bp + [GENENAME]-promoter-size-[SIZE]bp example: - embA_promoter_size_115bp + embA-promoter-size-115bp """ - tokens = database_name.split("_") # split the name into tokens + tokens = database_name.split("-") # split the name into tokens size_string = tokens[len(tokens) - 1] # get the last token size = int(size_string.replace('bp', '')) # remove the 'bp' and convert to an int From e62c8fd1c8aef5622a43296a34fd6056ad100798 Mon Sep 17 00:00:00 2001 From: Eric Date: Thu, 5 Dec 2024 10:44:21 -0600 Subject: [PATCH 09/25] Promoter fixes. --- .../pointfinder/PointfinderDatabaseInfo.py | 8 ++++++++ .../nucleotide/PointfinderHitHSPPromoter.py | 18 ++++++++++++++++++ .../nucleotide/PointfinderHitHSPRNA.py | 2 +- .../data/ARG_drug_key_pointfinder.tsv | 8 ++++---- .../integration/detection/test_AMRDetection.py | 14 +++++++------- 5 files changed, 38 insertions(+), 12 deletions(-) diff --git a/staramr/blast/pointfinder/PointfinderDatabaseInfo.py b/staramr/blast/pointfinder/PointfinderDatabaseInfo.py index a2ce2f5..526f8b5 100644 --- a/staramr/blast/pointfinder/PointfinderDatabaseInfo.py +++ b/staramr/blast/pointfinder/PointfinderDatabaseInfo.py @@ -107,6 +107,14 @@ def _resistance_table_hacks(self, table): & (table['Gene_ID'].str.contains('16S') == False) & (table['Gene_ID'].str.contains('23S') == False), "Res_codon"].str.replace('[A-Z,]+', self.to_codons, regex=True) + # We need to correct for the mismatch between promter's FASTA record ID + # and the associated gene ID in the resistens-overview.txt file. For example: + # FASTA Record ID: >ampC-promoter_1_CP037449.1 + # Gene ID: ampC_promoter_size_53bp + # The gene ID seems to be derived from the file name (ampC-promoter-size-53bp.fsa), + # although that still contains mismatching hyphens and underscores. + table[['Gene_ID']] = table[['Gene_ID']].replace({r'(.+promoter).+' : r'\1'}, regex=True) + def _get_resistance_codon_match(self, gene, codon_mutation): table = self._pointfinder_info diff --git a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py index 66620df..c035760 100644 --- a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py +++ b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py @@ -1,6 +1,7 @@ from staramr.blast.results.pointfinder.PointfinderHitHSP import PointfinderHitHSP from staramr.blast.results.pointfinder.codon.CodonMutationPosition import CodonMutationPosition from staramr.blast.results.pointfinder.nucleotide.NucleotideMutationPosition import NucleotideMutationPosition +import re class PointfinderHitHSPPromoter(PointfinderHitHSP): @@ -118,3 +119,20 @@ def _parse_database_name(self, database_name): size = int(size_string.replace('bp', '')) # remove the 'bp' and convert to an int self.offset = size + + def get_amr_gene_name(self): + """ + Gets the particular gene name for the PointfinderHitHSPPromoter hit. + :return: The gene name. + """ + name = self._blast_record['qseqid'] + + # CGE has been changing FASTA record headers to include accession + # numbers, which need to be removed. See PointfinderHitHSP.get_amr_gene_name() + # for more information. Furthermore, promoters seem to use the form + # "ampC-promoter", whereas the resistens-overview.txt file expects the form + # "ampC_promoter_size_53bp". + # Ex: ampC-promoter_1_CP037449.1 -> ampC_promoter + name = re.sub(r'(.+promoter).+', r'\1', name) # Grab everything up to and include "promoter" + name = name.replace('-', "_") + return name \ No newline at end of file diff --git a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py index 6fb691d..e5114c9 100644 --- a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py +++ b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py @@ -24,7 +24,7 @@ def get_amr_gene_name(self): # for more information. Naming schemes are also inconsistent: # pointfinder/campylobacter/23S.fsa -> 23S_1_LR134511.1 # pointfinder/neisseria_gonorrhoeae/23S-rRNA-a1.fsa -> 23S-rRNA-a1_1_AE004969.1 - if name.startswith("16S_rrsD"): name = "16S_rrsD" + if name.startswith("16S_rrs"): name = name.split("_")[0] + "_" + name.split("_")[1] elif name.startswith("16S"): name = "16S" elif name.startswith("23S"): name = "23S" else: name = name.split("_")[0] diff --git a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv index 7497875..404cbc8 100644 --- a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv +++ b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv @@ -110,10 +110,10 @@ escherichia_coli 16S_rrsC 794 kasugamicin escherichia_coli 16S_rrsC 926 kasugamicin escherichia_coli 16S_rrsC 1519 kasugamicin escherichia_coli 16S_rrsH 1192 spectinomycin -escherichia_coli ampC_promoter_size_53bp -42 ampicillin,amoxicillin/clavulanic acid,cefoxitin -escherichia_coli ampC_promoter_size_53bp -32 ampicillin,amoxicillin/clavulanic acid,cefoxitin -escherichia_coli ampC_promoter_size_53bp -13 ampicillin,amoxicillin/clavulanic acid,cefoxitin -escherichia_coli ampC_promoter_size_53bp -12 ampicillin,amoxicillin/clavulanic acid,cefoxitin +escherichia_coli ampC_promoter -42 ampicillin,amoxicillin/clavulanic acid,cefoxitin +escherichia_coli ampC_promoter -32 ampicillin,amoxicillin/clavulanic acid,cefoxitin +escherichia_coli ampC_promoter -13 ampicillin,amoxicillin/clavulanic acid,cefoxitin +escherichia_coli ampC_promoter -12 ampicillin,amoxicillin/clavulanic acid,cefoxitin campylobacter gyrA 70 ciprofloxacin,nalidixic acid campylobacter gyrA 85 ciprofloxacin,nalidixic acid campylobacter gyrA 86 ciprofloxacin,nalidixic acid diff --git a/staramr/tests/integration/detection/test_AMRDetection.py b/staramr/tests/integration/detection/test_AMRDetection.py index 14bb368..8df855d 100644 --- a/staramr/tests/integration/detection/test_AMRDetection.py +++ b/staramr/tests/integration/detection/test_AMRDetection.py @@ -476,7 +476,7 @@ def testPointfinderSalmonellaA67PSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA_1_MH933946.1'].seq.upper(), "records don't match") def testPointfinderSalmonellaS83ISuccess(self): pointfinder_database = PointfinderBlastDatabase(self.pointfinder_dir, 'salmonella') @@ -516,7 +516,7 @@ def testPointfinderSalmonellaS83ISuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA_1_MH933946.1'].seq.upper(), "records don't match") def testPointfinderSalmonellaA67PSuccessNoPhenotype(self): pointfinder_database = PointfinderBlastDatabase(self.pointfinder_dir, 'salmonella') @@ -589,7 +589,7 @@ def testPointfinderSalmonellaA67PDelEndSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA_1_MH933946.1'].seq.upper(), "records don't match") def testPointfinderSalmonellaA67PDelEndFailPlength(self): pointfinder_database = PointfinderBlastDatabase(self.pointfinder_dir, 'salmonella') @@ -685,7 +685,7 @@ def testPointfinderSalmonellaA67PReverseComplementSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(path.join(self.test_data_dir, "gyrA-A67P.fsa"), 'fasta')) - self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA_1_MH933946.1'].seq.upper(), "records don't match") def testPointfinderSalmonella_16S_rrSD_C1065T_Success(self): pointfinder_database = PointfinderBlastDatabase(self.pointfinder_dir, 'salmonella') @@ -1392,7 +1392,7 @@ def testPointfinderEscherichiaColiCn42TSuccess(self): pointfinder_results = amr_detection.get_pointfinder_results() self.assertEqual(len(pointfinder_results.index), 1, 'Wrong number of rows in result') - result = pointfinder_results[pointfinder_results['Gene'] == 'ampC_promoter_size_53bp (C-42T)'] + result = pointfinder_results[pointfinder_results['Gene'] == 'ampC_promoter (C-42T)'] self.assertEqual(len(result.index), 1, 'Wrong number of results detected') self.assertEqual(result.index[0], 'ampC_promoter_size_53bp-Cn42T', msg='Wrong file') self.assertEqual(result['Type'].iloc[0], 'nucleotide', msg='Wrong type') @@ -1410,7 +1410,7 @@ def testPointfinderEscherichiaColiCn42TSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['ampC_promoter_size_53bp'].seq.upper(), records['ampC_promoter_size_53bp'].seq.upper(), "records don't match") + self.assertEqual(expected_records['ampC_promoter_size_53bp'].seq.upper(), records['ampC-promoter_1_CP037449.1'].seq.upper(), "records don't match") def testPointfinderMycobacteriumTuberculosisF10ISuccess(self): # F10I @@ -1611,7 +1611,7 @@ def testPointfinderNeisseriaGonorrhoeae78delSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['rpsE'].seq.upper(), records['rpsE'].seq.upper().replace('-', ''), "records don't match") + self.assertEqual(expected_records['rpsE'].seq.upper(), records['rpsE_1_AP023075.1'].seq.upper().replace('-', ''), "records don't match") def testPointfinderEnterococcusFaecium466insSSuccess(self): # Insert a AGC (S) at position 466 (codon coords). From e9badebb32c43411d95c591a2eda05e8c170c0ab Mon Sep 17 00:00:00 2001 From: Eric Date: Thu, 5 Dec 2024 10:58:13 -0600 Subject: [PATCH 10/25] Updating promoter-related tests. --- .../detection/test_AMRDetection.py | 22 +++++++++---------- 1 file changed, 11 insertions(+), 11 deletions(-) diff --git a/staramr/tests/integration/detection/test_AMRDetection.py b/staramr/tests/integration/detection/test_AMRDetection.py index 8df855d..1ea31d1 100644 --- a/staramr/tests/integration/detection/test_AMRDetection.py +++ b/staramr/tests/integration/detection/test_AMRDetection.py @@ -1431,7 +1431,7 @@ def testPointfinderMycobacteriumTuberculosisF10ISuccess(self): pointfinder_results = amr_detection.get_pointfinder_results() self.assertEqual(len(pointfinder_results.index), 1, 'Wrong number of rows in result') - result = pointfinder_results[pointfinder_results['Gene'] == 'ahpC_promoter_size_180bp (F10I)'] + result = pointfinder_results[pointfinder_results['Gene'] == 'ahpC_promoter (F10I)'] self.assertEqual(len(result.index), 1, 'Wrong number of results detected') self.assertEqual(result.index[0], 'ahpC_promoter_size_180bp-F10I', msg='Wrong file') self.assertEqual(result['Type'].iloc[0], 'codon', msg='Wrong type') @@ -1440,7 +1440,7 @@ def testPointfinderMycobacteriumTuberculosisF10ISuccess(self): self.assertAlmostEqual(result['%Identity'].iloc[0], 99.87, places=2, msg='Wrong pid') self.assertAlmostEqual(result['%Overlap'].iloc[0], 100.00, places=2, msg='Wrong overlap') self.assertEqual(result['HSP Length/Total Length'].iloc[0], '768/768', msg='Wrong lengths') - self.assertEqual(result['Predicted Phenotype'].iloc[0], 'unknown[ahpC_promoter_size_180bp (F10I)]', + self.assertEqual(result['Predicted Phenotype'].iloc[0], 'unknown[ahpC_promoter (F10I)]', 'Wrong phenotype') hit_file = path.join(self.outdir.name, 'pointfinder_ahpC_promoter_size_180bp-F10I.fsa') @@ -1449,7 +1449,7 @@ def testPointfinderMycobacteriumTuberculosisF10ISuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['ahpC_promoter_size_180bp'].seq.upper(), records['ahpC_promoter_size_180bp'].seq.upper(), "records don't match") + self.assertEqual(expected_records['ahpC_promoter_size_180bp'].seq.upper(), records['ahpC-promoter_1_CP049108.1'].seq.upper(), "records don't match") def testPointfinderEscherichiaColin13insGSuccess(self): # Insert a G at -13 in the promoter. @@ -1471,7 +1471,7 @@ def testPointfinderEscherichiaColin13insGSuccess(self): pointfinder_results = amr_detection.get_pointfinder_results() self.assertEqual(len(pointfinder_results.index), 1, 'Wrong number of rows in result') - result = pointfinder_results[pointfinder_results['Gene'] == 'ampC_promoter_size_53bp (ins-13G)'] + result = pointfinder_results[pointfinder_results['Gene'] == 'ampC_promoter (ins-13G)'] self.assertEqual(len(result.index), 1, 'Wrong number of results detected') self.assertEqual(result.index[0], 'ampC_promoter_size_53bp-n13insG', msg='Wrong file') self.assertEqual(result['Type'].iloc[0], 'nucleotide', msg='Wrong type') @@ -1489,7 +1489,7 @@ def testPointfinderEscherichiaColin13insGSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['ampC_promoter_size_53bp'].seq.upper(), records['ampC_promoter_size_53bp'].seq.upper(), "records don't match") + self.assertEqual(expected_records['ampC_promoter_size_53bp'].seq.upper(), records['ampC-promoter_1_CP037449.1'].seq.upper(), "records don't match") def testPointfinderEscherichiaColin16insGTSuccess(self): # Insert a GT at -16 in the promoter. @@ -1511,7 +1511,7 @@ def testPointfinderEscherichiaColin16insGTSuccess(self): pointfinder_results = amr_detection.get_pointfinder_results() self.assertEqual(len(pointfinder_results.index), 1, 'Wrong number of rows in result') - result = pointfinder_results[pointfinder_results['Gene'] == 'ampC_promoter_size_53bp (ins-16GT)'] + result = pointfinder_results[pointfinder_results['Gene'] == 'ampC_promoter (ins-16GT)'] self.assertEqual(len(result.index), 1, 'Wrong number of results detected') self.assertEqual(result.index[0], 'ampC_promoter_size_53bp-n16insGT', msg='Wrong file') self.assertEqual(result['Type'].iloc[0], 'nucleotide', msg='Wrong type') @@ -1520,7 +1520,7 @@ def testPointfinderEscherichiaColin16insGTSuccess(self): self.assertAlmostEqual(result['%Identity'].iloc[0], 98.639, places=2, msg='Wrong pid') self.assertAlmostEqual(result['%Overlap'].iloc[0], 101.38, places=2, msg='Wrong overlap') self.assertEqual(result['HSP Length/Total Length'].iloc[0], '147/145', msg='Wrong lengths') - self.assertEqual(result['Predicted Phenotype'].iloc[0], 'unknown[ampC_promoter_size_53bp (ins-16GT)]', + self.assertEqual(result['Predicted Phenotype'].iloc[0], 'unknown[ampC_promoter (ins-16GT)]', 'Wrong phenotype') hit_file = path.join(self.outdir.name, 'pointfinder_ampC_promoter_size_53bp-n16insGT.fsa') @@ -1529,7 +1529,7 @@ def testPointfinderEscherichiaColin16insGTSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['ampC_promoter_size_53bp'].seq.upper(), records['ampC_promoter_size_53bp'].seq.upper(), "records don't match") + self.assertEqual(expected_records['ampC_promoter_size_53bp'].seq.upper(), records['ampC-promoter_1_CP037449.1'].seq.upper(), "records don't match") def testPointfinderNeisseriaGonorrhoeaen57delSuccess(self): # Delete the A nucleotide at -57 in the promoter. @@ -1551,7 +1551,7 @@ def testPointfinderNeisseriaGonorrhoeaen57delSuccess(self): pointfinder_results = amr_detection.get_pointfinder_results() self.assertEqual(len(pointfinder_results.index), 1, 'Wrong number of rows in result') - result = pointfinder_results[pointfinder_results['Gene'] == 'mtrR_promoter_size_66bp (del-57A)'] + result = pointfinder_results[pointfinder_results['Gene'] == 'mtrR_promoter (del-57A)'] self.assertEqual(len(result.index), 1, 'Wrong number of results detected') self.assertEqual(result.index[0], 'mtrR_promoter_size_66bp-n57del', msg='Wrong file') self.assertEqual(result['Type'].iloc[0], 'nucleotide', msg='Wrong type') @@ -1560,7 +1560,7 @@ def testPointfinderNeisseriaGonorrhoeaen57delSuccess(self): self.assertAlmostEqual(result['%Identity'].iloc[0], 99.86, places=2, msg='Wrong pid') self.assertAlmostEqual(result['%Overlap'].iloc[0], 100.0, places=2, msg='Wrong overlap') self.assertEqual(result['HSP Length/Total Length'].iloc[0], '699/699', msg='Wrong lengths') - self.assertEqual(result['Predicted Phenotype'].iloc[0], 'unknown[mtrR_promoter_size_66bp (del-57A)]', + self.assertEqual(result['Predicted Phenotype'].iloc[0], 'unknown[mtrR_promoter (del-57A)]', 'Wrong phenotype') hit_file = path.join(self.outdir.name, 'pointfinder_mtrR_promoter_size_66bp-n57del.fsa') @@ -1569,7 +1569,7 @@ def testPointfinderNeisseriaGonorrhoeaen57delSuccess(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['mtrR_promoter_size_66bp'].seq.upper(), records['mtrR_promoter_size_66bp'].seq.upper().replace('-', ''), "records don't match") + self.assertEqual(expected_records['mtrR_promoter_size_66bp'].seq.upper(), records['mtrR-promoter_1_CP012026.1'].seq.upper().replace('-', ''), "records don't match") def testPointfinderNeisseriaGonorrhoeae78delSuccess(self): # Delete the GTT/V nucleotides/codon at pos 78 (nucleotide coords) / pos 27 (codon coords) From 74f9c6bf059881ef4ac3678e383549d777c73913 Mon Sep 17 00:00:00 2001 From: Eric Date: Fri, 6 Dec 2024 16:44:25 -0600 Subject: [PATCH 11/25] Fixing tests --- .../pointfinder/BlastResultsParserPointfinder.py | 3 ++- .../nucleotide/PointfinderHitHSPRNA.py | 2 +- .../integration/detection/test_AMRDetection.py | 16 ++++++++-------- 3 files changed, 11 insertions(+), 10 deletions(-) diff --git a/staramr/blast/results/pointfinder/BlastResultsParserPointfinder.py b/staramr/blast/results/pointfinder/BlastResultsParserPointfinder.py index fbf7fc9..25766ac 100644 --- a/staramr/blast/results/pointfinder/BlastResultsParserPointfinder.py +++ b/staramr/blast/results/pointfinder/BlastResultsParserPointfinder.py @@ -48,7 +48,8 @@ def __init__(self, file_blast_map, blast_database, pid_threshold, plength_thresh def _create_hit(self, file, database_name, blast_record): logger.debug("database_name=%s", database_name) - if (database_name == '16S_rrsD') or (database_name == '23S'): + if (database_name.startswith('16S_rrs') or database_name.startswith('16S-rrs') \ + or (database_name == '23S')): return PointfinderHitHSPRNA(file, blast_record) elif ('promoter' in database_name): return PointfinderHitHSPPromoter(file, blast_record, database_name) diff --git a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py index e5114c9..1430f93 100644 --- a/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py +++ b/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py @@ -25,7 +25,7 @@ def get_amr_gene_name(self): # pointfinder/campylobacter/23S.fsa -> 23S_1_LR134511.1 # pointfinder/neisseria_gonorrhoeae/23S-rRNA-a1.fsa -> 23S-rRNA-a1_1_AE004969.1 if name.startswith("16S_rrs"): name = name.split("_")[0] + "_" + name.split("_")[1] - elif name.startswith("16S"): name = "16S" + elif name.startswith("16S-rrs"): name = name.split("_")[0].replace("-", "_", 1) # Ex: 16S-rrsD_1_CP049983.1 elif name.startswith("23S"): name = "23S" else: name = name.split("_")[0] diff --git a/staramr/tests/integration/detection/test_AMRDetection.py b/staramr/tests/integration/detection/test_AMRDetection.py index 1ea31d1..366f28a 100644 --- a/staramr/tests/integration/detection/test_AMRDetection.py +++ b/staramr/tests/integration/detection/test_AMRDetection.py @@ -532,7 +532,7 @@ def testPointfinderSalmonellaA67PSuccessNoPhenotype(self): pointfinder_results = amr_detection.get_pointfinder_results() self.assertEqual(len(pointfinder_results.index), 1, 'Wrong number of rows in result') - result = pointfinder_results[pointfinder_results['Gene'] == 'gyrA (A67P)'] + result = pointfinder_results[pointfinder_results['Gene'] == 'gyrA_1_MH933946.1 (A67P)'] self.assertEqual(len(result.index), 1, 'Wrong number of results detected') self.assertEqual(result.index[0], 'gyrA-A67P', msg='Wrong file') self.assertEqual(result['Type'].iloc[0], 'codon', msg='Wrong type') @@ -549,7 +549,7 @@ def testPointfinderSalmonellaA67PSuccessNoPhenotype(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records['gyrA'].seq.upper(), records['gyrA_1_MH933946.1'].seq.upper(), "records don't match") def testPointfinderSalmonellaA67PDelEndSuccess(self): pointfinder_database = PointfinderBlastDatabase(self.pointfinder_dir, 'salmonella') @@ -729,7 +729,7 @@ def testPointfinderSalmonella_16S_rrSD_C1065T_Success(self): self.assertEqual(len(records), 1, 'Wrong number of hit records') expected_records = SeqIO.to_dict(SeqIO.parse(file, 'fasta')) - self.assertEqual(expected_records['16S_rrsD'].seq.upper(), records['16S_rrsD'].seq.upper(), + self.assertEqual(expected_records['16S_rrsD'].seq.upper(), records['16S-rrsD_1_CP049983.1'].seq.upper(), "records don't match") @@ -1016,9 +1016,9 @@ def testResfinderPointfinderSalmonella_16S_C1065T_gyrA_A67_beta_lactam_Success(s records = SeqIO.to_dict(SeqIO.parse(hit_file, 'fasta')) self.assertEqual(len(records), 2, 'Wrong number of hit records') expected_records1 = SeqIO.to_dict(SeqIO.parse(path.join(self.test_data_dir, 'gyrA-A67P.fsa'), 'fasta')) - self.assertEqual(expected_records1['gyrA'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records1['gyrA'].seq.upper(), records['gyrA_1_MH933946.1'].seq.upper(), "records don't match") expected_records2 = SeqIO.to_dict(SeqIO.parse(path.join(self.test_data_dir, '16S_rrsD-1T1065.fsa'), 'fasta')) - self.assertEqual(expected_records2['16S_rrsD'].seq.upper(), records['16S_rrsD'].seq.upper(), + self.assertEqual(expected_records2['16S_rrsD'].seq.upper(), records['16S-rrsD_1_CP049983.1'].seq.upper(), "records don't match") def testResfinderPointfinderSalmonellaExcludeGenesListSuccess(self): @@ -1028,7 +1028,7 @@ def testResfinderPointfinderSalmonellaExcludeGenesListSuccess(self): amr_detection = AMRDetectionResistance(self.resfinder_database, self.resfinder_drug_table, self.cge_drug_table, blast_handler, self.pointfinder_drug_table, pointfinder_database, - output_dir=self.outdir.name, genes_to_exclude=['gyrA']) + output_dir=self.outdir.name, genes_to_exclude=['gyrA_1_MH933946.1']) file = path.join(self.test_data_dir, "16S_gyrA_beta-lactam.fsa") files = [file] @@ -1115,9 +1115,9 @@ def testResfinderPointfinderSalmonella_16Src_C1065T_gyrArc_A67_beta_lactam_Succe records = SeqIO.to_dict(SeqIO.parse(hit_file, 'fasta')) self.assertEqual(len(records), 2, 'Wrong number of hit records') expected_records1 = SeqIO.to_dict(SeqIO.parse(path.join(self.test_data_dir, 'gyrA-A67P.fsa'), 'fasta')) - self.assertEqual(expected_records1['gyrA'].seq.upper(), records['gyrA'].seq.upper(), "records don't match") + self.assertEqual(expected_records1['gyrA'].seq.upper(), records['gyrA_1_MH933946.1'].seq.upper(), "records don't match") expected_records2 = SeqIO.to_dict(SeqIO.parse(path.join(self.test_data_dir, '16S_rrsD-1T1065.fsa'), 'fasta')) - self.assertEqual(expected_records2['16S_rrsD'].seq.upper(), records['16S_rrsD'].seq.upper(), + self.assertEqual(expected_records2['16S_rrsD'].seq.upper(), records['16S-rrsD_1_CP049983.1'].seq.upper(), "records don't match") def testResfinderExcludeNonMatches(self): From 44571ad95e6ce6864e09e89c9435e00256ae9ade Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 10:58:12 -0600 Subject: [PATCH 12/25] Updating test CI --- .github/workflows/ci-test.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/ci-test.yml b/.github/workflows/ci-test.yml index 76c5a92..cd1c2e7 100644 --- a/.github/workflows/ci-test.yml +++ b/.github/workflows/ci-test.yml @@ -61,4 +61,4 @@ jobs: - name: Run Tests shell: bash -l {0} - run: python setup.py test + run: pytest From 9d3874ad97d662983500ea6940219fb56f2638aa Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 11:07:25 -0600 Subject: [PATCH 13/25] Updating test CI --- .github/workflows/ci-test.yml | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/.github/workflows/ci-test.yml b/.github/workflows/ci-test.yml index cd1c2e7..c32fa69 100644 --- a/.github/workflows/ci-test.yml +++ b/.github/workflows/ci-test.yml @@ -61,4 +61,6 @@ jobs: - name: Run Tests shell: bash -l {0} - run: pytest + run: | + pip install pytest + pytest From b583fb45a54a463474be8c6f6561d60cdfb053da Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 14:40:02 -0600 Subject: [PATCH 14/25] Updating drug keys. --- .../data/ARG_drug_key_pointfinder.tsv | 134 +- .../data/ARG_drug_key_resfinder.tsv | 2609 +++++++++-------- 2 files changed, 1372 insertions(+), 1371 deletions(-) diff --git a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv index 404cbc8..46a1425 100644 --- a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv +++ b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv @@ -47,73 +47,73 @@ salmonella parE 514 ciprofloxacin I/R,nalidixic acid salmonella parE 521 ciprofloxacin I/R,nalidixic acid salmonella 16S_rrsD 1065 spectinomycin salmonella 16S_rrsD 1192 spectinomycin -salmonella parC 57 None -salmonella acrB 717 azithromycin -escherichia_coli gyrA 51 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrA 67 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrA 81 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrA 82 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrA 83 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrA 84 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrA 87 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrA 106 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrA 196 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrB 136 aminocoumarin -escherichia_coli gyrB 426 ciprofloxacin I/R,nalidixic acid -escherichia_coli gyrB 447 ciprofloxacin I/R,nalidixic acid -escherichia_coli parC 56 ciprofloxacin I/R,nalidixic acid -escherichia_coli parC 57 None -escherichia_coli parC 60 ciprofloxacin I/R,nalidixic acid -escherichia_coli parC 78 ciprofloxacin I/R,nalidixic acid -escherichia_coli parC 80 ciprofloxacin I/R,nalidixic acid -escherichia_coli parC 84 ciprofloxacin I/R,nalidixic acid -escherichia_coli parC 108 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 416 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 423 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 439 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 444 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 458 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 460 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 464 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 470 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 475 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 476 ciprofloxacin I/R,nalidixic acid -escherichia_coli parE 529 ciprofloxacin I/R,nalidixic acid -escherichia_coli pmrA 39 colistin -escherichia_coli pmrA 81 colistin -escherichia_coli pmrB 161 colistin -escherichia_coli folP 64 sulfisoxazole -escherichia_coli rpoB 146 rifamycin -escherichia_coli rpoB 513 rifamycin -escherichia_coli rpoB 526 rifamycin -escherichia_coli rpoB 529 rifamycin -escherichia_coli rpoB 531 rifamycin -escherichia_coli rpoB 533 rifamycin -escherichia_coli rpoB 563 rifamycin -escherichia_coli rpoB 564 rifamycin -escherichia_coli rpoB 687 rifamycin -escherichia_coli 23S 2059 erythromycin,azithromycin -escherichia_coli 16S_rrsB 523 streptomycin -escherichia_coli 16S_rrsB 527 streptomycin -escherichia_coli 16S_rrsB 528 streptomycin -escherichia_coli 16S_rrsB 964 tetracycline -escherichia_coli 16S_rrsB 1053 tetracycline -escherichia_coli 16S_rrsB 1054 tetracycline -escherichia_coli 16S_rrsB 1055 tetracycline -escherichia_coli 16S_rrsB 1058 tetracycline -escherichia_coli 16S_rrsB 1064 spectinomycin -escherichia_coli 16S_rrsB 1066 spectinomycin -escherichia_coli 16S_rrsB 1068 spectinomycin -escherichia_coli 16S_rrsB 1406 gentamicin,kanamycin,tobramycin -escherichia_coli 16S_rrsB 1408 gentamicin,kanamycin,neomycin,paromomycin -escherichia_coli 16S_rrsC 794 kasugamicin -escherichia_coli 16S_rrsC 926 kasugamicin -escherichia_coli 16S_rrsC 1519 kasugamicin -escherichia_coli 16S_rrsH 1192 spectinomycin -escherichia_coli ampC_promoter -42 ampicillin,amoxicillin/clavulanic acid,cefoxitin -escherichia_coli ampC_promoter -32 ampicillin,amoxicillin/clavulanic acid,cefoxitin -escherichia_coli ampC_promoter -13 ampicillin,amoxicillin/clavulanic acid,cefoxitin -escherichia_coli ampC_promoter -12 ampicillin,amoxicillin/clavulanic acid,cefoxitin +salmonella parC 57 +salmonella acrB 171 azithromycin +e.coli gyrA 51 ciprofloxacin I/R,nalidixic acid +e.coli gyrA 67 ciprofloxacin I/R,nalidixic acid +e.coli gyrA 81 ciprofloxacin I/R,nalidixic acid +e.coli gyrA 82 ciprofloxacin I/R,nalidixic acid +e.coli gyrA 83 ciprofloxacin I/R,nalidixic acid +e.coli gyrA 84 ciprofloxacin I/R,nalidixic acid +e.coli gyrA 87 ciprofloxacin I/R,nalidixic acid +e.coli gyrA 106 ciprofloxacin I/R,nalidixic acid +e.coli gyrA 196 ciprofloxacin I/R,nalidixic acid +e.coli gyrB 136 aminocoumarin +e.coli gyrB 426 ciprofloxacin I/R,nalidixic acid +e.coli gyrB 447 ciprofloxacin I/R,nalidixic acid +e.coli parC 56 ciprofloxacin I/R,nalidixic acid +e.coli parC 57 +e.coli parC 60 ciprofloxacin I/R,nalidixic acid +e.coli parC 78 ciprofloxacin I/R,nalidixic acid +e.coli parC 80 ciprofloxacin I/R,nalidixic acid +e.coli parC 84 ciprofloxacin I/R,nalidixic acid +e.coli parC 108 ciprofloxacin I/R,nalidixic acid +e.coli parE 416 ciprofloxacin I/R,nalidixic acid +e.coli parE 423 ciprofloxacin I/R,nalidixic acid +e.coli parE 439 ciprofloxacin I/R,nalidixic acid +e.coli parE 444 ciprofloxacin I/R,nalidixic acid +e.coli parE 458 ciprofloxacin I/R,nalidixic acid +e.coli parE 460 ciprofloxacin I/R,nalidixic acid +e.coli parE 464 ciprofloxacin I/R,nalidixic acid +e.coli parE 470 ciprofloxacin I/R,nalidixic acid +e.coli parE 475 ciprofloxacin I/R,nalidixic acid +e.coli parE 476 ciprofloxacin I/R,nalidixic acid +e.coli parE 529 ciprofloxacin I/R,nalidixic acid +e.coli pmrA 39 colistin +e.coli pmrA 81 colistin +e.coli pmrB 161 colistin +e.coli folP 64 sulfisoxazole +e.coli rpoB 146 rifamycin +e.coli rpoB 513 rifamycin +e.coli rpoB 526 rifamycin +e.coli rpoB 529 rifamycin +e.coli rpoB 531 rifamycin +e.coli rpoB 533 rifamycin +e.coli rpoB 563 rifamycin +e.coli rpoB 564 rifamycin +e.coli rpoB 687 rifamycin +e.coli 23S 2059 erythromycin,azithromycin +e.coli 16S_rrsB 523 streptomycin +e.coli 16S_rrsB 527 streptomycin +e.coli 16S_rrsB 528 streptomycin +e.coli 16S_rrsB 964 tetracycline +e.coli 16S_rrsB 1053 tetracycline +e.coli 16S_rrsB 1054 tetracycline +e.coli 16S_rrsB 1055 tetracycline +e.coli 16S_rrsB 1058 tetracycline +e.coli 16S_rrsB 1064 spectinomycin +e.coli 16S_rrsB 1066 spectinomycin +e.coli 16S_rrsB 1068 spectinomycin +e.coli 16S_rrsB 1406 gentamicin,kanamycin,tobramycin +e.coli 16S_rrsB 1408 gentamicin,kanamycin,neomycin,paromomycin +e.coli 16S_rrsC 794 kasugamicin +e.coli 16S_rrsC 926 kasugamicin +e.coli 16S_rrsC 1519 kasugamicin +e.coli 16S_rrsH 1192 spectinomycin +e.coli ampC_promoter_size_53bp -42 ampicillin,amoxicillin/clavulanic acid,cefoxitin +e.coli ampC_promoter_size_53bp -32 ampicillin,amoxicillin/clavulanic acid,cefoxitin +e.coli ampC_promoter_size_53bp -13 ampicillin,amoxicillin/clavulanic acid,cefoxitin +e.coli ampC_promoter_size_53bp -12 ampicillin,amoxicillin/clavulanic acid,cefoxitin campylobacter gyrA 70 ciprofloxacin,nalidixic acid campylobacter gyrA 85 ciprofloxacin,nalidixic acid campylobacter gyrA 86 ciprofloxacin,nalidixic acid diff --git a/staramr/databases/resistance/data/ARG_drug_key_resfinder.tsv b/staramr/databases/resistance/data/ARG_drug_key_resfinder.tsv index 2bfef94..8f323cc 100644 --- a/staramr/databases/resistance/data/ARG_drug_key_resfinder.tsv +++ b/staramr/databases/resistance/data/ARG_drug_key_resfinder.tsv @@ -125,7 +125,7 @@ aminoglycoside aac(3)-Xa_1 AB028210 amikacin aminoglycoside aac(6')-Ia_1 M18967 amikacin,tobramycin aminoglycoside aac(6')-Ib_1 M21682 amikacin,gentamicin,kanamycin aminoglycoside aac(6')-Ic_1 M94066 amikacin,tobramycin -aminoglycoside aac(6')-If_1 X55353 amikacin,kanamycin +aminoglycoside aac(6')-If_1 X55353 tobramycin,dibekacin,amikacin,sisomicin,netilmicin aminoglycoside aac(6')-Ig_1 L09246 amikacin,tobramycin aminoglycoside aac(6')-Ih_1 L29044 amikacin,tobramycin aminoglycoside aac(6')-Ij_1 L29045 amikacin,tobramycin @@ -155,7 +155,7 @@ aminoglycoside aac(6')-aph(2'')_1 M13771 amikacin,gentamicin,tobramycin aminoglycoside aac(6')-Isa_1 AB116646 amikacin,tobramycin aminoglycoside aac(6')-Ib3_1 X60321 amikacin,tobramycin aminoglycoside aacA43_1 HQ247816 amikacin,tobramycin -aminoglycoside ant(3'')-Ia_1 X02340 spectinomycin +aminoglycoside ant(3'')-Ia_1 X02340 streptomycin aminoglycoside aadA1_2 FJ591054 streptomycin aminoglycoside aadA1_3 JQ414041 streptomycin aminoglycoside aadA1b_1 M95287 streptomycin @@ -251,35 +251,142 @@ aminoglycoside aac(3)-IIa_4 L22613 gentamicin,tobramycin aminoglycoside aac(3)-IIa_5 FJ012882 gentamicin,tobramycin aminoglycoside aac(3)-IV_1 DQ241380 gentamicin,tobramycin aminoglycoside aac(3)-VIa_2 NC_009838 gentamicin -aminoglycoside aph(3')-Ib_2 AJ744860 None -aminoglycoside ant(9)-Ia_2 M69221 None +aminoglycoside aph(3')-Ib_2 AJ744860 +aminoglycoside ant(9)-Ia_2 M69221 aminoglycoside aadA24_1 DQ677333 streptomycin aminoglycoside aadA8b_1 AY139603 streptomycin aminoglycoside aadA2b_1 D43625 streptomycin aminoglycoside aac(6')-Ii_1 L12710 amikacin,tobramycin -aminoglycoside aac(3)-XI_1 CTEG01000046 None -aminoglycoside aac(3)-VIII_1 AB211959 None -aminoglycoside aac(3)-VIII_2 AJ843080 None -aminoglycoside aac(3)-VIII_3 AJ748131 None +aminoglycoside aac(3)-XI_1 CTEG01000046 +aminoglycoside aac(3)-VIII_1 AB211959 +aminoglycoside aac(3)-VIII_2 AJ843080 +aminoglycoside aac(3)-VIII_3 AJ748131 aminoglycoside kmr_1_ENA ACB88605 amikacin,gentamicin,tobramycin aminoglycoside aadD_2 M19465 amikacin,tobramycin +beta-lactam ampH_1 AJ276031 ampicillin +beta-lactam ampH_2 HQ586946 ampicillin +beta-lactam ampS_1 X80276 ampicillin +beta-lactam blaA_1 DQ424965 ampicillin +beta-lactam blaA_2 AY954728 ampicillin beta-lactam blaACC-1_1 AJ133121 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACC-1_2 HG530658 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaACC-1a_1 AF180953 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaACC-1b_1 AF180955 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaACC-1c_1 AF180959 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaACC-1d_1 ADCU02000001 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACC-2_1 AF180952 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACC-3_1 AF180958 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACC-4_1 GU256641 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACC-4_1 KM087831 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaACC-4_2 EF504260 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaACC-5_1 HE819401 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaACC-7_1 MG028657 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACI-1_1 AJ007350 ampicillin +beta-lactam blaACT-1_1 U58495 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-10_1 JN848330 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-12_1 JX440355 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-14_1 JX440354 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-15_1 JX440356 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-16_1 AB737978 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-2_1 AM076977 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-3_1 EF125013 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-4_2 AJ311172 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-5_1 FJ237369 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-6_1 FJ237366 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-7_1 FJ237368 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaACT-9_1 HQ693810 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaADC-25_1 EF016355 ampicillin +beta-lactam blaAER-1_1 U14748 ampicillin +beta-lactam blaAST-1_1 AF279904 ampicillin +beta-lactam blaB-10_1 AY348325 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-11_1 AY348326 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-12_1 EF595958 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-13_1 EF595959 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-14_1 JN635697 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-2_1 AF189300 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-3_1 AF189301 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-3_2 AF189299 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-5_1 AF189303 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-6_1 AF189302 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-7_1 AF189304 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-8_1 AF189305 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaB-9_1 AY348324 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaBEL-1_1 DQ089809 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaBEL-2_1 FJ666063 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaBEL-3_1 GQ202694 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaBES-1_1 AF234999 ampicillin +beta-lactam blaBIC-1_1 GQ260093 ampicillin +beta-lactam blaBIL-1_1 X74512 ampicillin +beta-lactam blaBKC-1_1 KP689347 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaBRO-1_1 Z54180 ampicillin +beta-lactam blaBRO-2_1 Z54181 ampicillin +beta-lactam blaCARB-1_1 AF313471 ampicillin +beta-lactam blaCARB-10_1 EU850412 ampicillin +beta-lactam blaCARB-11_1 AY008290 ampicillin +beta-lactam blaCARB-12_1 D13210 ampicillin +beta-lactam blaCARB-14_1 JQ364968 ampicillin +beta-lactam blaCARB-16_1 HF953351 ampicillin +beta-lactam blaCARB-17_1 KJ934265 ampicillin +beta-lactam blaCARB-18_1 KJ934266 ampicillin +beta-lactam blaCARB-19_1 KJ934267 ampicillin +beta-lactam blaCARB-2_1 M69058 ampicillin +beta-lactam blaCARB-20_1 NG_054946 ampicillin +beta-lactam blaCARB-21_1 NG_048724 ampicillin +beta-lactam blaCARB-22_1 JYNG01000059 ampicillin +beta-lactam blaCARB-23_1 NG_048726 ampicillin +beta-lactam blaCARB-24_1 BK008907 ampicillin +beta-lactam blaCARB-25_1 BK008888 ampicillin +beta-lactam blaCARB-26_1 BK008904 ampicillin +beta-lactam blaCARB-27_1 NG_048730 ampicillin +beta-lactam blaCARB-28_1 BK008906 ampicillin +beta-lactam blaCARB-29_1 BK008905 ampicillin +beta-lactam blaCARB-3_1 S46063 ampicillin +beta-lactam blaCARB-30_1 NG_048734 ampicillin +beta-lactam blaCARB-31_1 NG_048735 ampicillin +beta-lactam blaCARB-32_1 NG_048736 ampicillin +beta-lactam blaCARB-33_1 BK008903 ampicillin +beta-lactam blaCARB-34_1 NG_048738 ampicillin +beta-lactam blaCARB-35_1 BK008900 ampicillin +beta-lactam blaCARB-36_1 LHBD01000022 ampicillin +beta-lactam blaCARB-38_1 BK008898 ampicillin +beta-lactam blaCARB-4_1 FJ785525 ampicillin +beta-lactam blaCARB-40_1 BK008889 ampicillin +beta-lactam blaCARB-41_1 BK008890 ampicillin +beta-lactam blaCARB-42_1 NG_048745 ampicillin +beta-lactam blaCARB-43_1 NG_048746 ampicillin +beta-lactam blaCARB-44_1 JTGS01000066 ampicillin +beta-lactam blaCARB-45_1 JTGR01000061 ampicillin +beta-lactam blaCARB-46_1 NG_048749 ampicillin +beta-lactam blaCARB-47_1 NG050564 ampicillin +beta-lactam blaCARB-48_1 NG050604 ampicillin +beta-lactam blaCARB-49_1 KX599396 ampicillin +beta-lactam blaCARB-5_1 AF135373 ampicillin +beta-lactam blaCARB-50_1 NG_052478 ampicillin +beta-lactam blaCARB-6_1 AF030945 ampicillin +beta-lactam blaCARB-7_1 AF409092 ampicillin +beta-lactam blaCARB-8_1 AY178993 ampicillin +beta-lactam blaCARB-9_1 AY248038 ampicillin +beta-lactam blaCEPH-A3_1 AY112998 ampicillin +beta-lactam blaCFE-1_1 AB107899 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCGB-1_1 EF672680 ampicillin +beta-lactam blaCKO-1_1 AF477396 ampicillin +beta-lactam blaCME-1_1 AJ006275 ampicillin +beta-lactam blaCMG_1 AY265892 ampicillin +beta-lactam blaCMH-3_1 KX192165 ampicillin +beta-lactam blaCMY-1_1 X92508 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-10_1 AF381615 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-100_1 KF526113 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-101_1 KF526114 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-102_1 KF526115 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-103_1 KF526116 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-104_1 KF150216 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-105_1 KJ207205 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-106_1 KM983294 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-107_1 GQ162215 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-108_1 KF564648 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-109_1 AJ746169 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-11_1 AF357599 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-110_1 AB872957 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-111_1 KJ155695 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-112_1 KM087837 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-113_1 KM087836 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone @@ -289,6 +396,7 @@ beta-lactam blaCMY-116_1 KM087840 ampicillin,amoxicillin/clavulanic acid,cefoxit beta-lactam blaCMY-117_1 KM087844 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-118_1 KM087838 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-119_1 KM087845 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-12_1 Y16785 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-121_1 KM507172 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-122_1 KM985460 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-124_1 KM985462 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone @@ -296,6 +404,7 @@ beta-lactam blaCMY-125_1 KM985463 ampicillin,amoxicillin/clavulanic acid,cefoxit beta-lactam blaCMY-127_1 KM985465 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-128_1 KM985466 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-129_1 KM985467 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-13_1 AY339625 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-130_1 KP207589 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-131_1 KP281294 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-132_1 KP862820 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone @@ -304,6 +413,7 @@ beta-lactam blaCMY-134_1 KP860987 ampicillin,amoxicillin/clavulanic acid,cefoxit beta-lactam blaCMY-135_1 KP981366 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-138_1 KT997883 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-139_1 KU641016 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-14_1 AJ555825 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-140_1 KX354367 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-141_1 KX537750 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-142_1 KX881969 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone @@ -314,6 +424,7 @@ beta-lactam blaCMY-146_1 KX034085 ampicillin,amoxicillin/clavulanic acid,cefoxit beta-lactam blaCMY-147_1 KY563765 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-148_1 KY624573 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-149_1 KY624574 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-15_1 AJ555823 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-150_1 QCWX01000028 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-151_1 KY780116 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-152_1 KY978224 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone @@ -321,27 +432,136 @@ beta-lactam blaCMY-153_1 MF042206 ampicillin,amoxicillin/clavulanic acid,cefoxit beta-lactam blaCMY-154_1 MF196231 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-155_1 KR261698 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-156_1 MF770636 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-16_1 AJ781421 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-17_1 AY513266 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-18_1 AY743434 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-19_1 AB194410 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-2_1 X91840 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-20_1 AY960293 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-21_1 DQ139328 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-22_1 DQ256079 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-23_1 DQ438952 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-24_1 EF415650 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-25_1 EU515249 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-26_1 AB300358 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-27_1 EU515250 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-28_1 EF561644 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-29_1 EF685371 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-2b_1 U77414 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-30_1 LMYO01000054 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-31_1 EF622224 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-32_1 EU496815 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-33_1 EU496816 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-34_1 EF394370 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-35_1 EF394371 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-36_1 EU331426 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-37_1 AB280919 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-38_1 AM931008 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-39_1 AB372224 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-4_1 LNHZ01000079 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-40_1 EU515251 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-41_1 AB429270 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-42_1 HM146927 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-43_1 FJ360626 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-44_1 FJ437066 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-45_1 FN546177 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-46_1 FN556186 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-47_1 HM046998 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-48_1 HM569226 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-49_1 GQ402541 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-5_1 Y17716 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-50_1 FN645444 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-51_1 JQ733571 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-53_1 HQ336940 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-54_1 HM544039 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-55_1 HM544040 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-56_1 HQ322613 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-57_1 HQ285243 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-58_1 HQ185697 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-59_1 NG_048854 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-6_1 AJ011293 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-60_1 JF460794 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-61_1 JF460795 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-62_1 JF460796 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-63_1 HQ650104 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-64_1 HQ832678 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-65_1 JF780936 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-66_1 JN714478 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-67_1 JQ711185 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-68_1 JN714480 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-69_1 JX049132 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-7_1 DQ173300 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-70_1 JX440350 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-71_1 JQ711184 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-72_1 JX440352 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-73_1 GQ351345 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-74_1 JX440349 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-75_1 JQ733572 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-76_1 JQ733573 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-77_1 JX440353 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-78_1 JQ733575 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-79_1 JQ733576 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-8_1 AB201268 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-80_1 JQ733577 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-81_1 JQ733578 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-82_1 KJ207203 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-83_1 JX440351 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-84_1 JQ733579 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-85_1 KJ207202 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-86_1 KJ207204 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-87_1 AB699171 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-89_1 HE819403 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-8b_1 DQ094251 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-9_1 AB061794 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-90_1 HE819404 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-93_1 KF992025 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-94_1 JX514368 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-95_1 JX514369 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-96_1 KC007362 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCMY-97_1 KC007363 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-98_1 KC603538 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaCMY-99_1 KF305673 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaCTX-M-1_1 DQ915955 ampicillin,ceftriaxone +beta-lactam blaCTX-M-10_1 AY598759 ampicillin,ceftriaxone +beta-lactam blaCTX-M-100_1 FR682582 ampicillin,ceftriaxone +beta-lactam blaCTX-M-101_1 HQ398214 ampicillin,ceftriaxone +beta-lactam blaCTX-M-102_1 HQ398215 ampicillin,ceftriaxone +beta-lactam blaCTX-M-103_1 HG423149 ampicillin,ceftriaxone +beta-lactam blaCTX-M-104_1 HQ833652 ampicillin,ceftriaxone +beta-lactam blaCTX-M-105_1 HQ833651 ampicillin,ceftriaxone +beta-lactam blaCTX-M-110_1 JF274242 ampicillin,ceftriaxone +beta-lactam blaCTX-M-111_1 JF274243 ampicillin,ceftriaxone +beta-lactam blaCTX-M-112_1 JF274246 ampicillin,ceftriaxone +beta-lactam blaCTX-M-113_1 JF274247 ampicillin,ceftriaxone +beta-lactam blaCTX-M-114_1 GQ351346 ampicillin,ceftriaxone +beta-lactam blaCTX-M-116_1 JF966749 ampicillin,ceftriaxone +beta-lactam blaCTX-M-117_1 JN227085 ampicillin,ceftriaxone +beta-lactam blaCTX-M-12_1 DQ821704 ampicillin,ceftriaxone +beta-lactam blaCTX-M-121_1 JN790862 ampicillin,ceftriaxone beta-lactam blaCTX-M-122_1 JN790863 ampicillin,ceftriaxone +beta-lactam blaCTX-M-123_1 JN790864 ampicillin,ceftriaxone +beta-lactam blaCTX-M-124_1 JQ429324 ampicillin,ceftriaxone +beta-lactam blaCTX-M-125_1 JQ724542 ampicillin,ceftriaxone +beta-lactam blaCTX-M-126_1 AB703103 ampicillin,ceftriaxone beta-lactam blaCTX-M-127_1 MF196229 ampicillin,ceftriaxone +beta-lactam blaCTX-M-129_1 JX017364 ampicillin,ceftriaxone +beta-lactam blaCTX-M-13_2 AF252623 ampicillin,ceftriaxone +beta-lactam blaCTX-M-130_1 JX017365 ampicillin,ceftriaxone +beta-lactam blaCTX-M-131_1 JN969893 ampicillin,ceftriaxone +beta-lactam blaCTX-M-132_1 JX313020 ampicillin,ceftriaxone +beta-lactam blaCTX-M-134_1 JX896165 ampicillin,ceftriaxone +beta-lactam blaCTX-M-136_1 KC351754 ampicillin,ceftriaxone beta-lactam blaCTX-M-137_1 KF790923 ampicillin,ceftriaxone beta-lactam blaCTX-M-138_1 KF526119 ampicillin,ceftriaxone +beta-lactam blaCTX-M-139_1 KC107824 ampicillin,ceftriaxone +beta-lactam blaCTX-M-14_1 AF252622 ampicillin,ceftriaxone beta-lactam blaCTX-M-141_1 KC964871 ampicillin,ceftriaxone +beta-lactam blaCTX-M-142_1 KF240809 ampicillin,ceftriaxone beta-lactam blaCTX-M-144_1 KJ020573 ampicillin,ceftriaxone beta-lactam blaCTX-M-146_1 KY938173 ampicillin,ceftriaxone +beta-lactam blaCTX-M-147_1 KF513180 ampicillin,ceftriaxone beta-lactam blaCTX-M-148_1 KJ020574 ampicillin,ceftriaxone +beta-lactam blaCTX-M-14b_1 DQ359215 ampicillin,ceftriaxone beta-lactam blaCTX-M-15_1 AY044436 ampicillin,ceftriaxone beta-lactam blaCTX-M-150_1 KF769131 ampicillin,ceftriaxone beta-lactam blaCTX-M-151_1 AB916359 ampicillin,ceftriaxone @@ -350,6 +570,7 @@ beta-lactam blaCTX-M-156_1 KM211509 ampicillin,ceftriaxone beta-lactam blaCTX-M-157_1 KM211510 ampicillin,ceftriaxone beta-lactam blaCTX-M-158_1 KM211691 ampicillin,ceftriaxone beta-lactam blaCTX-M-159_1 AB976602 ampicillin,ceftriaxone +beta-lactam blaCTX-M-16_1 AY029068 ampicillin,ceftriaxone beta-lactam blaCTX-M-160_1 KP050493 ampicillin,ceftriaxone beta-lactam blaCTX-M-161_1 KP128034 ampicillin,ceftriaxone beta-lactam blaCTX-M-162_1 KP681697 ampicillin,ceftriaxone @@ -360,6 +581,7 @@ beta-lactam blaCTX-M-166_1 KU978909 ampicillin,ceftriaxone beta-lactam blaCTX-M-167_1 KR537428 ampicillin,ceftriaxone beta-lactam blaCTX-M-168_1 KR537429 ampicillin,ceftriaxone beta-lactam blaCTX-M-169_1 KR779864 ampicillin,ceftriaxone +beta-lactam blaCTX-M-17_1 AY033516 ampicillin,ceftriaxone beta-lactam blaCTX-M-170_1 KR822223 ampicillin,ceftriaxone beta-lactam blaCTX-M-171_1 KT277545 ampicillin,ceftriaxone beta-lactam blaCTX-M-172_1 KT251041 ampicillin,ceftriaxone @@ -377,6 +599,7 @@ beta-lactam blaCTX-M-184_1 KX263247 ampicillin,ceftriaxone beta-lactam blaCTX-M-186_1 KX446939 ampicillin,ceftriaxone beta-lactam blaCTX-M-188_1 KX676491 ampicillin,ceftriaxone beta-lactam blaCTX-M-189_1 FJ657512 ampicillin,ceftriaxone +beta-lactam blaCTX-M-19_1 AF325134 ampicillin,ceftriaxone beta-lactam blaCTX-M-190_1 KX664469 ampicillin,ceftriaxone beta-lactam blaCTX-M-191_1 KY271097 ampicillin,ceftriaxone beta-lactam blaCTX-M-192_1 KY271098 ampicillin,ceftriaxone @@ -387,6 +610,8 @@ beta-lactam blaCTX-M-196_1 KY563769 ampicillin,ceftriaxone beta-lactam blaCTX-M-197_1 KY646303 ampicillin,ceftriaxone beta-lactam blaCTX-M-198_1 KY646304 ampicillin,ceftriaxone beta-lactam blaCTX-M-199_1 KY786032 ampicillin,ceftriaxone +beta-lactam blaCTX-M-2_1 AB176535 ampicillin,ceftriaxone +beta-lactam blaCTX-M-20_1 AJ416344 ampicillin,ceftriaxone beta-lactam blaCTX-M-200_1 KY997188 ampicillin,ceftriaxone beta-lactam blaCTX-M-201_1 KY997189 ampicillin,ceftriaxone beta-lactam blaCTX-M-202_1 MF195067 ampicillin,ceftriaxone @@ -396,6 +621,7 @@ beta-lactam blaCTX-M-206_1 KJ802520 ampicillin,ceftriaxone beta-lactam blaCTX-M-207_1 LC348384 ampicillin,ceftriaxone beta-lactam blaCTX-M-208_1 MH067958 ampicillin,ceftriaxone beta-lactam blaCTX-M-209_1 MH067959 ampicillin,ceftriaxone +beta-lactam blaCTX-M-21_1 AJ416346 ampicillin,ceftriaxone beta-lactam blaCTX-M-210_1 MH067960 ampicillin,ceftriaxone beta-lactam blaCTX-M-211_1 MH067961 ampicillin,ceftriaxone beta-lactam blaCTX-M-212_1 MH067962 ampicillin,ceftriaxone @@ -405,13 +631,92 @@ beta-lactam blaCTX-M-216_1 MH243352 ampicillin,ceftriaxone beta-lactam blaCTX-M-217_1 MH243354 ampicillin,ceftriaxone beta-lactam blaCTX-M-218_1 MH243358 ampicillin,ceftriaxone beta-lactam blaCTX-M-219_1 CP019080 ampicillin,ceftriaxone +beta-lactam blaCTX-M-22_1 AY080894 ampicillin,ceftriaxone beta-lactam blaCTX-M-220_1 MH450163 ampicillin,ceftriaxone +beta-lactam blaCTX-M-23_1 AF488377 ampicillin,ceftriaxone +beta-lactam blaCTX-M-24_1 EF374096 ampicillin,ceftriaxone +beta-lactam blaCTX-M-25_1 AF518567 ampicillin,ceftriaxone +beta-lactam blaCTX-M-26_1 AY157676 ampicillin,ceftriaxone +beta-lactam blaCTX-M-27_1 AY156923 ampicillin,ceftriaxone +beta-lactam blaCTX-M-28_6 AJ549244 ampicillin,ceftriaxone +beta-lactam blaCTX-M-29_1 AY267213 ampicillin,ceftriaxone beta-lactam blaCTX-M-3_1 Y10278 ampicillin,ceftriaxone +beta-lactam blaCTX-M-30_1 AY292654 ampicillin,ceftriaxone +beta-lactam blaCTX-M-31_1 AJ567481 ampicillin,ceftriaxone +beta-lactam blaCTX-M-32_2 AJ557142 ampicillin,ceftriaxone +beta-lactam blaCTX-M-33_1 AY238472 ampicillin,ceftriaxone +beta-lactam blaCTX-M-34_1 AY515297 ampicillin,ceftriaxone +beta-lactam blaCTX-M-35_1 AB176532 ampicillin,ceftriaxone +beta-lactam blaCTX-M-36_1 AB177384 ampicillin,ceftriaxone beta-lactam blaCTX-M-37_1 AY649755 ampicillin,ceftriaxone +beta-lactam blaCTX-M-38_1 AY822595 ampicillin,ceftriaxone +beta-lactam blaCTX-M-39_1 AY954516 ampicillin,ceftriaxone +beta-lactam blaCTX-M-4_1 Y14156 ampicillin,ceftriaxone +beta-lactam blaCTX-M-40_1 AY750914 ampicillin,ceftriaxone +beta-lactam blaCTX-M-41_1 DQ023162 ampicillin,ceftriaxone +beta-lactam blaCTX-M-42_1 DQ061159 ampicillin,ceftriaxone +beta-lactam blaCTX-M-43_1 DQ102702 ampicillin,ceftriaxone +beta-lactam blaCTX-M-44_1 D37830 ampicillin,ceftriaxone +beta-lactam blaCTX-M-46_1 AY847147 ampicillin,ceftriaxone +beta-lactam blaCTX-M-47_1 AY847143 ampicillin,ceftriaxone +beta-lactam blaCTX-M-48_1 AY847144 ampicillin,ceftriaxone +beta-lactam blaCTX-M-49_1 AY847145 ampicillin,ceftriaxone beta-lactam blaCTX-M-5_1 U95364 ampicillin,ceftriaxone -beta-lactam blaCTX-M-55_1 DQ810789 ampicillin,ceftriaxone -beta-lactam blaCTX-M-7_1 AJ005045 ampicillin,ceftriaxone -beta-lactam blaCTX-M-73_1 DQ343292 ampicillin,ceftriaxone +beta-lactam blaCTX-M-50_1 AY847146 ampicillin,ceftriaxone +beta-lactam blaCTX-M-51_1 DQ211987 ampicillin,ceftriaxone +beta-lactam blaCTX-M-52_1 DQ223685 ampicillin,ceftriaxone +beta-lactam blaCTX-M-53_1 DQ268764 ampicillin,ceftriaxone +beta-lactam blaCTX-M-54_1 DQ303459 ampicillin,ceftriaxone +beta-lactam blaCTX-M-55_1 DQ810789 ampicillin,ceftriaxone +beta-lactam blaCTX-M-56_1 EF374097 ampicillin,ceftriaxone +beta-lactam blaCTX-M-58_1 EF210159 ampicillin,ceftriaxone +beta-lactam blaCTX-M-59_1 DQ408762 ampicillin,ceftriaxone +beta-lactam blaCTX-M-6_1 AJ005044 ampicillin,ceftriaxone +beta-lactam blaCTX-M-60_1 AM411407 ampicillin,ceftriaxone +beta-lactam blaCTX-M-61_1 EF219142 ampicillin,ceftriaxone +beta-lactam blaCTX-M-62_1 EF219134 ampicillin,ceftriaxone +beta-lactam blaCTX-M-63_1 AB205197 ampicillin,ceftriaxone +beta-lactam blaCTX-M-63_1 EU660216 ampicillin,ceftriaxone +beta-lactam blaCTX-M-64_1 AB284167 ampicillin,ceftriaxone +beta-lactam blaCTX-M-65_1 EF418608 ampicillin,ceftriaxone +beta-lactam blaCTX-M-66_1 EF576988 ampicillin,ceftriaxone +beta-lactam blaCTX-M-67_1 EF581888 ampicillin,ceftriaxone +beta-lactam blaCTX-M-68_1 EU177100 ampicillin,ceftriaxone +beta-lactam blaCTX-M-69_1 EU402393 ampicillin,ceftriaxone +beta-lactam blaCTX-M-7_1 AJ005045 ampicillin,ceftriaxone +beta-lactam blaCTX-M-71_1 FJ815436 ampicillin,ceftriaxone +beta-lactam blaCTX-M-72_1 AY847148 ampicillin,ceftriaxone +beta-lactam blaCTX-M-73_1 DQ343292 ampicillin,ceftriaxone +beta-lactam blaCTX-M-74_1 GQ149243 ampicillin,ceftriaxone +beta-lactam blaCTX-M-75_1 GQ149244 ampicillin,ceftriaxone +beta-lactam blaCTX-M-76_1 AM982520 ampicillin,ceftriaxone +beta-lactam blaCTX-M-77_1 AM982521 ampicillin,ceftriaxone +beta-lactam blaCTX-M-78_1 AM982522 ampicillin,ceftriaxone +beta-lactam blaCTX-M-79_1 EF426798 ampicillin,ceftriaxone +beta-lactam blaCTX-M-8_1 AF189721 ampicillin,ceftriaxone +beta-lactam blaCTX-M-80_1 EU202673 ampicillin,ceftriaxone +beta-lactam blaCTX-M-81_1 EU136031 ampicillin,ceftriaxone +beta-lactam blaCTX-M-82_1 DQ256091 ampicillin,ceftriaxone +beta-lactam blaCTX-M-83_1 FJ214366 ampicillin,ceftriaxone +beta-lactam blaCTX-M-84_1 FJ214367 ampicillin,ceftriaxone +beta-lactam blaCTX-M-85_1 FJ214368 ampicillin,ceftriaxone +beta-lactam blaCTX-M-86_1 FJ214369 ampicillin,ceftriaxone +beta-lactam blaCTX-M-87_1 EU545409 ampicillin,ceftriaxone +beta-lactam blaCTX-M-88_1 FJ873739 ampicillin,ceftriaxone +beta-lactam blaCTX-M-89_1 FJ971899 ampicillin,ceftriaxone +beta-lactam blaCTX-M-9_1 AF174129 ampicillin,ceftriaxone +beta-lactam blaCTX-M-90_1 FJ907381 ampicillin,ceftriaxone +beta-lactam blaCTX-M-91_1 GQ870432 ampicillin,ceftriaxone +beta-lactam blaCTX-M-92_1 GU127598 ampicillin,ceftriaxone +beta-lactam blaCTX-M-93_1 HQ166709 ampicillin,ceftriaxone +beta-lactam blaCTX-M-94_1 HM167760 ampicillin,ceftriaxone +beta-lactam blaCTX-M-95_1 FN813245 ampicillin,ceftriaxone +beta-lactam blaCTX-M-96_1 AJ704396 ampicillin,ceftriaxone +beta-lactam blaCTX-M-97_1 HM776707 ampicillin,ceftriaxone +beta-lactam blaCTX-M-98_1 HM755448 ampicillin,ceftriaxone +beta-lactam blaCTX-M-99_1 HM803271 ampicillin,ceftriaxone +beta-lactam blaDES-1_1 AF426161 ampicillin +beta-lactam blaDHA-1_1 Y16410 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-10_1 KP050490 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-12_1 HG798963 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-13_1 KM087855 ampicillin,amoxicillin/clavulanic acid,cefoxitin @@ -421,6 +726,7 @@ beta-lactam blaDHA-16_1 KM087852 ampicillin,amoxicillin/clavulanic acid,cefoxiti beta-lactam blaDHA-17_1 KM087850 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-18_1 KM087841 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-19_1 KM087849 ampicillin,amoxicillin/clavulanic acid,cefoxitin +beta-lactam blaDHA-2_1 AF259520 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-20_1 KM087848 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-21_1 KM087847 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-22_1 KM087856 ampicillin,amoxicillin/clavulanic acid,cefoxitin @@ -429,22 +735,144 @@ beta-lactam blaDHA-24_1 KU759569 ampicillin,amoxicillin/clavulanic acid,cefoxiti beta-lactam blaDHA-25_1 KY563770 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-26_1 MH067966 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-27_1 MH067965 ampicillin,amoxicillin/clavulanic acid,cefoxitin +beta-lactam blaDHA-3_1 AY494945 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-4_1 CP026046 ampicillin,amoxicillin/clavulanic acid,cefoxitin +beta-lactam blaDHA-5_1 JF273491 ampicillin,amoxicillin/clavulanic acid,cefoxitin +beta-lactam blaDHA-6_1 HQ322612 ampicillin,amoxicillin/clavulanic acid,cefoxitin +beta-lactam blaDHA-7_1 HQ456945 ampicillin,amoxicillin/clavulanic acid,cefoxitin beta-lactam blaDHA-9_1 KJ207201 ampicillin,amoxicillin/clavulanic acid,cefoxitin +beta-lactam blaDIM-1_1 GU323019 ampicillin +beta-lactam blaEBR-1_1 AF416700 ampicillin +beta-lactam blaERP-1_1 AY077733 ampicillin +beta-lactam blaFAR-1_1 AF024601 ampicillin +beta-lactam blaFONA-1_1 AJ251239 ampicillin +beta-lactam blaFONA-2_1 AJ251240 ampicillin +beta-lactam blaFONA-3_1 AJ251241 ampicillin +beta-lactam blaFONA-4_1 AJ251242 ampicillin +beta-lactam blaFONA-5_1 AJ251243 ampicillin +beta-lactam blaFONA-6_1 AJ251244 ampicillin +beta-lactam blaFOX-1_1 X77455 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-10_1 JX049131 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-2_1 Y10282 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-3_1 Y11068 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-4_1 AJ277535 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-5_1 AY007369 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-6_1 AY034848 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-7_1 AJ703796 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-8_1 HM565917 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFOX-9_1 JF896803 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaFRI-1_1 KT192551 ampicillin,meropenem +beta-lactam blaFRI-1_1 KT192551 ampicillin,meropenem +beta-lactam blaFRI-2_1 KX620467 ampicillin,meropenem +beta-lactam blaFRI-3_1 KY524440 ampicillin,meropenem +beta-lactam blaFRI-4_1 NG_055267 ampicillin,meropenem +beta-lactam blaFRI-5_1 MH208723 ampicillin,meropenem +beta-lactam blaGES-1_1 HQ170511 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-10_1 FJ820124 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-11_1 FJ854362 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-12_1 FN554543 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-13_1 GU169702 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-14_1 GU207844 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-15_1 GU208678 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-16_1 HM173356 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-17_1 HQ874631 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-18_1 JQ028729 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-19_1 JN596280 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-2_1 AF326355 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-20_1 JN596280 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-21_1 JQ772478 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-22_1 JX023441 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-23_1 KF179354 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-3_1 AB113580 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-4_1 AB116723 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-5_1 DQ236171 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-6_1 AY494718 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-7_1 HM453325 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-8_1 AF329699 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGES-9_1 AY920928 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGIM-1_1 JF414726 ampicillin +beta-lactam blaGOB-1_1 EF394442 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-1_2 AF090141 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-10_1 AY647247 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-11_1 AY647248 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-12_1 AY647249 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-13_1 AY647251 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-14_1 AY647252 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-15_1 AY775547 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-16_1 GU188443 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-16_2 AY899331 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-17_1 AY899332 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-18_1 DQ004496 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-2_1 AF189296 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-3_1 AF189291 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-4_1 AF189293 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-5_1 AF189290 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-6_1 AF189292 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-7_1 AF189297 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-8_1 AY348327 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaGOB-9_1 AY647246 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaHERA-1_1 AF311385 ampicillin +beta-lactam blaHERA-2_1 AF398334 ampicillin +beta-lactam blaHERA-3_1 AF398335 ampicillin +beta-lactam blaHERA-4_1 AJ536088 ampicillin +beta-lactam blaHERA-5_1 AJ536089 ampicillin +beta-lactam blaHERA-6_1 AJ536090 ampicillin +beta-lactam blaHERA-8_1 AJ536092 ampicillin +beta-lactam blaIMI-1_1 U50278 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMI-2_1 DQ173429 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMI-3_1 GU015024 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMI-5_1 KT599915 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-1_1 EF027105 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-10_1 AB074435 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-11_1 AB074436 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-12_1 AJ420864 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-13_1 AJ550807 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-14_1 AY553332 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-15_1 AY553333 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-16_1 AJ584652 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-17_1 AJ512502 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-18_1 AY780674 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-19_1 EF118171 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-2_1 AJ243491 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-20_1 AB196988 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-21_1 AB204557 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-22_2 DQ361087 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-23_1 DQ417222 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-24_1 EF192154 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-25_1 EU541448 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-26_1 GU045307 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-27_1 JF894248 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-28_1 JQ407409 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-29_1 HQ438058 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-3_1 AB010417 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-30_1 KM589497 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-31_1 KF148593 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-32_1 JQ002629 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-33_1 JN848782 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-34_1 AB715422 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-35_1 JF816544 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-37_1 JX131372 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-38_1 HQ875573 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-4_1 AF244145 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-4_1 DQ307573 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-40_1 AB753457 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-41_1 AB753458 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-42_1 AB753456 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-43_1 AB777500 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-44_1 AB777501 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-45_1 EU352796 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-48_1 KM087857 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-49_1 KP681694 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-5_1 AF290912 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-51_1 LC031883 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-52_1 LC055762 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-53_1 HM106457 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-54_1 KU052795 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-55_1 KT935306 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-56_1 KU315553 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-58_1 KU647281 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-59_1 KX196782 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-6_1 AB753460 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-60_1 LC159227 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-61_1 KX462700 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-62_1 KX753224 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem @@ -453,14 +881,44 @@ beta-lactam blaIMP-64_1 KX949735 ampicillin,amoxicillin/clavulanic acid,cefoxiti beta-lactam blaIMP-66_1 LC190726 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-67_1 MF281100 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-68_1 MF669572 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-7_1 AF318077 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-70_1 MG748725 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-71_1 MG818167 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-73_1 MH021848 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-74_1 MH243349 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaIMP-75_1 MH243350 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-8_1 DQ845788 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIMP-9_1 FJ655384 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-1_1 AF099139 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-10_1 GU206353 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-11_1 HM245379 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-12_1 HM245380 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-14_1 HM367709 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-15_1 AB563173 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-2_2 AF219127 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-2a_4 AF219130 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-2b_3 EF672681 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-2c_1 GU186042 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-3_1 AF219131 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-4_1 AF219135 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-5_1 AY504627 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-6_1 AM087455 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-7_1 AB529520 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-8_1 GU186044 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaIND-9_1 GU186045 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaJOHN-1_1 AY028464 ampicillin +beta-lactam blaKHM-1_1 AB364006 ampicillin +beta-lactam blaKPC-10_1 GQ140348 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-11_1 HM066995 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-12_1 HQ641422 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-13_1 HQ342889 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-14_1 JX524191 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-15_1 KC433553 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-16_1 KC465199 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-17_1 KC465200 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-18_1 KT884517 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-19_1 KJ775801 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-2_1 AY034847 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-21_1 LN609376 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-22_1 KM379100 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-23_1 MH450213 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem @@ -470,1299 +928,25 @@ beta-lactam blaKPC-26_1 KX619622 ampicillin,amoxicillin/clavulanic acid,cefoxiti beta-lactam blaKPC-27_1 KX828722 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-28_1 KY282958 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-29_1 KY563764 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-3_1 HM769262 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-30_1 KY646302 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-31_1 MAPH01000113 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-32_1 MAPO01000050 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-33_1 CP025144 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-34_1 KU985429 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaKPC-35_1 MH404098 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-19_1 MF370080 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-20_1 KY654092 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-21_1 MG183694 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-22_1 MH243357 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-23_1 MH450214 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-24_1 MH450215 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-102_1 NZ_LWGP01000001 ampicillin -beta-lactam blaOXA-103_1 APQF01000011 ampicillin -beta-lactam blaOXA-114a_1 EU188842 ampicillin -beta-lactam blaOXA-114b_1 HM056040 ampicillin -beta-lactam blaOXA-114c_1 HM056041 ampicillin -beta-lactam blaOXA-114d_1 HM104633 ampicillin -beta-lactam blaOXA-114e_1 HM104634 ampicillin -beta-lactam blaOXA-114f_1 HM368375 ampicillin -beta-lactam blaOXA-114g_1 HM368376 ampicillin -beta-lactam blaOXA-121_1 EU255290 ampicillin -beta-lactam blaOXA-122_1 EU255291 ampicillin -beta-lactam blaOXA-123_1 EU255292 ampicillin -beta-lactam blaOXA-124_1 EU255293 ampicillin -beta-lactam blaOXA-125_1 EU255294 ampicillin -beta-lactam blaOXA-126_1 EU255295 ampicillin -beta-lactam blaOXA-127_1 EU255296 ampicillin -beta-lactam blaOXA-17_1 DQ902344 ampicillin -beta-lactam blaOXA-193_1 CP013032 ampicillin -beta-lactam blaOXA-21_1 AB626885 ampicillin -beta-lactam blaOXA-226_1 FJ617207 ampicillin -beta-lactam blaOXA-233_1 KJ657570 ampicillin -beta-lactam blaOXA-234_1 NG_050607 ampicillin -beta-lactam blaOXA-246_1 EU886980 ampicillin -beta-lactam blaOXA-252_1 NG_050608 ampicillin -beta-lactam blaOXA-259_1 KF057028 ampicillin -beta-lactam blaOXA-260_1 APOR01000009 ampicillin -beta-lactam blaOXA-261_1 APQV01000009 ampicillin -beta-lactam blaOXA-262_1 APRA01000005 ampicillin -beta-lactam blaOXA-263_1 APQY01000006 ampicillin -beta-lactam blaOXA-264_1 APQQ01000012 ampicillin -beta-lactam blaOXA-265_1 APQR01000003 ampicillin -beta-lactam blaOXA-267_1 APQH01000006 ampicillin -beta-lactam blaOXA-268_1 APOE01000008 ampicillin -beta-lactam blaOXA-269_1 APQJ01000007 ampicillin -beta-lactam blaOXA-270_1 APQM01000006 ampicillin -beta-lactam blaOXA-271_1 APQO01000006 ampicillin -beta-lactam blaOXA-272_1 LSAL01000001 ampicillin -beta-lactam blaOXA-273_1 APQN01000012 ampicillin -beta-lactam blaOXA-276_1 APPI01000013 ampicillin -beta-lactam blaOXA-277_1 APPQ01000011 ampicillin -beta-lactam blaOXA-280_1 APPZ01000001 ampicillin -beta-lactam blaOXA-281_1 APON01000041 ampicillin -beta-lactam blaOXA-282_1 APQS01000019 ampicillin -beta-lactam blaOXA-283_1 AYHO01000005 ampicillin -beta-lactam blaOXA-284_1 APRU01000004 ampicillin -beta-lactam blaOXA-285_1 APRY01000059 ampicillin -beta-lactam blaOXA-289_1 APRM01000005 ampicillin -beta-lactam blaOXA-290_1 APOK01000044 ampicillin -beta-lactam blaOXA-300_1 APPK01000054 ampicillin -beta-lactam blaOXA-301_1 APQG01000050 ampicillin -beta-lactam blaOXA-304_1 APSC01000007 ampicillin -beta-lactam blaOXA-305_1 APPF01000021 ampicillin -beta-lactam blaOXA-312_1 KF057029 ampicillin -beta-lactam blaOXA-313_1 KF057030 ampicillin -beta-lactam blaOXA-314_1 KF057031 ampicillin -beta-lactam blaOXA-315_1 KF057032 ampicillin -beta-lactam blaOXA-316_1 KF057033 ampicillin -beta-lactam blaOXA-317_1 KF057034 ampicillin -beta-lactam blaOXA-336_1 KF048907 ampicillin -beta-lactam blaOXA-337_1 KF048908 ampicillin -beta-lactam blaOXA-338_1 KF048909 ampicillin -beta-lactam blaOXA-339_1 KF048911 ampicillin -beta-lactam blaOXA-340_1 KF048912 ampicillin -beta-lactam blaOXA-341_1 KF048913 ampicillin -beta-lactam blaOXA-342_1 KF048915 ampicillin -beta-lactam blaOXA-343_1 KF048916 ampicillin -beta-lactam blaOXA-344_1 KF048917 ampicillin -beta-lactam blaOXA-345_1 KF048918 ampicillin -beta-lactam blaOXA-346_1 KF048919 ampicillin -beta-lactam blaOXA-361_1 KF460531 ampicillin -beta-lactam blaOXA-362_1 KF460532 ampicillin -beta-lactam blaOXA-363_1 KF460533 ampicillin -beta-lactam blaOXA-364_1 JX306689 ampicillin -beta-lactam blaOXA-365_1 KF885217 ampicillin -beta-lactam blaOXA-366_1 KP050485 ampicillin -beta-lactam blaOXA-368_1 KT736121 ampicillin -beta-lactam blaOXA-370_1 KJ488943 ampicillin -beta-lactam blaOXA-373_1 HG931732 ampicillin -beta-lactam blaOXA-374_1 KF986255 ampicillin -beta-lactam blaOXA-375_1 KF986256 ampicillin -beta-lactam blaOXA-376_1 KF986257 ampicillin -beta-lactam blaOXA-377_1 KF986258 ampicillin -beta-lactam blaOXA-378_1 KF986259 ampicillin -beta-lactam blaOXA-379_1 KF986260 ampicillin -beta-lactam blaOXA-380_1 KF986261 ampicillin -beta-lactam blaOXA-381_1 KJ135344 ampicillin -beta-lactam blaOXA-382_1 KJ135345 ampicillin -beta-lactam blaOXA-383_1 KF986262 ampicillin -beta-lactam blaOXA-384_1 KF986263 ampicillin -beta-lactam blaOXA-385_1 KF986253 ampicillin -beta-lactam blaOXA-386_1 KF986254 ampicillin -beta-lactam blaOXA-387_1 KJ173478 ampicillin -beta-lactam blaOXA-388_1 KJ135343 ampicillin -beta-lactam blaOXA-389_1 KJ135346 ampicillin -beta-lactam blaOXA-390_1 KJ135342 ampicillin -beta-lactam blaOXA-391_1 KJ427797 ampicillin -beta-lactam blaOXA-392_1 AB901044 ampicillin -beta-lactam blaOXA-395_1 AY306133 ampicillin -beta-lactam blaOXA-396_1 AY306134 ampicillin -beta-lactam blaOXA-397_1 KM087865 ampicillin -beta-lactam blaOXA-398_1 KM087842 ampicillin -beta-lactam blaOXA-400_1 KJ780078 ampicillin -beta-lactam blaOXA-401_1 KJ780076 ampicillin -beta-lactam blaOXA-402_1 JX865391 ampicillin -beta-lactam blaOXA-403_1 KJ920337 ampicillin -beta-lactam blaOXA-404_1 KJ920338 ampicillin -beta-lactam blaOXA-405_1 KM589641 ampicillin -beta-lactam blaOXA-406_1 KJ584915 ampicillin -beta-lactam blaOXA-407_1 KJ584916 ampicillin -beta-lactam blaOXA-408_1 KJ584917 ampicillin -beta-lactam blaOXA-409_1 KJ584918 ampicillin -beta-lactam blaOXA-410_1 KJ584919 ampicillin -beta-lactam blaOXA-411_1 KJ584920 ampicillin -beta-lactam blaOXA-412_1 KJ584921 ampicillin -beta-lactam blaOXA-413_1 KJ584922 ampicillin -beta-lactam blaOXA-414_1 KJ584914 ampicillin -beta-lactam blaOXA-415_1 KJ865754 ampicillin -beta-lactam blaOXA-416_1 KP264119 ampicillin -beta-lactam blaOXA-417_1 KM220587 ampicillin -beta-lactam blaOXA-418_1 KJ997966 ampicillin -beta-lactam blaOXA-420_1 AB983359 ampicillin -beta-lactam blaOXA-421_1 KM401566 ampicillin -beta-lactam blaOXA-422_1 KM433671 ampicillin -beta-lactam blaOXA-423_1 KM433672 ampicillin -beta-lactam blaOXA-424_1 KM588352 ampicillin -beta-lactam blaOXA-425_1 KM588353 ampicillin -beta-lactam blaOXA-426_1 KM588354 ampicillin -beta-lactam blaOXA-429_1 KM979376 ampicillin -beta-lactam blaOXA-430_1 KM979377 ampicillin -beta-lactam blaOXA-431_1 KM979378 ampicillin -beta-lactam blaOXA-432_1 KM979379 ampicillin -beta-lactam blaOXA-433_1 KM979380 ampicillin -beta-lactam blaOXA-435_1 KP144324 ampicillin -beta-lactam blaOXA-437_1 KP410856 ampicillin -beta-lactam blaOXA-438_1 KP410734 ampicillin -beta-lactam blaOXA-439_1 KP727573 ampicillin -beta-lactam blaOXA-440_1 KP727574 ampicillin -beta-lactam blaOXA-441_1 JX865394 ampicillin -beta-lactam blaOXA-442_1 KP844571 ampicillin -beta-lactam blaOXA-443_1 LC030178 ampicillin -beta-lactam blaOXA-444_1 CP010800 ampicillin -beta-lactam blaOXA-450_1 KR061502 ampicillin -beta-lactam blaOXA-451_1 KR061504 ampicillin -beta-lactam blaOXA-452_1 KR061505 ampicillin -beta-lactam blaOXA-453_1 KR061507 ampicillin -beta-lactam blaOXA-454_1 LC037981 ampicillin -beta-lactam blaOXA-455_1 KP903885 ampicillin -beta-lactam blaOXA-457_1 KP903887 ampicillin -beta-lactam blaOXA-458_1 KP903888 ampicillin -beta-lactam blaOXA-459_1 KP903889 ampicillin -beta-lactam blaOXA-460_1 KR061508 ampicillin -beta-lactam blaOXA-461_1 KR061509 ampicillin -beta-lactam blaOXA-470_1 KR182163 ampicillin -beta-lactam blaOXA-471_1 EU086833 ampicillin -beta-lactam blaOXA-472_1 KR182165 ampicillin -beta-lactam blaOXA-473_1 KR182166 ampicillin -beta-lactam blaOXA-474_1 KR182167 ampicillin -beta-lactam blaOXA-475_1 KR182168 ampicillin -beta-lactam blaOXA-476_1 KR182169 ampicillin -beta-lactam blaOXA-477_1 KR182170 ampicillin -beta-lactam blaOXA-478_1 KR182171 ampicillin -beta-lactam blaOXA-479_1 KR182172 ampicillin -beta-lactam blaOXA-480_1 KR872296 ampicillin -beta-lactam blaOXA-482_1 KP264124 ampicillin -beta-lactam blaOXA-483_1 KP264125 ampicillin -beta-lactam blaOXA-484_1 KR401105 ampicillin -beta-lactam blaOXA-485_1 LLNM01000004 ampicillin -beta-lactam blaOXA-486_1 AY597426 ampicillin -beta-lactam blaOXA-488_1 CP017969 ampicillin -beta-lactam blaOXA-489_1 CP013733 ampicillin -beta-lactam blaOXA-490_1 KU721147 ampicillin -beta-lactam blaOXA-494_1 AY597430 ampicillin -beta-lactam blaOXA-496_1 KT200608 ampicillin -beta-lactam blaOXA-497_1 LKJZ01000136 ampicillin -beta-lactam blaOXA-499_1 KT964029 ampicillin -beta-lactam blaOXA-500_1 JMNQ01000002 ampicillin -beta-lactam blaOXA-501_1 KU167110 ampicillin -beta-lactam blaOXA-502_1 KU167111 ampicillin -beta-lactam blaOXA-503_1 KU167109 ampicillin -beta-lactam blaOXA-505_1 KU531433 ampicillin -beta-lactam blaOXA-506_1 KU571454 ampicillin -beta-lactam blaOXA-507_1 KU551305 ampicillin -beta-lactam blaOXA-508_1 KU596972 ampicillin -beta-lactam blaOXA-509_1 KU692025 ampicillin -beta-lactam blaOXA-510_1 JX865393 ampicillin -beta-lactam blaOXA-511_1 KU710720 ampicillin -beta-lactam blaOXA-512_1 KU726870 ampicillin -beta-lactam blaOXA-513_1 KU323972 ampicillin -beta-lactam blaOXA-514_1 KU866382 ampicillin -beta-lactam blaOXA-515_1 KU866383 ampicillin -beta-lactam blaOXA-516_1 KU871391 ampicillin -beta-lactam blaOXA-517_1 KU878974 ampicillin -beta-lactam blaOXA-519_1 KX349732 ampicillin -beta-lactam blaOXA-520_1 KX388630 ampicillin -beta-lactam blaOXA-521_1 KX462701 ampicillin -beta-lactam blaOXA-522_1 KX599408 ampicillin -beta-lactam blaOXA-523_1 KX599401 ampicillin -beta-lactam blaOXA-524_1 KX599402 ampicillin -beta-lactam blaOXA-525_1 KX599406 ampicillin -beta-lactam blaOXA-526_1 KX599409 ampicillin -beta-lactam blaOXA-527_1 KX599404 ampicillin -beta-lactam blaOXA-528_1 KX599407 ampicillin -beta-lactam blaOXA-529_1 KX599405 ampicillin -beta-lactam blaOXA-530_1 KX599398 ampicillin -beta-lactam blaOXA-531_1 KX599400 ampicillin -beta-lactam blaOXA-532_1 KX609247 ampicillin -beta-lactam blaOXA-533_1 KX668472 ampicillin -beta-lactam blaOXA-534_1 KX714285 ampicillin -beta-lactam blaOXA-535_1 KX828709 ampicillin -beta-lactam blaOXA-536_1 KX859240 ampicillin -beta-lactam blaOXA-537_1 KX360747 ampicillin -beta-lactam blaOXA-538_1 KX827284 ampicillin -beta-lactam blaOXA-539_1 KY094077 ampicillin -beta-lactam blaOXA-540_1 KJ138219 ampicillin -beta-lactam blaOXA-541_1 FM179467 ampicillin -beta-lactam blaOXA-545_1 KY674541 ampicillin -beta-lactam blaOXA-546_1 KY682756 ampicillin -beta-lactam blaOXA-547_1 KY684124 ampicillin -beta-lactam blaOXA-548_1 KY682750 ampicillin -beta-lactam blaOXA-549_1 KY682751 ampicillin -beta-lactam blaOXA-550_1 KY682752 ampicillin -beta-lactam blaOXA-551_1 KY682753 ampicillin -beta-lactam blaOXA-552_1 KY682754 ampicillin -beta-lactam blaOXA-553_1 KY682755 ampicillin -beta-lactam blaOXA-554_1 KY126221 ampicillin -beta-lactam blaOXA-555_1 KY126224 ampicillin -beta-lactam blaOXA-556_1 KY126231 ampicillin -beta-lactam blaOXA-557_1 KY126232 ampicillin -beta-lactam blaOXA-558_1 KY126234 ampicillin -beta-lactam blaOXA-559_1 KY126237 ampicillin -beta-lactam blaOXA-560_1 KY126238 ampicillin -beta-lactam blaOXA-561_1 KY126240 ampicillin -beta-lactam blaOXA-562_1 KY126241 ampicillin -beta-lactam blaOXA-563_1 KY767021 ampicillin -beta-lactam blaOXA-564_1 KY767022 ampicillin -beta-lactam blaOXA-565_1 KY883665 ampicillin -beta-lactam blaOXA-566_1 MF099636 ampicillin -beta-lactam blaOXA-66_1 AY750909 ampicillin -beta-lactam blaOXA-89_1 DQ445683 ampicillin -beta-lactam blaOXA-9_1 KQ089875 ampicillin -beta-lactam blaSHV-102_1 EU024485 ampicillin -beta-lactam blaSHV-111_1 AB372881 ampicillin -beta-lactam blaSHV-119_1 JX192924 ampicillin -beta-lactam blaSHV-180_1 KP050487 ampicillin -beta-lactam blaSHV-182_1 KP050489 ampicillin -beta-lactam blaSHV-183_1 HG934764 ampicillin -beta-lactam blaSHV-185_1 KM233164 ampicillin -beta-lactam blaSHV-186_1 KM233165 ampicillin -beta-lactam blaSHV-187_1 LN515533 ampicillin -beta-lactam blaSHV-188_1 LN515534 ampicillin -beta-lactam blaSHV-189_1 KP050494 ampicillin -beta-lactam blaSHV-190_1 KP868753 ampicillin -beta-lactam blaSHV-191_1 KP868754 ampicillin -beta-lactam blaSHV-193_1 KR347170 ampicillin -beta-lactam blaSHV-194_1 KX421191 ampicillin -beta-lactam blaSHV-195_1 KX619652 ampicillin -beta-lactam blaSHV-196_1 KX714286 ampicillin -beta-lactam blaSHV-197_1 KT946904 ampicillin -beta-lactam blaSHV-198_1 MF281086 ampicillin -beta-lactam blaSHV-199_1 MF373391 ampicillin -beta-lactam blaSHV-200_1 MF871643 ampicillin -beta-lactam blaSHV-203_1 MG028656 ampicillin -beta-lactam blaSHV-204_1 MH243356 ampicillin -beta-lactam blaSHV-3_1 KX092356 ampicillin -beta-lactam blaSHV-32_1 AY037778 ampicillin -beta-lactam blaSHV-9_1 S82452 ampicillin,ceftriaxone -beta-lactam blaTEM-116_1 AY425988 ampicillin -beta-lactam blaTEM-181_1 KM977568 ampicillin -beta-lactam blaTEM-19_1 JX042489 ampicillin -beta-lactam blaTEM-191_1 KY432484 ampicillin -beta-lactam blaTEM-196_1 JQ034306 ampicillin -beta-lactam blaTEM-1A_1 HM749966 ampicillin -beta-lactam blaTEM-1C_1 FJ560503 ampicillin -beta-lactam blaTEM-1D_1 AF188200 ampicillin -beta-lactam blaTEM-2_2 AJ251946 ampicillin -beta-lactam blaTEM-210_1 KJ484630 ampicillin -beta-lactam blaTEM-212_1 KF481968 ampicillin -beta-lactam blaTEM-214_1 KP050491 ampicillin -beta-lactam blaTEM-215_1 KP050492 ampicillin -beta-lactam blaTEM-216_1 KF944358 ampicillin -beta-lactam blaTEM-217_1 HG934763 ampicillin -beta-lactam blaTEM-219_1 KM114268 ampicillin -beta-lactam blaTEM-220_1 KM998962 ampicillin -beta-lactam blaTEM-224_1 KU664545 ampicillin -beta-lactam blaTEM-225_1 KY432403 ampicillin -beta-lactam blaTEM-226_1 KY646301 ampicillin -beta-lactam blaTEM-227_1 KY418040 ampicillin -beta-lactam blaTEM-229_1 MG821356 ampicillin -beta-lactam blaTEM-230_1 MG821377 ampicillin -beta-lactam blaTEM-231_1 MG821378 ampicillin -beta-lactam blaTEM-232_1 MH079593 ampicillin -beta-lactam blaTEM-233_1 MH270416 ampicillin -beta-lactam blaTEM-234_1 MH243353 ampicillin -beta-lactam blaTEM-26_1 LDCJ01000052 ampicillin -beta-lactam blaTEM-32_1 CXLQ01000061 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-35_1 KP860986 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-36_1 KY305958 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-4_1 LK391770 ampicillin -beta-lactam blaTEM-40_1 FR717535 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-52_1 Y13612 ampicillin -beta-lactam blaTEM-9_1 KY271103 ampicillin -beta-lactam blaVIM-39_1 KF131539 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-40_1 HG934765 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-41_1 KP771862 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-42_1 KP071470 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-43_1 KP096412 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-44_1 KP681696 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-45_1 KP681695 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-46_1 KP749829 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-47_1 KT954134 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-48_1 KY362199 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-49_1 KU663374 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-50_1 KU663375 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-51_1 KU746270 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-52_1 KX349731 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-54_1 KY508061 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-56_1 MG834535 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-57_1 MH450217 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaZ_1 CP000704 ampicillin -beta-lactam blaZ_10 FR823292 ampicillin -beta-lactam blaZ_100 LTMH01000008 ampicillin -beta-lactam blaZ_101 LTLP01000099 ampicillin -beta-lactam blaZ_102 MLQA01000023 ampicillin -beta-lactam blaZ_103 FQSJ01000009 ampicillin -beta-lactam blaZ_104 FQHI01000006 ampicillin -beta-lactam blaZ_105 FQJS01000007 ampicillin -beta-lactam blaZ_106 FQHX01000011 ampicillin -beta-lactam blaZ_107 FQDM01000011 ampicillin -beta-lactam blaZ_108 FQPO01000005 ampicillin -beta-lactam blaZ_109 AOAS01000022 ampicillin -beta-lactam blaZ_11 AJ400722 ampicillin -beta-lactam blaZ_110 AJCZ01000013 ampicillin -beta-lactam blaZ_111 AJCN01000010 ampicillin -beta-lactam blaZ_112 AKGL01000044 ampicillin -beta-lactam blaZ_113 AHVS01000008 ampicillin -beta-lactam blaZ_114 NC_013379 ampicillin -beta-lactam blaZ_115 FN433596 ampicillin -beta-lactam blaZ_116 NC_013348 ampicillin -beta-lactam blaZ_117 ACHE01000004 ampicillin -beta-lactam blaZ_118 NC_004461 ampicillin -beta-lactam blaZ_119 NZ_CANQ01000029 ampicillin -beta-lactam blaZ_12 M15195 ampicillin -beta-lactam blaZ_120 NZ_ALWG01000005 ampicillin -beta-lactam blaZ_121 AIWM01000014 ampicillin -beta-lactam blaZ_122 NZ_AJGE01000057 ampicillin -beta-lactam blaZ_123 NC_013653 ampicillin -beta-lactam blaZ_124 NC_013944 ampicillin -beta-lactam blaZ_125 CP003194 ampicillin -beta-lactam blaZ_126 NC_013374 ampicillin -beta-lactam blaZ_127 ACFR01000018 ampicillin -beta-lactam blaZ_128 GQ900471 ampicillin -beta-lactam blaZ_129 CP003194 ampicillin -beta-lactam blaZ_13 KF471116 ampicillin -beta-lactam blaZ_130 AHKZ01000073 ampicillin -beta-lactam blaZ_131 GQ900485 ampicillin -beta-lactam blaZ_132 AHVO01000010 ampicillin -beta-lactam blaZ_133 AIDT01000014 ampicillin -beta-lactam blaZ_134 NZ_AJGE01000047 ampicillin -beta-lactam blaZ_135 AB811795 ampicillin -beta-lactam blaZ_136 NZ_ALWE01000009 ampicillin -beta-lactam blaZ_137 GQ915265 ampicillin -beta-lactam blaZ_138 CP003979 ampicillin -beta-lactam blaZ_14 JBAG01000015 ampicillin -beta-lactam blaZ_15 JAZQ01000018 ampicillin -beta-lactam blaZ_16 JBTH01000015 ampicillin -beta-lactam blaZ_17 JDDF01000008 ampicillin -beta-lactam blaZ_18 JBQW01000016 ampicillin -beta-lactam blaZ_19 JBMK01000007 ampicillin -beta-lactam blaZ_2 CP000731 ampicillin -beta-lactam blaZ_20 JBVX01000014 ampicillin -beta-lactam blaZ_21 JGQH01000014 ampicillin -beta-lactam blaZ_22 JCHI01000035 ampicillin -beta-lactam blaZ_23 JBND01000015 ampicillin -beta-lactam blaZ_24 JBLQ01000018 ampicillin -beta-lactam blaZ_25 JBKK01000017 ampicillin -beta-lactam blaZ_26 JBJP01000007 ampicillin -beta-lactam blaZ_27 JDGZ01000043 ampicillin -beta-lactam blaZ_28 JDYO01000009 ampicillin -beta-lactam blaZ_29 JDXN01000019 ampicillin -beta-lactam blaZ_4 X04121 ampicillin -beta-lactam blaZ_40 NZ_AZBT01000050 ampicillin -beta-lactam blaZ_41 AENR01000015 ampicillin -beta-lactam blaZ_42 CCEE01000006 ampicillin -beta-lactam blaZ_43 NZ_CAVU010000015 ampicillin -beta-lactam blaZ_44 NZ_JWJJ01000015 ampicillin -beta-lactam blaZ_45 CP010941 ampicillin -beta-lactam blaZ_46 CP010944 ampicillin -beta-lactam blaZ_47 NZ_JYGF01000020 ampicillin -beta-lactam blaZ_48 CFPA01000022 ampicillin -beta-lactam blaZ_49 CVLS01000543 ampicillin -beta-lactam blaZ_5 AJ302698 ampicillin -beta-lactam blaZ_50 KR230047 ampicillin -beta-lactam blaZ_51 NZ_JVWO01000108 ampicillin -beta-lactam blaZ_52 NZ_JVWM01000127 ampicillin -beta-lactam blaZ_53 NZ_JUXQ01000001 ampicillin -beta-lactam blaZ_54 NZ_JVRB01000003 ampicillin -beta-lactam blaZ_55 NZ_JVLY01000044 ampicillin -beta-lactam blaZ_56 NZ_JUMU01000089 ampicillin -beta-lactam blaZ_57 NZ_JURP01000126 ampicillin -beta-lactam blaZ_58 NZ_JUUA01000057 ampicillin -beta-lactam blaZ_59 NZ_JVBT01000063 ampicillin -beta-lactam blaZ_6 AP003139 ampicillin -beta-lactam blaZ_60 NZ_JVML01000111 ampicillin -beta-lactam blaZ_61 NZ_JVAT01000021 ampicillin -beta-lactam blaZ_62 NZ_JVOH01000023 ampicillin -beta-lactam blaZ_63 NZ_JUMX01000103 ampicillin -beta-lactam blaZ_64 CSJB01000017 ampicillin -beta-lactam blaZ_65 CSEV01000005 ampicillin -beta-lactam blaZ_66 CSGM01000014 ampicillin -beta-lactam blaZ_67 NZ_CTTL01000039 ampicillin -beta-lactam blaZ_68 NZ_CUHK01000055 ampicillin -beta-lactam blaZ_69 NZ_CUHB01000033 ampicillin -beta-lactam blaZ_7 AP004832 ampicillin -beta-lactam blaZ_70 NZ_CUEK01000047 ampicillin -beta-lactam blaZ_71 NZ_CUGR01000082 ampicillin -beta-lactam blaZ_72 NZ_CUHG01000035 ampicillin -beta-lactam blaZ_73 CYNA01000004 ampicillin -beta-lactam blaZ_74 CZWI01000159 ampicillin -beta-lactam blaZ_75 LNTF01000008 ampicillin -beta-lactam blaZ_76 FFOR01000002 ampicillin -beta-lactam blaZ_77 FGNH01000009 ampicillin -beta-lactam blaZ_78 KU607301 ampicillin -beta-lactam blaZ_79 KU607584 ampicillin -beta-lactam blaZ_8 HE993884 ampicillin -beta-lactam blaZ_80 KU607855 ampicillin -beta-lactam blaZ_81 FGJZ01000020 ampicillin -beta-lactam blaZ_82 FGSJ01000003 ampicillin -beta-lactam blaZ_83 FGWO01000019 ampicillin -beta-lactam blaZ_84 FHDH01000010 ampicillin -beta-lactam blaZ_85 NZ_FHDT01000016 ampicillin -beta-lactam blaZ_86 AIZE01000023 ampicillin -beta-lactam blaZ_87 NZ_LRNC01000042 ampicillin -beta-lactam blaZ_88 FKTX01000011 ampicillin -beta-lactam blaZ_89 FKPS01000007 ampicillin -beta-lactam blaZ_9 DQ269019 ampicillin -beta-lactam blaZ_90 FKVU01000010 ampicillin -beta-lactam blaZ_91 FKQH01000022 ampicillin -beta-lactam blaZ_92 FKWG01000001 ampicillin -beta-lactam blaZ_93 FKQA01000038 ampicillin -beta-lactam blaZ_94 LYRW01000005 ampicillin -beta-lactam blaZ_95 MAJJ01000071 ampicillin -beta-lactam blaZ_96 LNDI01000019 ampicillin -beta-lactam blaZ_97 FMOK01000003 ampicillin -beta-lactam blaZ_98 LTEF01000041 ampicillin -beta-lactam blaZ_99 LTNH01000008 ampicillin -beta-lactam mecA_1 NC_002745 penicillin -beta-lactam mecA_2 NC_002951 penicillin -beta-lactam mecA_3 Y13095 penicillin -beta-lactam mecA_4 AB546266 penicillin -beta-lactam mecA_5 AB546267 penicillin -beta-lactam mecA_6 BX571856 penicillin -beta-lactam mecA_7 HE861945 penicillin -beta-lactam mecA_8 NC_007168 penicillin -beta-lactam mecA_9 AB505630 penicillin -beta-lactam mecA1_1 AB547235 penicillin -beta-lactam mecA1_2 AY820253 penicillin -beta-lactam mecA1_3 Y13094 penicillin -beta-lactam mecA1_4 AB547236 penicillin -beta-lactam mecA1_5 AB547234 penicillin -beta-lactam mecA2_1 AM048811 penicillin -beta-lactam mecA2_2 AB546780 penicillin -beta-lactam mecB_1 NC_011996 penicillin -beta-lactam mecC_1 FR821779 penicillin -beta-lactam mecC_2 FR823292 penicillin -beta-lactam mecC_3 KR732654 penicillin -beta-lactam mecC_4 HG515014 penicillin -beta-lactam mecC2_1 KF955540 penicillin -beta-lactam mecD_1 KY013611 penicillin -beta-lactam blaFRI-1_1 KT192551 ampicillin,meropenem -beta-lactam blaOXA-23_1 AY795964 ampicillin,meropenem -beta-lactam blaOXA-24_1 AJ239129 ampicillin,meropenem -beta-lactam blaOXA-48_1 AY236073 ampicillin,amoxicillin/clavulanic acid,decreased susceptibility to meropenem -beta-lactam blaOXA-51_1 DQ385606 ampicillin,meropenem -beta-lactam blaOXA-58_1 AY665723 ampicillin,meropenem -beta-lactam blaSFC-1_1 AY354402 ampicillin,meropenem -beta-lactam blaCTX-M-10_1 AY598759 ampicillin,ceftriaxone -beta-lactam blaCTX-M-100_1 FR682582 ampicillin,ceftriaxone -beta-lactam blaCTX-M-101_1 HQ398214 ampicillin,ceftriaxone -beta-lactam blaCTX-M-102_1 HQ398215 ampicillin,ceftriaxone -beta-lactam blaCTX-M-103_1 HG423149 ampicillin,ceftriaxone -beta-lactam blaCTX-M-104_1 HQ833652 ampicillin,ceftriaxone -beta-lactam blaCTX-M-105_1 HQ833651 ampicillin,ceftriaxone -beta-lactam blaCTX-M-110_1 JF274242 ampicillin,ceftriaxone -beta-lactam blaCTX-M-111_1 JF274243 ampicillin,ceftriaxone -beta-lactam blaCTX-M-112_1 JF274246 ampicillin,ceftriaxone -beta-lactam blaCTX-M-113_1 JF274247 ampicillin,ceftriaxone -beta-lactam blaCTX-M-114_1 GQ351346 ampicillin,ceftriaxone -beta-lactam blaCTX-M-116_1 JF966749 ampicillin,ceftriaxone -beta-lactam blaCTX-M-117_1 JN227085 ampicillin,ceftriaxone -beta-lactam blaCTX-M-12_1 DQ821704 ampicillin,ceftriaxone -beta-lactam blaCTX-M-121_1 JN790862 ampicillin,ceftriaxone -beta-lactam blaCTX-M-123_1 JN790864 ampicillin,ceftriaxone -beta-lactam blaCTX-M-124_1 JQ429324 ampicillin,ceftriaxone -beta-lactam blaCTX-M-125_1 JQ724542 ampicillin,ceftriaxone -beta-lactam blaCTX-M-126_1 AB703103 ampicillin,ceftriaxone -beta-lactam blaCTX-M-129_1 JX017364 ampicillin,ceftriaxone -beta-lactam blaCTX-M-13_2 AF252623 ampicillin,ceftriaxone -beta-lactam blaCTX-M-130_1 JX017365 ampicillin,ceftriaxone -beta-lactam blaCTX-M-131_1 JN969893 ampicillin,ceftriaxone -beta-lactam blaCTX-M-132_1 JX313020 ampicillin,ceftriaxone -beta-lactam blaCTX-M-134_1 JX896165 ampicillin,ceftriaxone -beta-lactam blaCTX-M-136_1 KC351754 ampicillin,ceftriaxone -beta-lactam blaCTX-M-139_1 KC107824 ampicillin,ceftriaxone -beta-lactam blaCTX-M-14_1 AF252622 ampicillin,ceftriaxone -beta-lactam blaCTX-M-142_1 KF240809 ampicillin,ceftriaxone -beta-lactam blaCTX-M-147_1 KF513180 ampicillin,ceftriaxone -beta-lactam blaCTX-M-14b_1 DQ359215 ampicillin,ceftriaxone -beta-lactam blaCTX-M-16_1 AY029068 ampicillin,ceftriaxone -beta-lactam blaCTX-M-17_1 AY033516 ampicillin,ceftriaxone -beta-lactam blaCTX-M-19_1 AF325134 ampicillin,ceftriaxone -beta-lactam blaCTX-M-2_1 AB176535 ampicillin,ceftriaxone -beta-lactam blaCTX-M-20_1 AJ416344 ampicillin,ceftriaxone -beta-lactam blaCTX-M-21_1 AJ416346 ampicillin,ceftriaxone -beta-lactam blaCTX-M-22_1 AY080894 ampicillin,ceftriaxone -beta-lactam blaCTX-M-23_1 AF488377 ampicillin,ceftriaxone -beta-lactam blaCTX-M-24_1 EF374096 ampicillin,ceftriaxone -beta-lactam blaCTX-M-25_1 AF518567 ampicillin,ceftriaxone -beta-lactam blaCTX-M-26_1 AY157676 ampicillin,ceftriaxone -beta-lactam blaCTX-M-27_1 AY156923 ampicillin,ceftriaxone -beta-lactam blaCTX-M-28_6 AJ549244 ampicillin,ceftriaxone -beta-lactam blaCTX-M-29_1 AY267213 ampicillin,ceftriaxone -beta-lactam blaCTX-M-30_1 AY292654 ampicillin,ceftriaxone -beta-lactam blaCTX-M-31_1 AJ567481 ampicillin,ceftriaxone -beta-lactam blaCTX-M-32_2 AJ557142 ampicillin,ceftriaxone -beta-lactam blaCTX-M-33_1 AY238472 ampicillin,ceftriaxone -beta-lactam blaCTX-M-34_1 AY515297 ampicillin,ceftriaxone -beta-lactam blaCTX-M-35_1 AB176532 ampicillin,ceftriaxone -beta-lactam blaCTX-M-36_1 AB177384 ampicillin,ceftriaxone -beta-lactam blaCTX-M-38_1 AY822595 ampicillin,ceftriaxone -beta-lactam blaCTX-M-39_1 AY954516 ampicillin,ceftriaxone -beta-lactam blaCTX-M-4_1 Y14156 ampicillin,ceftriaxone -beta-lactam blaCTX-M-40_1 AY750914 ampicillin,ceftriaxone -beta-lactam blaCTX-M-41_1 DQ023162 ampicillin,ceftriaxone -beta-lactam blaCTX-M-42_1 DQ061159 ampicillin,ceftriaxone -beta-lactam blaCTX-M-43_1 DQ102702 ampicillin,ceftriaxone -beta-lactam blaCTX-M-44_1 D37830 ampicillin,ceftriaxone -beta-lactam blaCTX-M-46_1 AY847147 ampicillin,ceftriaxone -beta-lactam blaCTX-M-47_1 AY847143 ampicillin,ceftriaxone -beta-lactam blaCTX-M-48_1 AY847144 ampicillin,ceftriaxone -beta-lactam blaCTX-M-49_1 AY847145 ampicillin,ceftriaxone -beta-lactam blaCTX-M-50_1 AY847146 ampicillin,ceftriaxone -beta-lactam blaCTX-M-51_1 DQ211987 ampicillin,ceftriaxone -beta-lactam blaCTX-M-52_1 DQ223685 ampicillin,ceftriaxone -beta-lactam blaCTX-M-53_1 DQ268764 ampicillin,ceftriaxone -beta-lactam blaCTX-M-54_1 DQ303459 ampicillin,ceftriaxone -beta-lactam blaCTX-M-56_1 EF374097 ampicillin,ceftriaxone -beta-lactam blaCTX-M-58_1 EF210159 ampicillin,ceftriaxone -beta-lactam blaCTX-M-59_1 DQ408762 ampicillin,ceftriaxone -beta-lactam blaCTX-M-6_1 AJ005044 ampicillin,ceftriaxone -beta-lactam blaCTX-M-60_1 AM411407 ampicillin,ceftriaxone -beta-lactam blaCTX-M-61_1 EF219142 ampicillin,ceftriaxone -beta-lactam blaCTX-M-62_1 EF219134 ampicillin,ceftriaxone -beta-lactam blaCTX-M-63_1 AB205197 ampicillin,ceftriaxone -beta-lactam blaCTX-M-63_1 EU660216 ampicillin,ceftriaxone -beta-lactam blaCTX-M-64_1 AB284167 ampicillin,ceftriaxone -beta-lactam blaCTX-M-65_1 EF418608 ampicillin,ceftriaxone -beta-lactam blaCTX-M-66_1 EF576988 ampicillin,ceftriaxone -beta-lactam blaCTX-M-67_1 EF581888 ampicillin,ceftriaxone -beta-lactam blaCTX-M-68_1 EU177100 ampicillin,ceftriaxone -beta-lactam blaCTX-M-69_1 EU402393 ampicillin,ceftriaxone -beta-lactam blaCTX-M-71_1 FJ815436 ampicillin,ceftriaxone -beta-lactam blaCTX-M-72_1 AY847148 ampicillin,ceftriaxone -beta-lactam blaCTX-M-74_1 GQ149243 ampicillin,ceftriaxone -beta-lactam blaCTX-M-75_1 GQ149244 ampicillin,ceftriaxone -beta-lactam blaCTX-M-76_1 AM982520 ampicillin,ceftriaxone -beta-lactam blaCTX-M-77_1 AM982521 ampicillin,ceftriaxone -beta-lactam blaCTX-M-78_1 AM982522 ampicillin,ceftriaxone -beta-lactam blaCTX-M-79_1 EF426798 ampicillin,ceftriaxone -beta-lactam blaCTX-M-8_1 AF189721 ampicillin,ceftriaxone -beta-lactam blaCTX-M-80_1 EU202673 ampicillin,ceftriaxone -beta-lactam blaCTX-M-81_1 EU136031 ampicillin,ceftriaxone -beta-lactam blaCTX-M-82_1 DQ256091 ampicillin,ceftriaxone -beta-lactam blaCTX-M-83_1 FJ214366 ampicillin,ceftriaxone -beta-lactam blaCTX-M-84_1 FJ214367 ampicillin,ceftriaxone -beta-lactam blaCTX-M-85_1 FJ214368 ampicillin,ceftriaxone -beta-lactam blaCTX-M-86_1 FJ214369 ampicillin,ceftriaxone -beta-lactam blaCTX-M-87_1 EU545409 ampicillin,ceftriaxone -beta-lactam blaCTX-M-88_1 FJ873739 ampicillin,ceftriaxone -beta-lactam blaCTX-M-89_1 FJ971899 ampicillin,ceftriaxone -beta-lactam blaCTX-M-9_1 AF174129 ampicillin,ceftriaxone -beta-lactam blaCTX-M-90_1 FJ907381 ampicillin,ceftriaxone -beta-lactam blaCTX-M-91_1 GQ870432 ampicillin,ceftriaxone -beta-lactam blaCTX-M-92_1 GU127598 ampicillin,ceftriaxone -beta-lactam blaCTX-M-93_1 HQ166709 ampicillin,ceftriaxone -beta-lactam blaCTX-M-94_1 HM167760 ampicillin,ceftriaxone -beta-lactam blaCTX-M-95_1 FN813245 ampicillin,ceftriaxone -beta-lactam blaCTX-M-96_1 AJ704396 ampicillin,ceftriaxone -beta-lactam blaCTX-M-97_1 HM776707 ampicillin,ceftriaxone -beta-lactam blaCTX-M-98_1 HM755448 ampicillin,ceftriaxone -beta-lactam blaCTX-M-99_1 HM803271 ampicillin,ceftriaxone -beta-lactam blaOXA-11_1 Z22590 ampicillin,ceftriaxone -beta-lactam blaOXA-14_1 KJ420612 ampicillin,ceftriaxone -beta-lactam blaOXA-141_1 EF552405 ampicillin,ceftriaxone -beta-lactam blaOXA-142_1 LC169567 ampicillin,ceftriaxone -beta-lactam blaOXA-145_1 FJ790516 ampicillin,ceftriaxone -beta-lactam blaOXA-147_1 FJ848783 ampicillin,ceftriaxone -beta-lactam blaOXA-15_1 U63835 ampicillin,ceftriaxone -beta-lactam blaOXA-16_1 AF043100 ampicillin,ceftriaxone -beta-lactam blaOXA-161_1 GQ202693 ampicillin,ceftriaxone -beta-lactam blaOXA-19_1 AF043381 ampicillin,ceftriaxone -beta-lactam blaOXA-28_1 AF231133 ampicillin,ceftriaxone -beta-lactam blaOXA-32_1 AF315351 ampicillin,ceftriaxone -beta-lactam blaOXA-35_1 AF315786 ampicillin,ceftriaxone -beta-lactam blaOXA-36_1 AF300985 ampicillin,ceftriaxone -beta-lactam blaOXA-37_1 AY007784 ampicillin,ceftriaxone -beta-lactam blaPER-1_1 GU944725 ampicillin,ceftriaxone -beta-lactam blaPER-2_1 X93314 ampicillin,ceftriaxone -beta-lactam blaPER-3_1 AY740681 ampicillin,ceftriaxone -beta-lactam blaPER-4_1 EU748544 ampicillin,ceftriaxone -beta-lactam blaPER-5_1 FJ627180 ampicillin,ceftriaxone -beta-lactam blaPER-6_1 GQ396303 ampicillin,ceftriaxone -beta-lactam blaPER-7_1 HQ713678 ampicillin,ceftriaxone -beta-lactam blaRAHN-1_1 GU645205 ampicillin,ceftriaxone -beta-lactam blaRAHN-1_2 AF338038 ampicillin,ceftriaxone -beta-lactam blaRAHN-2_2 HM114350 ampicillin,ceftriaxone -beta-lactam blaSHV-100_1 AM941846 ampicillin,ceftriaxone -beta-lactam blaSHV-104_1 EU274581 ampicillin,ceftriaxone -beta-lactam blaSHV-105_1 FJ194944 ampicillin,ceftriaxone -beta-lactam blaSHV-12_1 KF976405 ampicillin,ceftriaxone -beta-lactam blaSHV-13_1 AF164577 ampicillin,ceftriaxone -beta-lactam blaSHV-134_1 HM559945 ampicillin,ceftriaxone -beta-lactam blaSHV-15_1 AJ011428 ampicillin,ceftriaxone -beta-lactam blaSHV-16_1 AF072684 ampicillin,ceftriaxone -beta-lactam blaSHV-18_1 AF132290 ampicillin,ceftriaxone -beta-lactam blaSHV-2_1 AF148851 ampicillin,ceftriaxone -beta-lactam blaSHV-24_1 AB023477 ampicillin,ceftriaxone -beta-lactam blaSHV-2a_1 X98102 ampicillin,ceftriaxone -beta-lactam blaSHV-30_1 AY661885 ampicillin,ceftriaxone -beta-lactam blaSHV-31_1 AY277255 ampicillin,ceftriaxone -beta-lactam blaSHV-38_1 AY079099 ampicillin,ceftriaxone -beta-lactam blaSHV-40_1 AF535128 ampicillin,ceftriaxone -beta-lactam blaSHV-41_1 AF535129 ampicillin,ceftriaxone -beta-lactam blaSHV-42_1 AF535130 ampicillin,ceftriaxone -beta-lactam blaSHV-45_1 AF547625 ampicillin,ceftriaxone -beta-lactam blaSHV-46_1 AY210887 ampicillin,ceftriaxone -beta-lactam blaSHV-5_1 X55640 ampicillin,ceftriaxone -beta-lactam blaSHV-55_1 DQ054528 ampicillin,ceftriaxone -beta-lactam blaSHV-57_1 AY223863 ampicillin,ceftriaxone -beta-lactam blaSHV-64_1 DQ174304 ampicillin,ceftriaxone -beta-lactam blaSHV-66_1 DQ174306 ampicillin,ceftriaxone -beta-lactam blaSHV-7_1 U20270 ampicillin,ceftriaxone -beta-lactam blaSHV-70_1 DQ013287 ampicillin,ceftriaxone -beta-lactam blaSHV-8_1 U92041 ampicillin,ceftriaxone -beta-lactam blaSHV-86_1 DQ328802 ampicillin,ceftriaxone -beta-lactam blaSHV-98_1 AM941844 ampicillin,ceftriaxone -beta-lactam blaSHV-99_1 AM941845 ampicillin,ceftriaxone -beta-lactam blaTEM-10_1 AF093512 ampicillin,ceftriaxone -beta-lactam blaTEM-101_1 AF495873 ampicillin,ceftriaxone -beta-lactam blaTEM-102_1 AY040093 ampicillin,ceftriaxone -beta-lactam blaTEM-106_1 AY101578 ampicillin,ceftriaxone -beta-lactam blaTEM-107_1 AY101764 ampicillin,ceftriaxone -beta-lactam blaTEM-11_1 AY874537 ampicillin,ceftriaxone -beta-lactam blaTEM-112_1 AY589493 ampicillin,ceftriaxone -beta-lactam blaTEM-113_1 AY589494 ampicillin,ceftriaxone -beta-lactam blaTEM-114_1 AY589495 ampicillin,ceftriaxone -beta-lactam blaTEM-115_1 AF535127 ampicillin,ceftriaxone -beta-lactam blaTEM-12_1 M88143 ampicillin,ceftriaxone -beta-lactam blaTEM-120_1 AY243512 ampicillin,ceftriaxone -beta-lactam blaTEM-123_1 AY327539 ampicillin,ceftriaxone -beta-lactam blaTEM-124_1 AY327540 ampicillin,ceftriaxone -beta-lactam blaTEM-126_1 AY628199 ampicillin,ceftriaxone -beta-lactam blaTEM-129_1 AJ746225 ampicillin,ceftriaxone -beta-lactam blaTEM-130_1 AJ866988 ampicillin,ceftriaxone -beta-lactam blaTEM-131_1 AY436361 ampicillin,ceftriaxone -beta-lactam blaTEM-132_1 AY491682 ampicillin,ceftriaxone -beta-lactam blaTEM-133_1 AY528425 ampicillin,ceftriaxone -beta-lactam blaTEM-134_1 AY574271 ampicillin,ceftriaxone -beta-lactam blaTEM-136_1 AY826417 ampicillin,ceftriaxone -beta-lactam blaTEM-137_1 AM286274 ampicillin,ceftriaxone -beta-lactam blaTEM-138_1 AY853593 ampicillin,ceftriaxone -beta-lactam blaTEM-139_1 DQ072853 ampicillin,ceftriaxone -beta-lactam blaTEM-143_1 DQ075245 ampicillin,ceftriaxone -beta-lactam blaTEM-144_1 AM049400 ampicillin,ceftriaxone -beta-lactam blaTEM-147_1 DQ279850 ampicillin,ceftriaxone -beta-lactam blaTEM-149_1 DQ369751 ampicillin,ceftriaxone -beta-lactam blaTEM-15_1 AM849805 ampicillin,ceftriaxone -beta-lactam blaTEM-153_1 KC149518 ampicillin,ceftriaxone -beta-lactam blaTEM-155_1 DQ679961 ampicillin,ceftriaxone -beta-lactam blaTEM-157_1 DQ909059 ampicillin,ceftriaxone -beta-lactam blaTEM-16_1 X65254 ampicillin,ceftriaxone -beta-lactam blaTEM-164_1 EU274580 ampicillin,ceftriaxone -beta-lactam blaTEM-169_1 KP012538 ampicillin,ceftriaxone -beta-lactam blaTEM-17_1 Y14574 ampicillin,ceftriaxone -beta-lactam blaTEM-177_1 FN652295 ampicillin,ceftriaxone -beta-lactam blaTEM-184_1 FR848831 ampicillin,ceftriaxone -beta-lactam blaTEM-187_1 HM246246 ampicillin,ceftriaxone -beta-lactam blaTEM-188_1 JN211012 ampicillin,ceftriaxone -beta-lactam blaTEM-197_1 HQ877606 ampicillin,ceftriaxone -beta-lactam blaTEM-20_1 EU527189 ampicillin,ceftriaxone -beta-lactam blaTEM-207_1 KC818234 ampicillin,ceftriaxone -beta-lactam blaTEM-21_1 Y17582 ampicillin,ceftriaxone -beta-lactam blaTEM-211_1 KF513179 ampicillin,ceftriaxone -beta-lactam blaTEM-22_1 Y17583 ampicillin,ceftriaxone -beta-lactam blaTEM-24_1 GQ293500 ampicillin,ceftriaxone -beta-lactam blaTEM-28_1 U37195 ampicillin,ceftriaxone -beta-lactam blaTEM-29_1 DQ269440 ampicillin,ceftriaxone -beta-lactam blaTEM-3_1 X64523 ampicillin,ceftriaxone -beta-lactam blaTEM-43_1 U95363 ampicillin,ceftriaxone -beta-lactam blaTEM-47_1 Y10279 ampicillin,ceftriaxone -beta-lactam blaTEM-48_1 Y10280 ampicillin,ceftriaxone -beta-lactam blaTEM-49_1 Y10281 ampicillin,ceftriaxone -beta-lactam blaTEM-52B_1 AF027199 ampicillin,ceftriaxone -beta-lactam blaTEM-52C_2 EF141186 ampicillin,ceftriaxone -beta-lactam blaTEM-53_1 AF104441 ampicillin,ceftriaxone -beta-lactam blaTEM-6_1 X57972 ampicillin,ceftriaxone -beta-lactam blaTEM-60_1 AF047171 ampicillin,ceftriaxone -beta-lactam blaTEM-63_1 AF332513 ampicillin,ceftriaxone -beta-lactam blaTEM-8_1 X65252 ampicillin,ceftriaxone -beta-lactam blaTEM-85_1 AJ277414 ampicillin,ceftriaxone -beta-lactam blaTEM-86_1 AJ277415 ampicillin,ceftriaxone -beta-lactam blaTEM-87_1 AF250872 ampicillin,ceftriaxone -beta-lactam blaTEM-88_1 AY027590 ampicillin,ceftriaxone -beta-lactam blaTEM-91_1 AB049569 ampicillin,ceftriaxone -beta-lactam blaTEM-92_1 AF143804 ampicillin,ceftriaxone -beta-lactam blaTEM-93_1 AJ318093 ampicillin,ceftriaxone -beta-lactam blaTEM-94_1 AJ318094 ampicillin,ceftriaxone -beta-lactam blaVEB-1_1 HM370393 ampicillin,ceftriaxone -beta-lactam blaVEB-1_3 DQ393569 ampicillin,ceftriaxone -beta-lactam blaVEB-1_4 AF324834 ampicillin,ceftriaxone -beta-lactam blaVEB-2_1 AY027870 ampicillin,ceftriaxone -beta-lactam blaVEB-3_1 AY536519 ampicillin,ceftriaxone -beta-lactam blaVEB-4_1 EF136375 ampicillin,ceftriaxone -beta-lactam blaVEB-5_1 EF420108 ampicillin,ceftriaxone -beta-lactam blaVEB-6_1 EU259884 ampicillin,ceftriaxone -beta-lactam blaVEB-7_1 FJ825622 ampicillin,ceftriaxone -beta-lactam blaVEB-8_1 JX679208 ampicillin,ceftriaxone -beta-lactam blaTEM-109_1 AY628175 ampicillin,amoxicillin/clavulanic acid,ceftriaxone -beta-lactam blaTEM-121_1 AY307374 ampicillin,amoxicillin/clavulanic acid,ceftriaxone -beta-lactam blaTEM-125_1 AY628176 ampicillin,amoxicillin/clavulanic acid,ceftriaxone -beta-lactam blaTEM-151_1 DQ834729 ampicillin,amoxicillin/clavulanic acid,ceftriaxone -beta-lactam blaTEM-152_1 DQ834728 ampicillin,amoxicillin/clavulanic acid,ceftriaxone -beta-lactam blaTEM-154_1 FJ807656 ampicillin,amoxicillin/clavulanic acid,ceftriaxone -beta-lactam blaTEM-178_1 X97254 ampicillin,amoxicillin/clavulanic acid,ceftriaxone -beta-lactam blaB-10_1 AY348325 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-11_1 AY348326 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-12_1 EF595958 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-13_1 EF595959 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-14_1 JN635697 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-2_1 AF189300 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-3_1 AF189301 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-3_2 AF189299 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-5_1 AF189303 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-6_1 AF189302 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-7_1 AF189304 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-8_1 AF189305 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaB-9_1 AY348324 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaBKC-1_1 KP689347 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-1_1 HQ170511 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-10_1 FJ820124 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-11_1 FJ854362 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-12_1 FN554543 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-13_1 GU169702 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-14_1 GU207844 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-15_1 GU208678 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-16_1 HM173356 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-17_1 HQ874631 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-18_1 JQ028729 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-19_1 JN596280 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-2_1 AF326355 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-20_1 JN596280 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-21_1 JQ772478 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-22_1 JX023441 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-23_1 KF179354 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-3_1 AB113580 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-4_1 AB116723 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-5_1 DQ236171 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-6_1 AY494718 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-7_1 HM453325 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-8_1 AF329699 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGES-9_1 AY920928 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-1_1 EF394442 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-1_2 AF090141 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-10_1 AY647247 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-11_1 AY647248 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-12_1 AY647249 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-13_1 AY647251 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-14_1 AY647252 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-15_1 AY775547 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-16_1 GU188443 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-16_2 AY899331 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-17_1 AY899332 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-18_1 DQ004496 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-2_1 AF189296 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-3_1 AF189291 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-4_1 AF189293 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-5_1 AF189290 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-6_1 AF189292 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-7_1 AF189297 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-8_1 AY348327 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaGOB-9_1 AY647246 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMI-1_1 U50278 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMI-2_1 DQ173429 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMI-3_1 GU015024 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMI-5_1 KT599915 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-1_1 EF027105 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-10_1 AB074435 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-11_1 AB074436 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-12_1 AJ420864 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-13_1 AJ550807 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-14_1 AY553332 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-15_1 AY553333 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-16_1 AJ584652 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-18_1 AY780674 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-19_1 EF118171 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-2_1 AJ243491 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-20_1 AB196988 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-22_2 DQ361087 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-24_1 EF192154 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-25_1 EU541448 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-26_1 GU045307 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-27_1 JF894248 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-28_1 JQ407409 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-29_1 HQ438058 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-3_1 AB010417 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-31_1 KF148593 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-32_1 JQ002629 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-33_1 JN848782 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-34_1 AB715422 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-35_1 JF816544 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-37_1 JX131372 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-38_1 HQ875573 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-4_1 AF244145 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-4_1 DQ307573 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-40_1 AB753457 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-41_1 AB753458 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-42_1 AB753456 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-43_1 AB777500 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-44_1 AB777501 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-5_1 AF290912 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-58_1 KU647281 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-6_1 AB753460 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-7_1 AF318077 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-8_1 DQ845788 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIMP-9_1 FJ655384 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-1_1 AF099139 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-10_1 GU206353 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-11_1 HM245379 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-12_1 HM245380 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-14_1 HM367709 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-15_1 AB563173 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-2_2 AF219127 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-2a_4 AF219130 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-2b_3 EF672681 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-2c_1 GU186042 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-3_1 AF219131 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-4_1 AF219135 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-5_1 AY504627 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-6_1 AM087455 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-7_1 AB529520 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-8_1 GU186044 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaIND-9_1 GU186045 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-10_1 GQ140348 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-11_1 HM066995 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-12_1 HQ641422 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-13_1 HQ342889 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-14_1 JX524191 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-15_1 KC433553 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-16_1 KC465199 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-2_1 AY034847 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-3_1 HM769262 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-4_1 FJ473382 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-5_1 EU400222 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-6_1 EU555534 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-7_1 EU729727 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-8_1 FJ234412 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaKPC-9_1 FJ624872 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-1_1 FN396876 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-10_1 KF361506 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-11_1 KP265939 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-12_1 AB926431 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-13_1 LC012596 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-14_1 KM210086 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-15_1 KP735848 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-16_1 KP862821 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-17_1 KX812714 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-18_1 KY503030 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-2_1 JF703135 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-3_1 JQ734687 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-4_1 JQ348841 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-5_1 JN104597 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-6_1 JN967644 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-7_1 JX262694 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-8_1 AB744718 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaNDM-9_1 KC999080 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-151_1 CP009553 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-152_1 KP771980 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-153_1 KP771981 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-154_1 KP771982 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-155_1 KP771983 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-156_1 KP771984 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-157_1 KP771985 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-158_1 KP771986 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-159_1 KP771987 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-184_1 JQ396378 ampicillin -beta-lactam blaOXA-185_1 JQ396379 ampicillin -beta-lactam blaOXA-266_1 APPO01000008 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-274_1 APOS01000038 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-275_1 APPJ01000001 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-279_1 APOM01000058 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-286_1 APOI01000030 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-288_1 APRN01000033 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-291_1 APRL01000010 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-292_1 APRO01000007 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-294_1 APPC01000015 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-295_1 APRW01000016 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-296_1 APOH01000009 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-297_1 APRR01000006 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaOXA-427_1 KX827604 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaPAM-1_1 AB858498 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaPEDO-1_1 KP109677 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaPEDO-2_1 KP109678 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaPEDO-3_1 KP109679 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaSMB-1_1 AB636283 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaSME-1_1 Z28968 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaSME-2_1 AF275256 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaSME-3_1 AY584237 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaSPG-1_1 KP109680 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaTMB-1_1 FR771847 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaTMB-2_1 AB758277 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVCC-1_1 KT818596 ampicillin,meropenem -beta-lactam blaVIM-1_1 Y18050 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-10_1 AY524989 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-11_1 AY605049 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-12_1 DQ143913 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-13_1 DQ365886 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-14_1 FJ445404 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-15_1 EU419745 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-16_1 EU419746 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-17_1 EU118148 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-18_1 AM778091 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-19_1 FJ499397 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-2_1 AF302086 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-20_1 GQ414736 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-23_1 GQ242167 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-24_1 HM855205 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-25_1 HM750249 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-26_1 FR748153 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-27_1 HQ858608 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-28_1 JF900599 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-29_1 JX311308 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-3_1 AF300454 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-30_1 JN129451 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-31_1 JN982330 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-32_1 JN676230 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-33_1 JX258134 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-34_1 JX013656 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-35_1 JX982634 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-36_1 JX982635 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-37_1 JX982636 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-38_1 KC469971 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-4_1 EU581706 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-5_1 DQ023222 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-6_1 AY165025 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-7_1 AJ536835 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-8_1 AY524987 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaVIM-9_1 AY524988 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA1_1 AB087225 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA10_1 AB087227 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA13_1 FM200787 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA14_1 FM200789 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA2_1 AB087226 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA3_1 AB087228 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA4_1 AB087229 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA6_1 AB087231 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA8_1 AB087233 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam cfiA9_1 AB087234 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam POM-1_1 GU002295 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem -beta-lactam blaACC-1_2 HG530658 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACC-2_1 AF180952 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACC-3_1 AF180958 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACC-4_1 GU256641 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACC-4_1 KM087831 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-1_1 U58495 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-10_1 JN848330 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-12_1 JX440355 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-14_1 JX440354 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-15_1 JX440356 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-16_1 AB737978 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-2_1 AM076977 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-3_1 EF125013 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-4_2 AJ311172 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-5_1 FJ237369 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-6_1 FJ237366 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-7_1 FJ237368 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaACT-9_1 HQ693810 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaBEL-1_1 DQ089809 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaBEL-2_1 FJ666063 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaBEL-3_1 GQ202694 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCFE-1_1 AB107899 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-1_1 X92508 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-10_1 AF381615 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-104_1 KF150216 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-11_1 AF357599 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-110_1 AB872957 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-12_1 Y16785 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-13_1 AY339625 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-14_1 AJ555825 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-15_1 AJ555823 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-16_1 AJ781421 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-17_1 AY513266 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-18_1 AY743434 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-19_1 AB194410 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-2_1 X91840 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-20_1 AY960293 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-21_1 DQ139328 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-22_1 DQ256079 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-23_1 DQ438952 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-24_1 EF415650 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-25_1 EU515249 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-26_1 AB300358 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-27_1 EU515250 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-28_1 EF561644 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-29_1 EF685371 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-30_1 LMYO01000054 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-31_1 EF622224 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-32_1 EU496815 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-33_1 EU496816 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-34_1 EF394370 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-35_1 EF394371 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-36_1 EU331426 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-37_1 AB280919 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-38_1 AM931008 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-39_1 AB372224 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-4_1 LNHZ01000079 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-40_1 EU515251 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-41_1 AB429270 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-42_1 HM146927 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-43_1 FJ360626 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-44_1 FJ437066 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-45_1 FN546177 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-46_1 FN556186 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-47_1 HM046998 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-48_1 HM569226 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-49_1 GQ402541 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-5_1 Y17716 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-51_1 JQ733571 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-53_1 HQ336940 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-54_1 HM544039 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-55_1 HM544040 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-56_1 HQ322613 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-57_1 HQ285243 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-58_1 HQ185697 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-6_1 AJ011293 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-60_1 JF460794 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-61_1 JF460795 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-62_1 JF460796 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-63_1 HQ650104 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-64_1 HQ832678 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-65_1 JF780936 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-66_1 JN714478 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-67_1 JQ711185 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-68_1 JN714480 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-69_1 JX049132 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-7_1 DQ173300 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-70_1 JX440350 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-71_1 JQ711184 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-72_1 JX440352 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-73_1 GQ351345 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-74_1 JX440349 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-75_1 JQ733572 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-76_1 JQ733573 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-77_1 JX440353 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-78_1 JQ733575 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-79_1 JQ733576 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-8_1 AB201268 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-80_1 JQ733577 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-81_1 JQ733578 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-83_1 JX440351 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-84_1 JQ733579 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-87_1 AB699171 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-9_1 AB061794 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-94_1 JX514368 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-95_1 JX514369 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-98_1 KC603538 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaCMY-99_1 KF305673 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-1_1 X77455 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-10_1 JX049131 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-2_1 Y10282 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-3_1 Y11068 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-4_1 AJ277535 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-5_1 AY007369 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-6_1 AY034848 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-7_1 AJ703796 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-8_1 HM565917 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaFOX-9_1 JF896803 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaLAT-1_1 X78117 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMIR-1_1 M37839 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMIR-2_1 AY227752 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMIR-3_1 AY743435 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMIR-4_1 EF417572 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMIR-5_1 FJ237367 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMIR-6_1 JQ664733 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOR_1 Y10283 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOR-2_1 AY235804 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOX-1_1 D13304 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOX-2_1 AJ276453 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOX-3_1 EU515248 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOX-4_1 FJ262599 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOX-5_1 GQ152600 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOX-6_1 GQ152601 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaMOX-7_1 GQ152602 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaOCH-2_1 AJ295340 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaOCH-3_1 AJ295341 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaOCH-4_1 AJ295342 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaOCH-5_1 AJ295343 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaOCH-6_1 AJ295344 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaOCH-7_1 AJ295345 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaOCH-8_1 DQ489307 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaPAO_1 AY083595 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaPAO_2 FJ666065 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaPAO_3 FJ666073 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaPAO_4 AY083592 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone -beta-lactam blaDHA-1_1 Y16410 ampicillin,amoxicillin/clavulanic acid,cefoxitin -beta-lactam blaDHA-2_1 AF259520 ampicillin,amoxicillin/clavulanic acid,cefoxitin -beta-lactam blaDHA-3_1 AY494945 ampicillin,amoxicillin/clavulanic acid,cefoxitin -beta-lactam blaDHA-5_1 JF273491 ampicillin,amoxicillin/clavulanic acid,cefoxitin -beta-lactam blaDHA-6_1 HQ322612 ampicillin,amoxicillin/clavulanic acid,cefoxitin -beta-lactam blaDHA-7_1 HQ456945 ampicillin,amoxicillin/clavulanic acid,cefoxitin -beta-lactam blaSHV-107_1 AM922308 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaSHV-49_1 AY528718 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaSHV-56_1 EU586041 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaSHV-72_1 AM176547 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-30_1 AJ437107 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-33_1 GU371926 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-34_1 KC292503 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-45_1 X95401 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-54_1 AF104442 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-67_1 AF091113 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-76_1 AF190694 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-77_1 AF190695 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-78_1 AF190693 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-79_1 AF190692 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-80_1 AF347054 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-81_1 AF427127 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-82_1 AF427128 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-83_1 AF427129 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-84_1 AF427130 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaOXA-287_1 NG_050609 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaOXA-293_1 NG_050610 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaOXA-307_1 NG_050611 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-122_1 AY307100 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-145_1 DQ105528 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-159_1 EF136376 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-160_1 EF136377 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-182_1 HQ317449 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaTEM-185_1 JF795538 ampicillin,amoxicillin/clavulanic acid -beta-lactam blaCARB-1_1 AF313471 ampicillin -beta-lactam blaCARB-2_1 M69058 ampicillin -beta-lactam blaCARB-3_1 S46063 ampicillin -beta-lactam blaCARB-4_1 FJ785525 ampicillin -beta-lactam blaCARB-5_1 AF135373 ampicillin -beta-lactam blaCARB-6_1 AF030945 ampicillin -beta-lactam blaCARB-7_1 AF409092 ampicillin -beta-lactam blaCARB-8_1 AY178993 ampicillin -beta-lactam blaCARB-9_1 AY248038 ampicillin -beta-lactam blaCARB-10_1 EU850412 ampicillin -beta-lactam blaCARB-11_1 AY008290 ampicillin -beta-lactam blaCARB-12_1 D13210 ampicillin -beta-lactam blaCARB-14_1 JQ364968 ampicillin -beta-lactam blaCARB-16_1 HF953351 ampicillin -beta-lactam blaCARB-17_1 KJ934265 ampicillin -beta-lactam blaCARB-18_1 KJ934266 ampicillin -beta-lactam blaCARB-19_1 KJ934267 ampicillin -beta-lactam blaCARB-20_1 NG_054946 ampicillin -beta-lactam blaCARB-21_1 NG_048724 ampicillin -beta-lactam blaCARB-22_1 JYNG01000059 ampicillin -beta-lactam blaCARB-23_1 NG_048726 ampicillin -beta-lactam blaCARB-24_1 BK008907 ampicillin -beta-lactam blaCARB-25_1 BK008888 ampicillin -beta-lactam blaCARB-26_1 BK008904 ampicillin -beta-lactam blaCARB-27_1 NG_048730 ampicillin -beta-lactam blaCARB-28_1 BK008906 ampicillin -beta-lactam blaCARB-29_1 BK008905 ampicillin -beta-lactam blaCARB-30_1 NG_048734 ampicillin -beta-lactam blaCARB-31_1 NG_048735 ampicillin -beta-lactam blaCARB-32_1 NG_048736 ampicillin -beta-lactam blaCARB-33_1 BK008903 ampicillin -beta-lactam blaCARB-34_1 NG_048738 ampicillin -beta-lactam blaCARB-35_1 BK008900 ampicillin -beta-lactam blaCARB-36_1 LHBD01000022 ampicillin -beta-lactam blaCARB-38_1 BK008898 ampicillin -beta-lactam blaCARB-40_1 BK008889 ampicillin -beta-lactam blaCARB-41_1 BK008890 ampicillin -beta-lactam blaCARB-42_1 NG_048745 ampicillin -beta-lactam blaCARB-43_1 NG_048746 ampicillin -beta-lactam blaCARB-44_1 JTGS01000066 ampicillin -beta-lactam blaCARB-45_1 JTGR01000061 ampicillin -beta-lactam blaCARB-46_1 NG_048749 ampicillin -beta-lactam blaCARB-47_1 NG050564 ampicillin -beta-lactam blaCARB-48_1 NG050604 ampicillin -beta-lactam blaCARB-49_1 KX599396 ampicillin -beta-lactam blaCARB-50_1 NG_052478 ampicillin -beta-lactam blaFRI-1_1 KT192551 ampicillin,meropenem -beta-lactam blaFRI-2_1 KX620467 ampicillin,meropenem -beta-lactam blaFRI-3_1 KY524440 ampicillin,meropenem -beta-lactam blaFRI-4_1 NG_055267 ampicillin,meropenem -beta-lactam blaFRI-5_1 MH208723 ampicillin,meropenem -beta-lactam blaCMH-3_1 KX192165 ampicillin +beta-lactam blaKPC-4_1 FJ473382 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-5_1 EU400222 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-6_1 EU555534 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-7_1 EU729727 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-8_1 FJ234412 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaKPC-9_1 FJ624872 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaL_1 NG050597 ampicillin beta-lactam blaL_2 NG050596 ampicillin -beta-lactam blaOXA-298_1 APSA01000003 ampicillin -beta-lactam blaOXA-299_1 APQD01000016 ampicillin -beta-lactam blaOXA-302_1 APRT01000004 ampicillin -beta-lactam blaOXA-303_1 APSD01000035 ampicillin -beta-lactam blaOXA-306_1 APSB01000022 ampicillin -beta-lactam blaOXA-308_1 APPN01000080 ampicillin -beta-lactam blaOXA-446_1 KR061495 ampicillin -beta-lactam blaOXA-447_1 KR061496 ampicillin -beta-lactam blaOXA-448_1 KR061497 ampicillin -beta-lactam blaOXA-449_1 KR061498 ampicillin -beta-lactam blaOXA-464_1 KU721146 ampicillin -beta-lactam blaOXA-465_1 KR061500 ampicillin -beta-lactam blaOXA-466_1 KR061501 ampicillin -beta-lactam blaOXA-491_1 KU721148 ampicillin -beta-lactam blaOXA-493_1 CP007774 ampicillin -beta-lactam blaOXA-493_1 KU739135 ampicillin -beta-lactam blaOXA-518_1 KU739134 ampicillin -beta-lactam blaPLA1a_1 AY302757 ampicillin -beta-lactam blaPLA2a_1 AY307385 ampicillin -beta-lactam blaPLA-3A_1 AY507663 ampicillin -beta-lactam blaPLA-4A_1 AY507664 ampicillin -beta-lactam blaPLA-5A_1 DQ249871 ampicillin -beta-lactam blaPLA-6A_1 DQ251478 ampicillin -beta-lactam blaSCO-1_1 EF063111 ampicillin -beta-lactam blaSGM-1_1 AAQG01000013 ampicillin -beta-lactam blaSGM-2_1 AP010803 ampicillin -beta-lactam blaSGM-4_1 CP002798 ampicillin -beta-lactam blaSGM-5_1 NG049987 ampicillin -beta-lactam blaSGM-6_1 NG049988 ampicillin -beta-lactam blaSGM-7_1 NG050614 ampicillin -beta-lactam blaTER-1_1 FJ263091 ampicillin -beta-lactam blaTER-2_1 FJ263090 ampicillin -beta-lactam blaVHH-1_1 NG050334 ampicillin -beta-lactam blaVHW-1_1 AF217648 ampicillin -beta-lactam cepA_1 L13472 ampicillin -beta-lactam cepA_1 U05887 ampicillin -beta-lactam cepA_6 FR688022 ampicillin -beta-lactam cepA-29_1 U05884 ampicillin -beta-lactam cepA-44_1 U05885 ampicillin -beta-lactam cepA-49_1 U05886 ampicillin -beta-lactam ampH_1 AJ276031 ampicillin -beta-lactam ampH_2 HQ586946 ampicillin -beta-lactam ampS_1 X80276 ampicillin -beta-lactam blaA_1 DQ424965 ampicillin -beta-lactam blaA_2 AY954728 ampicillin -beta-lactam blaACI-1_1 AJ007350 ampicillin -beta-lactam blaADC-25_1 EF016355 ampicillin -beta-lactam blaAER-1_1 U14748 ampicillin -beta-lactam blaAST-1_1 AF279904 ampicillin -beta-lactam blaBES-1_1 AF234999 ampicillin -beta-lactam blaBIC-1_1 GQ260093 ampicillin -beta-lactam blaBIL-1_1 X74512 ampicillin -beta-lactam blaBRO-1_1 Z54180 ampicillin -beta-lactam blaBRO-2_1 Z54181 ampicillin -beta-lactam blaCEPH-A3_1 AY112998 ampicillin -beta-lactam blaCGB-1_1 EF672680 ampicillin -beta-lactam blaCKO-1_1 AF477396 ampicillin -beta-lactam blaCME-1_1 AJ006275 ampicillin -beta-lactam blaCMG_1 AY265892 ampicillin -beta-lactam blaDES-1_1 AF426161 ampicillin -beta-lactam blaDIM-1_1 GU323019 ampicillin -beta-lactam blaEBR-1_1 AF416700 ampicillin -beta-lactam blaERP-1_1 AY077733 ampicillin -beta-lactam blaFAR-1_1 AF024601 ampicillin -beta-lactam blaFONA-1_1 AJ251239 ampicillin -beta-lactam blaFONA-2_1 AJ251240 ampicillin -beta-lactam blaFONA-3_1 AJ251241 ampicillin -beta-lactam blaFONA-4_1 AJ251242 ampicillin -beta-lactam blaFONA-5_1 AJ251243 ampicillin -beta-lactam blaFONA-6_1 AJ251244 ampicillin -beta-lactam blaGIM-1_1 JF414726 ampicillin -beta-lactam blaHERA-1_1 AF311385 ampicillin -beta-lactam blaHERA-2_1 AF398334 ampicillin -beta-lactam blaHERA-3_1 AF398335 ampicillin -beta-lactam blaHERA-4_1 AJ536088 ampicillin -beta-lactam blaHERA-5_1 AJ536089 ampicillin -beta-lactam blaHERA-6_1 AJ536090 ampicillin -beta-lactam blaHERA-8_1 AJ536092 ampicillin -beta-lactam blaJOHN-1_1 AY028464 ampicillin -beta-lactam blaKHM-1_1 AB364006 ampicillin beta-lactam blaL1_3 EF126059 ampicillin +beta-lactam blaLAP-1_1 EF026092 ampicillin +beta-lactam blaLAP-2_1 EU159120 ampicillin +beta-lactam blaLAT-1_1 X78117 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaLCR-1_1 X56809 ampicillin beta-lactam blaLEN1_1 X04515 ampicillin beta-lactam blaLEN10_1 AJ635419 ampicillin @@ -1790,9 +974,55 @@ beta-lactam blaLEN9_1 AJ635405 ampicillin beta-lactam blaLUT-1_1 AY695112 ampicillin beta-lactam blaMAL-1_1 AJ277209 ampicillin beta-lactam blaMAL-1_2 AJ609506 ampicillin +beta-lactam blaMIR-1_1 M37839 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMIR-2_1 AY227752 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMIR-3_1 AY743435 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMIR-4_1 EF417572 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMIR-5_1 FJ237367 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMIR-6_1 JQ664733 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOR_1 Y10283 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOR-2_1 AY235804 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOX-1_1 D13304 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOX-2_1 AJ276453 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOX-3_1 EU515248 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOX-4_1 FJ262599 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOX-5_1 GQ152600 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOX-6_1 GQ152601 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaMOX-7_1 GQ152602 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaMUS-1_1 AF441286 ampicillin +beta-lactam blaNDM-1_1 FN396876 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-10_1 KF361506 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-11_1 KP265939 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-12_1 AB926431 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-13_1 LC012596 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-14_1 KM210086 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-15_1 KP735848 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-16_1 KP862821 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-17_1 KX812714 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-18_1 KY503030 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-19_1 MF370080 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-2_1 JF703135 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-20_1 KY654092 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-21_1 MG183694 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-22_1 MH243357 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-23_1 MH450214 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-24_1 MH450215 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-3_1 JQ734687 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-4_1 JQ348841 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-5_1 JN104597 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-6_1 JN967644 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-7_1 JX262694 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-8_1 AB744718 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaNDM-9_1 KC999080 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaNMC-A_1 AJ536087 ampicillin beta-lactam blaNPS_1 AY027589 ampicillin +beta-lactam blaOCH-2_1 AJ295340 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaOCH-3_1 AJ295341 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaOCH-4_1 AJ295342 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaOCH-5_1 AJ295343 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaOCH-6_1 AJ295344 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaOCH-7_1 AJ295345 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaOCH-8_1 DQ489307 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone beta-lactam blaOKP-A-1_1 AM051138 ampicillin beta-lactam blaOKP-A-10_1 AM051149 ampicillin beta-lactam blaOKP-A-11_1 AM850915 ampicillin @@ -1833,21 +1063,38 @@ beta-lactam blaOXA-1_1 HQ170510 ampicillin beta-lactam blaOXA-10_1 J03427 ampicillin beta-lactam blaOXA-100_1 AM231720 ampicillin beta-lactam blaOXA-101_1 AM412777 ampicillin +beta-lactam blaOXA-102_1 NZ_LWGP01000001 ampicillin +beta-lactam blaOXA-103_1 APQF01000011 ampicillin beta-lactam blaOXA-104_1 EF581285 ampicillin beta-lactam blaOXA-106_1 EF650032 ampicillin beta-lactam blaOXA-107_1 LAVJ01000082 ampicillin beta-lactam blaOXA-108_1 EF650034 ampicillin beta-lactam blaOXA-109_1 EF650035 ampicillin +beta-lactam blaOXA-11_1 Z22590 ampicillin,ceftriaxone beta-lactam blaOXA-110_1 EF650036 ampicillin beta-lactam blaOXA-111_1 EF650037 ampicillin beta-lactam blaOXA-112_1 EF650038 ampicillin beta-lactam blaOXA-113_1 EF653400 ampicillin +beta-lactam blaOXA-114a_1 EU188842 ampicillin +beta-lactam blaOXA-114b_1 HM056040 ampicillin +beta-lactam blaOXA-114c_1 HM056041 ampicillin +beta-lactam blaOXA-114d_1 HM104633 ampicillin +beta-lactam blaOXA-114e_1 HM104634 ampicillin +beta-lactam blaOXA-114f_1 HM368375 ampicillin +beta-lactam blaOXA-114g_1 HM368376 ampicillin beta-lactam blaOXA-115_1 EU029998 ampicillin beta-lactam blaOXA-116_1 EU220744 ampicillin beta-lactam blaOXA-117_1 GQ423625 ampicillin beta-lactam blaOXA-118_1 AF371964 ampicillin beta-lactam blaOXA-119_1 DQ767903 ampicillin beta-lactam blaOXA-120_1 EU255289 ampicillin +beta-lactam blaOXA-121_1 EU255290 ampicillin +beta-lactam blaOXA-122_1 EU255291 ampicillin +beta-lactam blaOXA-123_1 EU255292 ampicillin +beta-lactam blaOXA-124_1 EU255293 ampicillin +beta-lactam blaOXA-125_1 EU255294 ampicillin +beta-lactam blaOXA-126_1 EU255295 ampicillin +beta-lactam blaOXA-127_1 EU255296 ampicillin beta-lactam blaOXA-128_1 EU375515 ampicillin beta-lactam blaOXA-129_1 FJWZ01000025 ampicillin beta-lactam blaOXA-13_1 AF043558 ampicillin @@ -1861,13 +1108,30 @@ beta-lactam blaOXA-136_1 EU086831 ampicillin beta-lactam blaOXA-137_1 EU086834 ampicillin beta-lactam blaOXA-138_1 EU670845 ampicillin beta-lactam blaOXA-139_1 AM991978 ampicillin +beta-lactam blaOXA-14_1 KJ420612 ampicillin,ceftriaxone +beta-lactam blaOXA-141_1 EF552405 ampicillin,ceftriaxone +beta-lactam blaOXA-142_1 LC169567 ampicillin,ceftriaxone beta-lactam blaOXA-143_1 GQ861437 ampicillin beta-lactam blaOXA-144_1 FJ872530 ampicillin +beta-lactam blaOXA-145_1 FJ790516 ampicillin,ceftriaxone beta-lactam blaOXA-146_1 FJ194494 ampicillin +beta-lactam blaOXA-147_1 FJ848783 ampicillin,ceftriaxone beta-lactam blaOXA-148_1 GQ853679 ampicillin beta-lactam blaOXA-149_1 GQ853680 ampicillin +beta-lactam blaOXA-15_1 U63835 ampicillin,ceftriaxone beta-lactam blaOXA-150_1 GQ853681 ampicillin +beta-lactam blaOXA-151_1 CP009553 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-152_1 KP771980 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-153_1 KP771981 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-154_1 KP771982 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-155_1 KP771983 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-156_1 KP771984 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-157_1 KP771985 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-158_1 KP771986 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-159_1 KP771987 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-16_1 AF043100 ampicillin,ceftriaxone beta-lactam blaOXA-160_1 GU199038 ampicillin +beta-lactam blaOXA-161_1 GQ202693 ampicillin,ceftriaxone beta-lactam blaOXA-162_1 GU197550 ampicillin beta-lactam blaOXA-163_1 HQ700343 ampicillin beta-lactam blaOXA-164_1 GU831575 ampicillin @@ -1876,6 +1140,7 @@ beta-lactam blaOXA-166_1 HM488987 ampicillin beta-lactam blaOXA-167_1 HM488988 ampicillin beta-lactam blaOXA-168_1 HM488989 ampicillin beta-lactam blaOXA-169_1 HM488990 ampicillin +beta-lactam blaOXA-17_1 DQ902344 ampicillin beta-lactam blaOXA-170_1 HM488991 ampicillin beta-lactam blaOXA-171_1 HM488992 ampicillin beta-lactam blaOXA-172_1 HM113558 ampicillin @@ -1891,7 +1156,11 @@ beta-lactam blaOXA-180_1 HM570036 ampicillin beta-lactam blaOXA-181_1 CM004561 ampicillin beta-lactam blaOXA-182_1 HM640278 ampicillin beta-lactam blaOXA-183_1 HQ111474 ampicillin +beta-lactam blaOXA-184_1 JQ396378 ampicillin +beta-lactam blaOXA-185_1 JQ396379 ampicillin +beta-lactam blaOXA-19_1 AF043381 ampicillin,ceftriaxone beta-lactam blaOXA-192_1 JF273470 ampicillin +beta-lactam blaOXA-193_1 CP013032 ampicillin beta-lactam blaOXA-194_1 HQ425492 ampicillin beta-lactam blaOXA-195_1 HQ425493 ampicillin beta-lactam blaOXA-196_1 HQ425494 ampicillin @@ -1911,6 +1180,7 @@ beta-lactam blaOXA-206_1 AB634250 ampicillin beta-lactam blaOXA-207_1 LLFS01000355 ampicillin beta-lactam blaOXA-208_1 KF305665 ampicillin beta-lactam blaOXA-209_1 JF268688 ampicillin +beta-lactam blaOXA-21_1 AB626885 ampicillin beta-lactam blaOXA-210_1 JF795487 ampicillin beta-lactam blaOXA-211_1 JN861779 ampicillin beta-lactam blaOXA-212_1 JN861780 ampicillin @@ -1924,40 +1194,104 @@ beta-lactam blaOXA-22_1 AF064820 ampicillin beta-lactam blaOXA-223_1 JN248564 ampicillin beta-lactam blaOXA-224_1 JN412067 ampicillin beta-lactam blaOXA-225_1 JN638887 ampicillin +beta-lactam blaOXA-226_1 FJ617207 ampicillin beta-lactam blaOXA-228_1 JQ422053 ampicillin beta-lactam blaOXA-229_1 JQ422052 ampicillin +beta-lactam blaOXA-23_1 AY795964 ampicillin,meropenem beta-lactam blaOXA-230_1 JQ422054 ampicillin beta-lactam blaOXA-231_1 JQ326200 ampicillin beta-lactam blaOXA-232_1 JX423831 ampicillin +beta-lactam blaOXA-233_1 KJ657570 ampicillin +beta-lactam blaOXA-234_1 NG_050607 ampicillin beta-lactam blaOXA-235_1 JQ820240 ampicillin beta-lactam blaOXA-236_1 JQ820242 ampicillin beta-lactam blaOXA-237_1 JQ820241 ampicillin beta-lactam blaOXA-239_1 JQ837239 ampicillin +beta-lactam blaOXA-24_1 AJ239129 ampicillin,meropenem beta-lactam blaOXA-240_1 JX089628 ampicillin beta-lactam blaOXA-241_1 JX025021 ampicillin beta-lactam blaOXA-242_1 JX025022 ampicillin beta-lactam blaOXA-243_1 AFRQ01000031 ampicillin beta-lactam blaOXA-244_1 KP659189 ampicillin,amoxicillin/clavulanic acid,ds-meropenem beta-lactam blaOXA-245_1 JX438001 ampicillin +beta-lactam blaOXA-246_1 EU886980 ampicillin beta-lactam blaOXA-247_1 JX893517 ampicillin beta-lactam blaOXA-248_1 HE963769 ampicillin beta-lactam blaOXA-249_1 HE963770 ampicillin beta-lactam blaOXA-25_1 AF201826 ampicillin beta-lactam blaOXA-250_1 HE963771 ampicillin beta-lactam blaOXA-251_1 JN118546 ampicillin +beta-lactam blaOXA-252_1 NG_050608 ampicillin beta-lactam blaOXA-253_1 KC479324 ampicillin beta-lactam blaOXA-254_1 AB781687 ampicillin beta-lactam blaOXA-255_1 KC479325 ampicillin beta-lactam blaOXA-256_1 HE616889 ampicillin beta-lactam blaOXA-257_1 KC567681 ampicillin beta-lactam blaOXA-258_1 HE614014 ampicillin +beta-lactam blaOXA-259_1 KF057028 ampicillin beta-lactam blaOXA-26_1 AF201827 ampicillin +beta-lactam blaOXA-260_1 APOR01000009 ampicillin +beta-lactam blaOXA-261_1 APQV01000009 ampicillin +beta-lactam blaOXA-262_1 APRA01000005 ampicillin +beta-lactam blaOXA-263_1 APQY01000006 ampicillin +beta-lactam blaOXA-264_1 APQQ01000012 ampicillin +beta-lactam blaOXA-265_1 APQR01000003 ampicillin +beta-lactam blaOXA-266_1 APPO01000008 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-267_1 APQH01000006 ampicillin +beta-lactam blaOXA-268_1 APOE01000008 ampicillin +beta-lactam blaOXA-269_1 APQJ01000007 ampicillin beta-lactam blaOXA-27_1 AF201828 ampicillin +beta-lactam blaOXA-270_1 APQM01000006 ampicillin +beta-lactam blaOXA-271_1 APQO01000006 ampicillin +beta-lactam blaOXA-272_1 LSAL01000001 ampicillin +beta-lactam blaOXA-273_1 APQN01000012 ampicillin +beta-lactam blaOXA-274_1 APOS01000038 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-275_1 APPJ01000001 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-276_1 APPI01000013 ampicillin +beta-lactam blaOXA-277_1 APPQ01000011 ampicillin beta-lactam blaOXA-278_1 KC771279 ampicillin +beta-lactam blaOXA-279_1 APOM01000058 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-28_1 AF231133 ampicillin,ceftriaxone +beta-lactam blaOXA-280_1 APPZ01000001 ampicillin +beta-lactam blaOXA-281_1 APON01000041 ampicillin +beta-lactam blaOXA-282_1 APQS01000019 ampicillin +beta-lactam blaOXA-283_1 AYHO01000005 ampicillin +beta-lactam blaOXA-284_1 APRU01000004 ampicillin +beta-lactam blaOXA-285_1 APRY01000059 ampicillin +beta-lactam blaOXA-286_1 APOI01000030 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-287_1 NG_050609 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaOXA-288_1 APRN01000033 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-289_1 APRM01000005 ampicillin beta-lactam blaOXA-29_1 AJ400619 ampicillin +beta-lactam blaOXA-290_1 APOK01000044 ampicillin +beta-lactam blaOXA-291_1 APRL01000010 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-292_1 APRO01000007 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-293_1 NG_050610 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaOXA-294_1 APPC01000015 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-295_1 APRW01000016 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-296_1 APOH01000009 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-297_1 APRR01000006 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-298_1 APSA01000003 ampicillin +beta-lactam blaOXA-299_1 APQD01000016 ampicillin beta-lactam blaOXA-3_1 L07945 ampicillin +beta-lactam blaOXA-300_1 APPK01000054 ampicillin +beta-lactam blaOXA-301_1 APQG01000050 ampicillin +beta-lactam blaOXA-302_1 APRT01000004 ampicillin +beta-lactam blaOXA-303_1 APSD01000035 ampicillin +beta-lactam blaOXA-304_1 APSC01000007 ampicillin +beta-lactam blaOXA-305_1 APPF01000021 ampicillin +beta-lactam blaOXA-306_1 APSB01000022 ampicillin +beta-lactam blaOXA-307_1 NG_050611 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaOXA-308_1 APPN01000080 ampicillin beta-lactam blaOXA-309_1 HF947514 ampicillin beta-lactam blaOXA-31_1 AF294653 ampicillin +beta-lactam blaOXA-312_1 KF057029 ampicillin +beta-lactam blaOXA-313_1 KF057030 ampicillin +beta-lactam blaOXA-314_1 KF057031 ampicillin +beta-lactam blaOXA-315_1 KF057032 ampicillin +beta-lactam blaOXA-316_1 KF057033 ampicillin +beta-lactam blaOXA-317_1 KF057034 ampicillin +beta-lactam blaOXA-32_1 AF315351 ampicillin,ceftriaxone beta-lactam blaOXA-320_1 KF151169 ampicillin beta-lactam blaOXA-322_1 KF203096 ampicillin beta-lactam blaOXA-323_1 KF203097 ampicillin @@ -1973,11 +1307,23 @@ beta-lactam blaOXA-332_1 KF203106 ampicillin beta-lactam blaOXA-333_1 KF203107 ampicillin beta-lactam blaOXA-334_1 KF203108 ampicillin beta-lactam blaOXA-335_1 KF203109 ampicillin +beta-lactam blaOXA-336_1 KF048907 ampicillin +beta-lactam blaOXA-337_1 KF048908 ampicillin +beta-lactam blaOXA-338_1 KF048909 ampicillin +beta-lactam blaOXA-339_1 KF048911 ampicillin beta-lactam blaOXA-34_1 AF350424 ampicillin +beta-lactam blaOXA-340_1 KF048912 ampicillin +beta-lactam blaOXA-341_1 KF048913 ampicillin +beta-lactam blaOXA-342_1 KF048915 ampicillin +beta-lactam blaOXA-343_1 KF048916 ampicillin +beta-lactam blaOXA-344_1 KF048917 ampicillin +beta-lactam blaOXA-345_1 KF048918 ampicillin +beta-lactam blaOXA-346_1 KF048919 ampicillin beta-lactam blaOXA-347_1 ACWG01000053 ampicillin beta-lactam blaOXA-347_1 JN086160 ampicillin beta-lactam blaOXA-348_1 KF297577 ampicillin beta-lactam blaOXA-349_1 KF297578 ampicillin +beta-lactam blaOXA-35_1 AF315786 ampicillin,ceftriaxone beta-lactam blaOXA-350_1 KF297579 ampicillin beta-lactam blaOXA-351_1 KF297580 ampicillin beta-lactam blaOXA-352_1 KF297581 ampicillin @@ -1988,24 +1334,209 @@ beta-lactam blaOXA-356_1 KF297585 ampicillin beta-lactam blaOXA-357_1 KF421160 ampicillin beta-lactam blaOXA-358_1 KF421161 ampicillin beta-lactam blaOXA-359_1 KF421162 ampicillin +beta-lactam blaOXA-36_1 AF300985 ampicillin,ceftriaxone beta-lactam blaOXA-360_1 KF421163 ampicillin +beta-lactam blaOXA-361_1 KF460531 ampicillin +beta-lactam blaOXA-362_1 KF460532 ampicillin +beta-lactam blaOXA-363_1 KF460533 ampicillin +beta-lactam blaOXA-364_1 JX306689 ampicillin +beta-lactam blaOXA-365_1 KF885217 ampicillin +beta-lactam blaOXA-366_1 KP050485 ampicillin +beta-lactam blaOXA-368_1 KT736121 ampicillin +beta-lactam blaOXA-37_1 AY007784 ampicillin,ceftriaxone +beta-lactam blaOXA-370_1 KJ488943 ampicillin beta-lactam blaOXA-371_1 AB871653 ampicillin beta-lactam blaOXA-372_1 KJ746496 ampicillin +beta-lactam blaOXA-373_1 HG931732 ampicillin +beta-lactam blaOXA-374_1 KF986255 ampicillin +beta-lactam blaOXA-375_1 KF986256 ampicillin +beta-lactam blaOXA-376_1 KF986257 ampicillin +beta-lactam blaOXA-377_1 KF986258 ampicillin +beta-lactam blaOXA-378_1 KF986259 ampicillin +beta-lactam blaOXA-379_1 KF986260 ampicillin +beta-lactam blaOXA-380_1 KF986261 ampicillin +beta-lactam blaOXA-381_1 KJ135344 ampicillin +beta-lactam blaOXA-382_1 KJ135345 ampicillin +beta-lactam blaOXA-383_1 KF986262 ampicillin +beta-lactam blaOXA-384_1 KF986263 ampicillin +beta-lactam blaOXA-385_1 KF986253 ampicillin +beta-lactam blaOXA-386_1 KF986254 ampicillin +beta-lactam blaOXA-387_1 KJ173478 ampicillin +beta-lactam blaOXA-388_1 KJ135343 ampicillin +beta-lactam blaOXA-389_1 KJ135346 ampicillin +beta-lactam blaOXA-390_1 KJ135342 ampicillin +beta-lactam blaOXA-391_1 KJ427797 ampicillin +beta-lactam blaOXA-392_1 AB901044 ampicillin +beta-lactam blaOXA-395_1 AY306133 ampicillin +beta-lactam blaOXA-396_1 AY306134 ampicillin +beta-lactam blaOXA-397_1 KM087865 ampicillin +beta-lactam blaOXA-398_1 KM087842 ampicillin beta-lactam blaOXA-4_1 AY162283 ampicillin +beta-lactam blaOXA-400_1 KJ780078 ampicillin +beta-lactam blaOXA-401_1 KJ780076 ampicillin +beta-lactam blaOXA-402_1 JX865391 ampicillin +beta-lactam blaOXA-403_1 KJ920337 ampicillin +beta-lactam blaOXA-404_1 KJ920338 ampicillin +beta-lactam blaOXA-405_1 KM589641 ampicillin +beta-lactam blaOXA-406_1 KJ584915 ampicillin +beta-lactam blaOXA-407_1 KJ584916 ampicillin +beta-lactam blaOXA-408_1 KJ584917 ampicillin +beta-lactam blaOXA-409_1 KJ584918 ampicillin +beta-lactam blaOXA-410_1 KJ584919 ampicillin +beta-lactam blaOXA-411_1 KJ584920 ampicillin +beta-lactam blaOXA-412_1 KJ584921 ampicillin +beta-lactam blaOXA-413_1 KJ584922 ampicillin +beta-lactam blaOXA-414_1 KJ584914 ampicillin +beta-lactam blaOXA-415_1 KJ865754 ampicillin +beta-lactam blaOXA-416_1 KP264119 ampicillin +beta-lactam blaOXA-417_1 KM220587 ampicillin +beta-lactam blaOXA-418_1 KJ997966 ampicillin beta-lactam blaOXA-42_1 AJ488302 ampicillin +beta-lactam blaOXA-420_1 AB983359 ampicillin +beta-lactam blaOXA-421_1 KM401566 ampicillin +beta-lactam blaOXA-422_1 KM433671 ampicillin +beta-lactam blaOXA-423_1 KM433672 ampicillin +beta-lactam blaOXA-424_1 KM588352 ampicillin +beta-lactam blaOXA-425_1 KM588353 ampicillin +beta-lactam blaOXA-426_1 KM588354 ampicillin +beta-lactam blaOXA-427_1 KX827604 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaOXA-429_1 KM979376 ampicillin beta-lactam blaOXA-43_1 AJ488303 ampicillin +beta-lactam blaOXA-430_1 KM979377 ampicillin +beta-lactam blaOXA-431_1 KM979378 ampicillin +beta-lactam blaOXA-432_1 KM979379 ampicillin +beta-lactam blaOXA-433_1 KM979380 ampicillin +beta-lactam blaOXA-435_1 KP144324 ampicillin beta-lactam blaOXA-436_1 KT959105 ampicillin +beta-lactam blaOXA-437_1 KP410856 ampicillin +beta-lactam blaOXA-438_1 KP410734 ampicillin +beta-lactam blaOXA-439_1 KP727573 ampicillin +beta-lactam blaOXA-440_1 KP727574 ampicillin +beta-lactam blaOXA-441_1 JX865394 ampicillin +beta-lactam blaOXA-442_1 KP844571 ampicillin +beta-lactam blaOXA-443_1 LC030178 ampicillin +beta-lactam blaOXA-444_1 CP010800 ampicillin +beta-lactam blaOXA-446_1 KR061495 ampicillin +beta-lactam blaOXA-447_1 KR061496 ampicillin +beta-lactam blaOXA-448_1 KR061497 ampicillin +beta-lactam blaOXA-449_1 KR061498 ampicillin beta-lactam blaOXA-45_1 AJ519683 ampicillin +beta-lactam blaOXA-450_1 KR061502 ampicillin +beta-lactam blaOXA-451_1 KR061504 ampicillin +beta-lactam blaOXA-452_1 KR061505 ampicillin +beta-lactam blaOXA-453_1 KR061507 ampicillin +beta-lactam blaOXA-454_1 LC037981 ampicillin +beta-lactam blaOXA-455_1 KP903885 ampicillin +beta-lactam blaOXA-457_1 KP903887 ampicillin +beta-lactam blaOXA-458_1 KP903888 ampicillin +beta-lactam blaOXA-459_1 KP903889 ampicillin beta-lactam blaOXA-46_1 AF317511 ampicillin +beta-lactam blaOXA-460_1 KR061508 ampicillin +beta-lactam blaOXA-461_1 KR061509 ampicillin +beta-lactam blaOXA-464_1 KU721146 ampicillin +beta-lactam blaOXA-465_1 KR061500 ampicillin +beta-lactam blaOXA-466_1 KR061501 ampicillin beta-lactam blaOXA-47_1 AY237830 ampicillin +beta-lactam blaOXA-470_1 KR182163 ampicillin +beta-lactam blaOXA-471_1 EU086833 ampicillin +beta-lactam blaOXA-472_1 KR182165 ampicillin +beta-lactam blaOXA-473_1 KR182166 ampicillin +beta-lactam blaOXA-474_1 KR182167 ampicillin +beta-lactam blaOXA-475_1 KR182168 ampicillin +beta-lactam blaOXA-476_1 KR182169 ampicillin +beta-lactam blaOXA-477_1 KR182170 ampicillin +beta-lactam blaOXA-478_1 KR182171 ampicillin +beta-lactam blaOXA-479_1 KR182172 ampicillin +beta-lactam blaOXA-48_1 AY236073 ampicillin,amoxicillin/clavulanic acid,decreased susceptibility to meropenem +beta-lactam blaOXA-480_1 KR872296 ampicillin +beta-lactam blaOXA-482_1 KP264124 ampicillin +beta-lactam blaOXA-483_1 KP264125 ampicillin +beta-lactam blaOXA-484_1 KR401105 ampicillin +beta-lactam blaOXA-485_1 LLNM01000004 ampicillin +beta-lactam blaOXA-486_1 AY597426 ampicillin +beta-lactam blaOXA-488_1 CP017969 ampicillin +beta-lactam blaOXA-489_1 CP013733 ampicillin beta-lactam blaOXA-49_1 AY288523 ampicillin +beta-lactam blaOXA-490_1 KU721147 ampicillin +beta-lactam blaOXA-491_1 KU721148 ampicillin +beta-lactam blaOXA-493_1 CP007774 ampicillin +beta-lactam blaOXA-493_1 KU739135 ampicillin +beta-lactam blaOXA-494_1 AY597430 ampicillin +beta-lactam blaOXA-496_1 KT200608 ampicillin +beta-lactam blaOXA-497_1 LKJZ01000136 ampicillin +beta-lactam blaOXA-499_1 KT964029 ampicillin beta-lactam blaOXA-5_1 AF347074 ampicillin beta-lactam blaOXA-50_1 AY306130 ampicillin +beta-lactam blaOXA-500_1 JMNQ01000002 ampicillin +beta-lactam blaOXA-501_1 KU167110 ampicillin +beta-lactam blaOXA-502_1 KU167111 ampicillin +beta-lactam blaOXA-503_1 KU167109 ampicillin +beta-lactam blaOXA-505_1 KU531433 ampicillin +beta-lactam blaOXA-506_1 KU571454 ampicillin +beta-lactam blaOXA-507_1 KU551305 ampicillin +beta-lactam blaOXA-508_1 KU596972 ampicillin +beta-lactam blaOXA-509_1 KU692025 ampicillin +beta-lactam blaOXA-51_1 DQ385606 ampicillin,meropenem +beta-lactam blaOXA-510_1 JX865393 ampicillin +beta-lactam blaOXA-511_1 KU710720 ampicillin +beta-lactam blaOXA-512_1 KU726870 ampicillin +beta-lactam blaOXA-513_1 KU323972 ampicillin +beta-lactam blaOXA-514_1 KU866382 ampicillin +beta-lactam blaOXA-515_1 KU866383 ampicillin +beta-lactam blaOXA-516_1 KU871391 ampicillin +beta-lactam blaOXA-517_1 KU878974 ampicillin +beta-lactam blaOXA-518_1 KU739134 ampicillin +beta-lactam blaOXA-519_1 KX349732 ampicillin +beta-lactam blaOXA-520_1 KX388630 ampicillin +beta-lactam blaOXA-521_1 KX462701 ampicillin +beta-lactam blaOXA-522_1 KX599408 ampicillin +beta-lactam blaOXA-523_1 KX599401 ampicillin +beta-lactam blaOXA-524_1 KX599402 ampicillin +beta-lactam blaOXA-525_1 KX599406 ampicillin +beta-lactam blaOXA-526_1 KX599409 ampicillin +beta-lactam blaOXA-527_1 KX599404 ampicillin +beta-lactam blaOXA-528_1 KX599407 ampicillin +beta-lactam blaOXA-529_1 KX599405 ampicillin beta-lactam blaOXA-53_1 AY289608 ampicillin +beta-lactam blaOXA-530_1 KX599398 ampicillin +beta-lactam blaOXA-531_1 KX599400 ampicillin +beta-lactam blaOXA-532_1 KX609247 ampicillin +beta-lactam blaOXA-533_1 KX668472 ampicillin +beta-lactam blaOXA-534_1 KX714285 ampicillin +beta-lactam blaOXA-535_1 KX828709 ampicillin +beta-lactam blaOXA-536_1 KX859240 ampicillin +beta-lactam blaOXA-537_1 KX360747 ampicillin +beta-lactam blaOXA-538_1 KX827284 ampicillin +beta-lactam blaOXA-539_1 KY094077 ampicillin beta-lactam blaOXA-54_1 AY500137 ampicillin +beta-lactam blaOXA-540_1 KJ138219 ampicillin +beta-lactam blaOXA-541_1 FM179467 ampicillin +beta-lactam blaOXA-545_1 KY674541 ampicillin +beta-lactam blaOXA-546_1 KY682756 ampicillin +beta-lactam blaOXA-547_1 KY684124 ampicillin +beta-lactam blaOXA-548_1 KY682750 ampicillin +beta-lactam blaOXA-549_1 KY682751 ampicillin beta-lactam blaOXA-55_1 AY343493 ampicillin +beta-lactam blaOXA-550_1 KY682752 ampicillin +beta-lactam blaOXA-551_1 KY682753 ampicillin +beta-lactam blaOXA-552_1 KY682754 ampicillin +beta-lactam blaOXA-553_1 KY682755 ampicillin +beta-lactam blaOXA-554_1 KY126221 ampicillin +beta-lactam blaOXA-555_1 KY126224 ampicillin +beta-lactam blaOXA-556_1 KY126231 ampicillin +beta-lactam blaOXA-557_1 KY126232 ampicillin +beta-lactam blaOXA-558_1 KY126234 ampicillin +beta-lactam blaOXA-559_1 KY126237 ampicillin beta-lactam blaOXA-56_1 AY445080 ampicillin +beta-lactam blaOXA-560_1 KY126238 ampicillin +beta-lactam blaOXA-561_1 KY126240 ampicillin +beta-lactam blaOXA-562_1 KY126241 ampicillin +beta-lactam blaOXA-563_1 KY767021 ampicillin +beta-lactam blaOXA-564_1 KY767022 ampicillin +beta-lactam blaOXA-565_1 KY883665 ampicillin +beta-lactam blaOXA-566_1 MF099636 ampicillin beta-lactam blaOXA-57_1 AJ631966 ampicillin +beta-lactam blaOXA-58_1 AY665723 ampicillin,meropenem beta-lactam blaOXA-59_1 AJ632249 ampicillin beta-lactam blaOXA-60_1 AF525303 ampicillin beta-lactam blaOXA-61_1 AY587956 ampicillin @@ -2013,6 +1544,7 @@ beta-lactam blaOXA-62_1 AY423074 ampicillin beta-lactam blaOXA-63_1 AY619003 ampicillin beta-lactam blaOXA-64_1 AY750907 ampicillin beta-lactam blaOXA-65_1 AY750908 ampicillin +beta-lactam blaOXA-66_1 AY750909 ampicillin beta-lactam blaOXA-67_1 DQ491200 ampicillin beta-lactam blaOXA-68_1 AY750910 ampicillin beta-lactam blaOXA-69_1 AY859527 ampicillin @@ -2035,6 +1567,8 @@ beta-lactam blaOXA-85_1 JANA01000064 ampicillin beta-lactam blaOXA-86_1 DQ149247 ampicillin beta-lactam blaOXA-87_1 DQ348075 ampicillin beta-lactam blaOXA-88_1 DQ392963 ampicillin +beta-lactam blaOXA-89_1 DQ445683 ampicillin +beta-lactam blaOXA-9_1 KQ089875 ampicillin beta-lactam blaOXA-90_1 EU547443 ampicillin beta-lactam blaOXA-91_1 DQ519086 ampicillin beta-lactam blaOXA-92_1 DQ335566 ampicillin @@ -2071,25 +1605,67 @@ beta-lactam blaOXY-6-1_1 AJ871873 ampicillin beta-lactam blaOXY-6-2_2 AJ871875 ampicillin beta-lactam blaOXY-6-3_3 AJ871876 ampicillin beta-lactam blaOXY-6-4_4 AJ871877 ampicillin +beta-lactam blaPAM-1_1 AB858498 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaPAO_1 AY083595 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaPAO_2 FJ666065 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaPAO_3 FJ666073 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaPAO_4 AY083592 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone +beta-lactam blaPEDO-1_1 KP109677 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaPEDO-2_1 KP109678 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaPEDO-3_1 KP109679 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaPER-1_1 GU944725 ampicillin,ceftriaxone +beta-lactam blaPER-2_1 X93314 ampicillin,ceftriaxone +beta-lactam blaPER-3_1 AY740681 ampicillin,ceftriaxone +beta-lactam blaPER-4_1 EU748544 ampicillin,ceftriaxone +beta-lactam blaPER-5_1 FJ627180 ampicillin,ceftriaxone +beta-lactam blaPER-6_1 GQ396303 ampicillin,ceftriaxone +beta-lactam blaPER-7_1 HQ713678 ampicillin,ceftriaxone +beta-lactam blaPLA1a_1 AY302757 ampicillin +beta-lactam blaPLA2a_1 AY307385 ampicillin +beta-lactam blaPLA-3A_1 AY507663 ampicillin +beta-lactam blaPLA-4A_1 AY507664 ampicillin +beta-lactam blaPLA-5A_1 DQ249871 ampicillin +beta-lactam blaPLA-6A_1 DQ251478 ampicillin beta-lactam blaPME-1_1 HQ541434 ampicillin +beta-lactam blaRAHN-1_1 GU645205 ampicillin,ceftriaxone +beta-lactam blaRAHN-1_2 AF338038 ampicillin,ceftriaxone +beta-lactam blaRAHN-2_2 HM114350 ampicillin,ceftriaxone beta-lactam blaROB-1_1 DQ840517 ampicillin beta-lactam blaROB-1_2 AF022114 ampicillin +beta-lactam blaSCO-1_1 EF063111 ampicillin beta-lactam blaSED1_1 AF321608 ampicillin +beta-lactam blaSFC-1_1 AY354402 ampicillin,meropenem beta-lactam blaSFO-1_1 AB003148 ampicillin +beta-lactam blaSGM-1_1 AAQG01000013 ampicillin +beta-lactam blaSGM-2_1 AP010803 ampicillin +beta-lactam blaSGM-4_1 CP002798 ampicillin +beta-lactam blaSGM-5_1 NG049987 ampicillin +beta-lactam blaSGM-6_1 NG049988 ampicillin +beta-lactam blaSGM-7_1 NG050614 ampicillin beta-lactam blaSHV-1_1 AF148850 ampicillin +beta-lactam blaSHV-100_1 AM941846 ampicillin,ceftriaxone beta-lactam blaSHV-101_1 EU155018 ampicillin +beta-lactam blaSHV-102_1 EU024485 ampicillin beta-lactam blaSHV-103_1 EU032604 ampicillin +beta-lactam blaSHV-104_1 EU274581 ampicillin,ceftriaxone +beta-lactam blaSHV-105_1 FJ194944 ampicillin,ceftriaxone beta-lactam blaSHV-106_1 AM922307 ampicillin +beta-lactam blaSHV-107_1 AM922308 ampicillin,amoxicillin/clavulanic acid beta-lactam blaSHV-108_1 AM922309 ampicillin beta-lactam blaSHV-109_1 EU418913 ampicillin beta-lactam blaSHV-11_1 X98101 ampicillin beta-lactam blaSHV-110_1 HQ877615 ampicillin +beta-lactam blaSHV-111_1 AB372881 ampicillin +beta-lactam blaSHV-119_1 JX192924 ampicillin +beta-lactam blaSHV-12_1 KF976405 ampicillin,ceftriaxone beta-lactam blaSHV-120_1 JF812965 ampicillin beta-lactam blaSHV-121_1 GQ428198 ampicillin beta-lactam blaSHV-128_1 GU932590 ampicillin beta-lactam blaSHV-129_1 GU827715 ampicillin +beta-lactam blaSHV-13_1 AF164577 ampicillin,ceftriaxone beta-lactam blaSHV-132_1 GU981741 ampicillin beta-lactam blaSHV-133_1 AB551737 ampicillin +beta-lactam blaSHV-134_1 HM559945 ampicillin,ceftriaxone beta-lactam blaSHV-135_1 HQ637576 ampicillin beta-lactam blaSHV-137_1 HQ661363 ampicillin beta-lactam blaSHV-14_1 AF226622 ampicillin @@ -2101,6 +1677,7 @@ beta-lactam blaSHV-145_1 JX013655 ampicillin beta-lactam blaSHV-147_1 JX121114 ampicillin beta-lactam blaSHV-148_1 JX121115 ampicillin beta-lactam blaSHV-149_1 JX121116 ampicillin +beta-lactam blaSHV-15_1 AJ011428 ampicillin,ceftriaxone beta-lactam blaSHV-150_1 JX121117 ampicillin beta-lactam blaSHV-151_1 JX121118 ampicillin beta-lactam blaSHV-152_1 JX121119 ampicillin @@ -2111,6 +1688,7 @@ beta-lactam blaSHV-156_1 JX121123 ampicillin beta-lactam blaSHV-157_1 JX121124 ampicillin beta-lactam blaSHV-158_1 JX121125 ampicillin beta-lactam blaSHV-159_1 JX121126 ampicillin +beta-lactam blaSHV-16_1 AF072684 ampicillin,ceftriaxone beta-lactam blaSHV-160_1 JX121127 ampicillin beta-lactam blaSHV-161_1 JX121128 ampicillin beta-lactam blaSHV-162_1 JX121129 ampicillin @@ -2122,31 +1700,75 @@ beta-lactam blaSHV-172_1 KF513177 ampicillin beta-lactam blaSHV-173_1 KF513178 ampicillin beta-lactam blaSHV-178_1 KF705209 ampicillin beta-lactam blaSHV-179_1 KF705208 ampicillin +beta-lactam blaSHV-18_1 AF132290 ampicillin,ceftriaxone +beta-lactam blaSHV-180_1 KP050487 ampicillin +beta-lactam blaSHV-182_1 KP050489 ampicillin +beta-lactam blaSHV-183_1 HG934764 ampicillin +beta-lactam blaSHV-185_1 KM233164 ampicillin +beta-lactam blaSHV-186_1 KM233165 ampicillin +beta-lactam blaSHV-187_1 LN515533 ampicillin +beta-lactam blaSHV-188_1 LN515534 ampicillin +beta-lactam blaSHV-189_1 KP050494 ampicillin +beta-lactam blaSHV-190_1 KP868753 ampicillin +beta-lactam blaSHV-191_1 KP868754 ampicillin +beta-lactam blaSHV-193_1 KR347170 ampicillin +beta-lactam blaSHV-194_1 KX421191 ampicillin +beta-lactam blaSHV-195_1 KX619652 ampicillin +beta-lactam blaSHV-196_1 KX714286 ampicillin +beta-lactam blaSHV-197_1 KT946904 ampicillin +beta-lactam blaSHV-198_1 MF281086 ampicillin +beta-lactam blaSHV-199_1 MF373391 ampicillin +beta-lactam blaSHV-2_1 AF148851 ampicillin,ceftriaxone +beta-lactam blaSHV-200_1 MF871643 ampicillin +beta-lactam blaSHV-203_1 MG028656 ampicillin +beta-lactam blaSHV-204_1 MH243356 ampicillin +beta-lactam blaSHV-24_1 AB023477 ampicillin,ceftriaxone beta-lactam blaSHV-25_1 AF208796 ampicillin beta-lactam blaSHV-26_1 AF227204 ampicillin beta-lactam blaSHV-27_1 AF293345 ampicillin beta-lactam blaSHV-28_1 AF299299 ampicillin beta-lactam blaSHV-29_1 AF301532 ampicillin +beta-lactam blaSHV-2a_1 X98102 ampicillin,ceftriaxone +beta-lactam blaSHV-3_1 KX092356 ampicillin +beta-lactam blaSHV-30_1 AY661885 ampicillin,ceftriaxone +beta-lactam blaSHV-31_1 AY277255 ampicillin,ceftriaxone +beta-lactam blaSHV-32_1 AY037778 ampicillin beta-lactam blaSHV-33_1 AY037779 ampicillin beta-lactam blaSHV-34_1 AY036620 ampicillin beta-lactam blaSHV-35_1 AY070258 ampicillin beta-lactam blaSHV-36_1 AF467947 ampicillin beta-lactam blaSHV-37_1 AF467948 ampicillin +beta-lactam blaSHV-38_1 AY079099 ampicillin,ceftriaxone +beta-lactam blaSHV-40_1 AF535128 ampicillin,ceftriaxone +beta-lactam blaSHV-41_1 AF535129 ampicillin,ceftriaxone +beta-lactam blaSHV-42_1 AF535130 ampicillin,ceftriaxone beta-lactam blaSHV-43_1 AY065991 ampicillin beta-lactam blaSHV-44_1 AY259119 ampicillin +beta-lactam blaSHV-45_1 AF547625 ampicillin,ceftriaxone +beta-lactam blaSHV-46_1 AY210887 ampicillin,ceftriaxone beta-lactam blaSHV-48_1 AY263404 ampicillin +beta-lactam blaSHV-49_1 AY528718 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaSHV-5_1 X55640 ampicillin,ceftriaxone beta-lactam blaSHV-50_1 AY288915 ampicillin beta-lactam blaSHV-51_1 AY289548 ampicillin beta-lactam blaSHV-52_1 HQ845196 ampicillin +beta-lactam blaSHV-55_1 DQ054528 ampicillin,ceftriaxone +beta-lactam blaSHV-56_1 EU586041 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaSHV-57_1 AY223863 ampicillin,ceftriaxone beta-lactam blaSHV-59_1 AY790341 ampicillin beta-lactam blaSHV-60_1 AB302939 ampicillin beta-lactam blaSHV-61_1 AJ866284 ampicillin beta-lactam blaSHV-62_1 AJ866285 ampicillin beta-lactam blaSHV-63_1 EU342351 ampicillin +beta-lactam blaSHV-64_1 DQ174304 ampicillin,ceftriaxone beta-lactam blaSHV-65_1 DQ174305 ampicillin +beta-lactam blaSHV-66_1 DQ174306 ampicillin,ceftriaxone beta-lactam blaSHV-67_1 DQ174307 ampicillin beta-lactam blaSHV-69_1 DQ174308 ampicillin +beta-lactam blaSHV-7_1 U20270 ampicillin,ceftriaxone +beta-lactam blaSHV-70_1 DQ013287 ampicillin,ceftriaxone beta-lactam blaSHV-71_1 AM176546 ampicillin +beta-lactam blaSHV-72_1 AM176547 ampicillin,amoxicillin/clavulanic acid beta-lactam blaSHV-73_1 AM176548 ampicillin beta-lactam blaSHV-74_1 AM176549 ampicillin beta-lactam blaSHV-75_1 AM176550 ampicillin @@ -2154,72 +1776,350 @@ beta-lactam blaSHV-76_1 AM176551 ampicillin beta-lactam blaSHV-77_1 EF373975 ampicillin beta-lactam blaSHV-78_1 AM176553 ampicillin beta-lactam blaSHV-79_1 AM176554 ampicillin +beta-lactam blaSHV-8_1 U92041 ampicillin,ceftriaxone beta-lactam blaSHV-80_1 AM176555 ampicillin beta-lactam blaSHV-81_1 AM176556 ampicillin beta-lactam blaSHV-82_1 AM176557 ampicillin beta-lactam blaSHV-85_1 DQ322460 ampicillin +beta-lactam blaSHV-86_1 DQ328802 ampicillin,ceftriaxone beta-lactam blaSHV-89_1 DQ193536 ampicillin +beta-lactam blaSHV-9_1 S82452 ampicillin,ceftriaxone beta-lactam blaSHV-92_1 DQ836922 ampicillin beta-lactam blaSHV-93_1 EF373969 ampicillin beta-lactam blaSHV-94_1 EF373970 ampicillin beta-lactam blaSHV-95_1 EF373972 ampicillin beta-lactam blaSHV-96_1 EF373971 ampicillin beta-lactam blaSHV-97_1 EF373973 ampicillin +beta-lactam blaSHV-98_1 AM941844 ampicillin,ceftriaxone +beta-lactam blaSHV-99_1 AM941845 ampicillin,ceftriaxone beta-lactam blaSIM-1_1 JF731030 ampicillin +beta-lactam blaSMB-1_1 AB636283 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaSME-1_1 Z28968 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaSME-2_1 AF275256 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaSME-3_1 AY584237 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaSPG-1_1 KP109680 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaSPM-1_1 AY341249 ampicillin +beta-lactam blaSPU-1_1 GQ919044 ampicilin,ceftriaxone +beta-lactam blaSRT-1_1 AB008454 ampicilin,ceftriaxone +beta-lactam blaSRT-2_1 AY524276 ampicilin,ceftriaxone +beta-lactam blaSST-1_1 AB008455 ampicilin,ceftriaxone +beta-lactam blaTEM-10_1 AF093512 ampicillin,ceftriaxone +beta-lactam blaTEM-101_1 AF495873 ampicillin,ceftriaxone +beta-lactam blaTEM-102_1 AY040093 ampicillin,ceftriaxone beta-lactam blaTEM-104_1 AF516719 ampicillin beta-lactam blaTEM-105_1 AF516720 ampicillin +beta-lactam blaTEM-106_1 AY101578 ampicillin,ceftriaxone +beta-lactam blaTEM-107_1 AY101764 ampicillin,ceftriaxone beta-lactam blaTEM-108_1 AF506748 ampicillin +beta-lactam blaTEM-109_1 AY628175 ampicillin,amoxicillin/clavulanic acid,ceftriaxone +beta-lactam blaTEM-11_1 AY874537 ampicillin,ceftriaxone beta-lactam blaTEM-110_1 AY072920 ampicillin beta-lactam blaTEM-111_1 AF468003 ampicillin +beta-lactam blaTEM-112_1 AY589493 ampicillin,ceftriaxone +beta-lactam blaTEM-113_1 AY589494 ampicillin,ceftriaxone +beta-lactam blaTEM-114_1 AY589495 ampicillin,ceftriaxone +beta-lactam blaTEM-115_1 AF535127 ampicillin,ceftriaxone +beta-lactam blaTEM-116_1 AY425988 ampicillin +beta-lactam blaTEM-12_1 M88143 ampicillin,ceftriaxone +beta-lactam blaTEM-120_1 AY243512 ampicillin,ceftriaxone +beta-lactam blaTEM-121_1 AY307374 ampicillin,amoxicillin/clavulanic acid,ceftriaxone +beta-lactam blaTEM-122_1 AY307100 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-123_1 AY327539 ampicillin,ceftriaxone +beta-lactam blaTEM-124_1 AY327540 ampicillin,ceftriaxone +beta-lactam blaTEM-125_1 AY628176 ampicillin,amoxicillin/clavulanic acid,ceftriaxone +beta-lactam blaTEM-126_1 AY628199 ampicillin,ceftriaxone beta-lactam blaTEM-127_1 AY368236 ampicillin beta-lactam blaTEM-128_1 AY368237 ampicillin +beta-lactam blaTEM-129_1 AJ746225 ampicillin,ceftriaxone +beta-lactam blaTEM-130_1 AJ866988 ampicillin,ceftriaxone +beta-lactam blaTEM-131_1 AY436361 ampicillin,ceftriaxone +beta-lactam blaTEM-132_1 AY491682 ampicillin,ceftriaxone +beta-lactam blaTEM-133_1 AY528425 ampicillin,ceftriaxone +beta-lactam blaTEM-134_1 AY574271 ampicillin,ceftriaxone beta-lactam blaTEM-135_1 GQ896333 ampicillin +beta-lactam blaTEM-136_1 AY826417 ampicillin,ceftriaxone +beta-lactam blaTEM-137_1 AM286274 ampicillin,ceftriaxone +beta-lactam blaTEM-138_1 AY853593 ampicillin,ceftriaxone +beta-lactam blaTEM-139_1 DQ072853 ampicillin,ceftriaxone beta-lactam blaTEM-141_1 AY956335 ampicillin beta-lactam blaTEM-142_1 DQ388882 ampicillin +beta-lactam blaTEM-143_1 DQ075245 ampicillin,ceftriaxone +beta-lactam blaTEM-144_1 AM049400 ampicillin,ceftriaxone +beta-lactam blaTEM-145_1 DQ105528 ampicillin,amoxicillin/clavulanic acid beta-lactam blaTEM-146_1 DQ105529 ampicillin +beta-lactam blaTEM-147_1 DQ279850 ampicillin,ceftriaxone beta-lactam blaTEM-148_1 AM087454 ampicillin +beta-lactam blaTEM-149_1 DQ369751 ampicillin,ceftriaxone +beta-lactam blaTEM-15_1 AM849805 ampicillin,ceftriaxone beta-lactam blaTEM-150_1 AM183304 ampicillin +beta-lactam blaTEM-151_1 DQ834729 ampicillin,amoxicillin/clavulanic acid,ceftriaxone +beta-lactam blaTEM-152_1 DQ834728 ampicillin,amoxicillin/clavulanic acid,ceftriaxone +beta-lactam blaTEM-153_1 KC149518 ampicillin,ceftriaxone +beta-lactam blaTEM-154_1 FJ807656 ampicillin,amoxicillin/clavulanic acid,ceftriaxone +beta-lactam blaTEM-155_1 DQ679961 ampicillin,ceftriaxone beta-lactam blaTEM-156_1 AM941159 ampicillin +beta-lactam blaTEM-157_1 DQ909059 ampicillin,ceftriaxone beta-lactam blaTEM-158_1 EF534736 ampicillin +beta-lactam blaTEM-159_1 EF136376 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-16_1 X65254 ampicillin,ceftriaxone +beta-lactam blaTEM-160_1 EF136377 ampicillin,amoxicillin/clavulanic acid beta-lactam blaTEM-162_1 EF468463 ampicillin beta-lactam blaTEM-163_1 EU815939 ampicillin +beta-lactam blaTEM-164_1 EU274580 ampicillin,ceftriaxone beta-lactam blaTEM-166_1 FJ197316 ampicillin beta-lactam blaTEM-167_1 FJ360884 ampicillin beta-lactam blaTEM-168_1 FJ919776 ampicillin +beta-lactam blaTEM-169_1 KP012538 ampicillin,ceftriaxone +beta-lactam blaTEM-17_1 Y14574 ampicillin,ceftriaxone beta-lactam blaTEM-171_1 GQ149347 ampicillin beta-lactam blaTEM-176_1 GU550123 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-177_1 FN652295 ampicillin,ceftriaxone +beta-lactam blaTEM-178_1 X97254 ampicillin,amoxicillin/clavulanic acid,ceftriaxone +beta-lactam blaTEM-181_1 KM977568 ampicillin +beta-lactam blaTEM-182_1 HQ317449 ampicillin,amoxicillin/clavulanic acid beta-lactam blaTEM-183_1 HQ529916 ampicillin +beta-lactam blaTEM-184_1 FR848831 ampicillin,ceftriaxone +beta-lactam blaTEM-185_1 JF795538 ampicillin,amoxicillin/clavulanic acid beta-lactam blaTEM-186_1 JN227084 ampicillin +beta-lactam blaTEM-187_1 HM246246 ampicillin,ceftriaxone +beta-lactam blaTEM-188_1 JN211012 ampicillin,ceftriaxone beta-lactam blaTEM-189_1 JN254627 ampicillin +beta-lactam blaTEM-19_1 JX042489 ampicillin beta-lactam blaTEM-190_1 JN416112 ampicillin +beta-lactam blaTEM-191_1 KY432484 ampicillin beta-lactam blaTEM-193_1 JN935135 ampicillin beta-lactam blaTEM-194_1 JN935136 ampicillin beta-lactam blaTEM-195_1 JN935137 ampicillin +beta-lactam blaTEM-196_1 JQ034306 ampicillin +beta-lactam blaTEM-197_1 HQ877606 ampicillin,ceftriaxone beta-lactam blaTEM-198_1 AB700703 ampicillin +beta-lactam blaTEM-1A_1 HM749966 ampicillin beta-lactam blaTEM-1B_1 AY458016 ampicillin +beta-lactam blaTEM-1C_1 FJ560503 ampicillin +beta-lactam blaTEM-1D_1 AF188200 ampicillin beta-lactam blaTEM-2_1 X54606 ampicillin +beta-lactam blaTEM-2_2 AJ251946 ampicillin +beta-lactam blaTEM-20_1 EU527189 ampicillin,ceftriaxone beta-lactam blaTEM-201_1 JX310327 ampicillin beta-lactam blaTEM-205_1 KC900516 ampicillin beta-lactam blaTEM-206_1 KC783461 ampicillin +beta-lactam blaTEM-207_1 KC818234 ampicillin,ceftriaxone beta-lactam blaTEM-208_1 KC865667 ampicillin beta-lactam blaTEM-209_1 KF240808 ampicillin +beta-lactam blaTEM-21_1 Y17582 ampicillin,ceftriaxone +beta-lactam blaTEM-210_1 KJ484630 ampicillin +beta-lactam blaTEM-211_1 KF513179 ampicillin,ceftriaxone +beta-lactam blaTEM-212_1 KF481968 ampicillin beta-lactam blaTEM-213_1 LJEE02000034 ampicillin +beta-lactam blaTEM-214_1 KP050491 ampicillin +beta-lactam blaTEM-215_1 KP050492 ampicillin +beta-lactam blaTEM-216_1 KF944358 ampicillin +beta-lactam blaTEM-217_1 HG934763 ampicillin +beta-lactam blaTEM-219_1 KM114268 ampicillin +beta-lactam blaTEM-22_1 Y17583 ampicillin,ceftriaxone +beta-lactam blaTEM-220_1 KM998962 ampicillin +beta-lactam blaTEM-224_1 KU664545 ampicillin +beta-lactam blaTEM-225_1 KY432403 ampicillin +beta-lactam blaTEM-226_1 KY646301 ampicillin +beta-lactam blaTEM-227_1 KY418040 ampicillin +beta-lactam blaTEM-229_1 MG821356 ampicillin +beta-lactam blaTEM-230_1 MG821377 ampicillin +beta-lactam blaTEM-231_1 MG821378 ampicillin +beta-lactam blaTEM-232_1 MH079593 ampicillin +beta-lactam blaTEM-233_1 MH270416 ampicillin +beta-lactam blaTEM-234_1 MH243353 ampicillin +beta-lactam blaTEM-24_1 GQ293500 ampicillin,ceftriaxone +beta-lactam blaTEM-26_1 LDCJ01000052 ampicillin +beta-lactam blaTEM-28_1 U37195 ampicillin,ceftriaxone +beta-lactam blaTEM-29_1 DQ269440 ampicillin,ceftriaxone +beta-lactam blaTEM-3_1 X64523 ampicillin,ceftriaxone +beta-lactam blaTEM-30_1 AJ437107 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-32_1 CXLQ01000061 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-33_1 GU371926 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-34_1 KC292503 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-35_1 KP860986 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-36_1 KY305958 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-4_1 LK391770 ampicillin +beta-lactam blaTEM-40_1 FR717535 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-43_1 U95363 ampicillin,ceftriaxone +beta-lactam blaTEM-45_1 X95401 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-47_1 Y10279 ampicillin,ceftriaxone +beta-lactam blaTEM-48_1 Y10280 ampicillin,ceftriaxone +beta-lactam blaTEM-49_1 Y10281 ampicillin,ceftriaxone +beta-lactam blaTEM-52_1 Y13612 ampicillin +beta-lactam blaTEM-52B_1 AF027199 ampicillin,ceftriaxone +beta-lactam blaTEM-52C_2 EF141186 ampicillin,ceftriaxone +beta-lactam blaTEM-53_1 AF104441 ampicillin,ceftriaxone +beta-lactam blaTEM-54_1 AF104442 ampicillin,amoxicillin/clavulanic acid beta-lactam blaTEM-55_1 DQ286729 ampicillin beta-lactam blaTEM-57_1 FJ405211 ampicillin +beta-lactam blaTEM-6_1 X57972 ampicillin,ceftriaxone +beta-lactam blaTEM-60_1 AF047171 ampicillin,ceftriaxone +beta-lactam blaTEM-63_1 AF332513 ampicillin,ceftriaxone +beta-lactam blaTEM-67_1 AF091113 ampicillin,amoxicillin/clavulanic acid beta-lactam blaTEM-68_1 AJ239002 ampicillin beta-lactam blaTEM-70_1 AF188199 ampicillin beta-lactam blaTEM-71_1 AF203816 ampicillin beta-lactam blaTEM-72_1 AF157553 ampicillin +beta-lactam blaTEM-76_1 AF190694 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-77_1 AF190695 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-78_1 AF190693 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-79_1 AF190692 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-8_1 X65252 ampicillin,ceftriaxone +beta-lactam blaTEM-80_1 AF347054 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-81_1 AF427127 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-82_1 AF427128 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-83_1 AF427129 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-84_1 AF427130 ampicillin,amoxicillin/clavulanic acid +beta-lactam blaTEM-85_1 AJ277414 ampicillin,ceftriaxone +beta-lactam blaTEM-86_1 AJ277415 ampicillin,ceftriaxone +beta-lactam blaTEM-87_1 AF250872 ampicillin,ceftriaxone +beta-lactam blaTEM-88_1 AY027590 ampicillin,ceftriaxone +beta-lactam blaTEM-9_1 KY271103 ampicillin beta-lactam blaTEM-90_1 AF351241 ampicillin +beta-lactam blaTEM-91_1 AB049569 ampicillin,ceftriaxone +beta-lactam blaTEM-92_1 AF143804 ampicillin,ceftriaxone +beta-lactam blaTEM-93_1 AJ318093 ampicillin,ceftriaxone +beta-lactam blaTEM-94_1 AJ318094 ampicillin,ceftriaxone beta-lactam blaTEM-95_1 AJ308558 ampicillin beta-lactam blaTEM-96_1 AY092401 ampicillin beta-lactam blaTEM-97_1 AF397067 ampicillin beta-lactam blaTEM-98_1 AF397068 ampicillin beta-lactam blaTEM-99_1 AF397066 ampicillin +beta-lactam blaTER-1_1 FJ263091 ampicillin +beta-lactam blaTER-2_1 FJ263090 ampicillin beta-lactam blaTLA-1_1 AF148067 ampicillin +beta-lactam blaTMB-1_1 FR771847 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaTMB-2_1 AB758277 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam blaTRU_1 EU046614 ampicillin beta-lactam blaTUS-1_1 AF441287 ampicillin +beta-lactam blaVCC-1_1 KT818596 ampicillin,meropenem +beta-lactam blaVEB-1_1 HM370393 ampicillin,ceftriaxone +beta-lactam blaVEB-1_3 DQ393569 ampicillin,ceftriaxone +beta-lactam blaVEB-1_4 AF324834 ampicillin,ceftriaxone +beta-lactam blaVEB-2_1 AY027870 ampicillin,ceftriaxone +beta-lactam blaVEB-3_1 AY536519 ampicillin,ceftriaxone +beta-lactam blaVEB-4_1 EF136375 ampicillin,ceftriaxone +beta-lactam blaVEB-5_1 EF420108 ampicillin,ceftriaxone +beta-lactam blaVEB-6_1 EU259884 ampicillin,ceftriaxone +beta-lactam blaVEB-7_1 FJ825622 ampicillin,ceftriaxone +beta-lactam blaVEB-8_1 JX679208 ampicillin,ceftriaxone +beta-lactam blaVHH-1_1 NG050334 ampicillin +beta-lactam blaVHW-1_1 AF217648 ampicillin +beta-lactam blaVIM-1_1 Y18050 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-10_1 AY524989 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-11_1 AY605049 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-12_1 DQ143913 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-13_1 DQ365886 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-14_1 FJ445404 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-15_1 EU419745 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-16_1 EU419746 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-17_1 EU118148 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-18_1 AM778091 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-19_1 FJ499397 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-2_1 AF302086 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-20_1 GQ414736 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-23_1 GQ242167 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-24_1 HM855205 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-25_1 HM750249 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-26_1 FR748153 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-27_1 HQ858608 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-28_1 JF900599 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-29_1 JX311308 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-3_1 AF300454 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-30_1 JN129451 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-31_1 JN982330 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-32_1 JN676230 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-33_1 JX258134 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-34_1 JX013656 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-35_1 JX982634 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-36_1 JX982635 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-37_1 JX982636 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-38_1 KC469971 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-39_1 KF131539 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-4_1 EU581706 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-40_1 HG934765 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-41_1 KP771862 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-42_1 KP071470 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-43_1 KP096412 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-44_1 KP681696 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-45_1 KP681695 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-46_1 KP749829 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-47_1 KT954134 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-48_1 KY362199 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-49_1 KU663374 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-5_1 DQ023222 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-50_1 KU663375 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-51_1 KU746270 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-52_1 KX349731 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-54_1 KY508061 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-56_1 MG834535 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-57_1 MH450217 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-6_1 AY165025 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-7_1 AJ536835 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-8_1 AY524987 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaVIM-9_1 AY524988 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam blaZ_1 CP000704 ampicillin +beta-lactam blaZ_10 FR823292 ampicillin +beta-lactam blaZ_100 LTMH01000008 ampicillin +beta-lactam blaZ_101 LTLP01000099 ampicillin +beta-lactam blaZ_102 MLQA01000023 ampicillin +beta-lactam blaZ_103 FQSJ01000009 ampicillin +beta-lactam blaZ_104 FQHI01000006 ampicillin +beta-lactam blaZ_105 FQJS01000007 ampicillin +beta-lactam blaZ_106 FQHX01000011 ampicillin +beta-lactam blaZ_107 FQDM01000011 ampicillin +beta-lactam blaZ_108 FQPO01000005 ampicillin +beta-lactam blaZ_109 AOAS01000022 ampicillin +beta-lactam blaZ_11 AJ400722 ampicillin +beta-lactam blaZ_110 AJCZ01000013 ampicillin +beta-lactam blaZ_111 AJCN01000010 ampicillin +beta-lactam blaZ_112 AKGL01000044 ampicillin +beta-lactam blaZ_113 AHVS01000008 ampicillin +beta-lactam blaZ_114 NC_013379 ampicillin +beta-lactam blaZ_115 FN433596 ampicillin +beta-lactam blaZ_116 NC_013348 ampicillin +beta-lactam blaZ_117 ACHE01000004 ampicillin +beta-lactam blaZ_118 NC_004461 ampicillin +beta-lactam blaZ_119 NZ_CANQ01000029 ampicillin +beta-lactam blaZ_12 M15195 ampicillin +beta-lactam blaZ_120 NZ_ALWG01000005 ampicillin +beta-lactam blaZ_121 AIWM01000014 ampicillin +beta-lactam blaZ_122 NZ_AJGE01000057 ampicillin +beta-lactam blaZ_123 NC_013653 ampicillin +beta-lactam blaZ_124 NC_013944 ampicillin +beta-lactam blaZ_125 CP003194 ampicillin +beta-lactam blaZ_126 NC_013374 ampicillin +beta-lactam blaZ_127 ACFR01000018 ampicillin +beta-lactam blaZ_128 GQ900471 ampicillin +beta-lactam blaZ_129 CP003194 ampicillin +beta-lactam blaZ_13 KF471116 ampicillin +beta-lactam blaZ_130 AHKZ01000073 ampicillin +beta-lactam blaZ_131 GQ900485 ampicillin +beta-lactam blaZ_132 AHVO01000010 ampicillin +beta-lactam blaZ_133 AIDT01000014 ampicillin +beta-lactam blaZ_134 NZ_AJGE01000047 ampicillin +beta-lactam blaZ_135 AB811795 ampicillin +beta-lactam blaZ_136 NZ_ALWE01000009 ampicillin +beta-lactam blaZ_137 GQ915265 ampicillin +beta-lactam blaZ_138 CP003979 ampicillin +beta-lactam blaZ_14 JBAG01000015 ampicillin +beta-lactam blaZ_15 JAZQ01000018 ampicillin +beta-lactam blaZ_16 JBTH01000015 ampicillin +beta-lactam blaZ_17 JDDF01000008 ampicillin +beta-lactam blaZ_18 JBQW01000016 ampicillin +beta-lactam blaZ_19 JBMK01000007 ampicillin +beta-lactam blaZ_2 CP000731 ampicillin +beta-lactam blaZ_20 JBVX01000014 ampicillin +beta-lactam blaZ_21 JGQH01000014 ampicillin +beta-lactam blaZ_22 JCHI01000035 ampicillin +beta-lactam blaZ_23 JBND01000015 ampicillin +beta-lactam blaZ_24 JBLQ01000018 ampicillin +beta-lactam blaZ_25 JBKK01000017 ampicillin +beta-lactam blaZ_26 JBJP01000007 ampicillin +beta-lactam blaZ_27 JDGZ01000043 ampicillin +beta-lactam blaZ_28 JDYO01000009 ampicillin +beta-lactam blaZ_29 JDXN01000019 ampicillin beta-lactam blaZ_3 CP000732 ampicillin beta-lactam blaZ_30 JGUQ01000012 ampicillin beta-lactam blaZ_31 JIFU01000008 ampicillin @@ -2231,7 +2131,89 @@ beta-lactam blaZ_36 JITV01000006 ampicillin beta-lactam blaZ_37 JIFD01000012 ampicillin beta-lactam blaZ_38 NZ_JEMM01000040 ampicillin beta-lactam blaZ_39 JHTU01000073 ampicillin +beta-lactam blaZ_4 X04121 ampicillin +beta-lactam blaZ_40 NZ_AZBT01000050 ampicillin +beta-lactam blaZ_41 AENR01000015 ampicillin +beta-lactam blaZ_42 CCEE01000006 ampicillin +beta-lactam blaZ_43 NZ_CAVU010000015 ampicillin +beta-lactam blaZ_44 NZ_JWJJ01000015 ampicillin +beta-lactam blaZ_45 CP010941 ampicillin +beta-lactam blaZ_46 CP010944 ampicillin +beta-lactam blaZ_47 NZ_JYGF01000020 ampicillin +beta-lactam blaZ_48 CFPA01000022 ampicillin +beta-lactam blaZ_49 CVLS01000543 ampicillin +beta-lactam blaZ_5 AJ302698 ampicillin +beta-lactam blaZ_50 KR230047 ampicillin +beta-lactam blaZ_51 NZ_JVWO01000108 ampicillin +beta-lactam blaZ_52 NZ_JVWM01000127 ampicillin +beta-lactam blaZ_53 NZ_JUXQ01000001 ampicillin +beta-lactam blaZ_54 NZ_JVRB01000003 ampicillin +beta-lactam blaZ_55 NZ_JVLY01000044 ampicillin +beta-lactam blaZ_56 NZ_JUMU01000089 ampicillin +beta-lactam blaZ_57 NZ_JURP01000126 ampicillin +beta-lactam blaZ_58 NZ_JUUA01000057 ampicillin +beta-lactam blaZ_59 NZ_JVBT01000063 ampicillin +beta-lactam blaZ_6 AP003139 ampicillin +beta-lactam blaZ_60 NZ_JVML01000111 ampicillin +beta-lactam blaZ_61 NZ_JVAT01000021 ampicillin +beta-lactam blaZ_62 NZ_JVOH01000023 ampicillin +beta-lactam blaZ_63 NZ_JUMX01000103 ampicillin +beta-lactam blaZ_64 CSJB01000017 ampicillin +beta-lactam blaZ_65 CSEV01000005 ampicillin +beta-lactam blaZ_66 CSGM01000014 ampicillin +beta-lactam blaZ_67 NZ_CTTL01000039 ampicillin +beta-lactam blaZ_68 NZ_CUHK01000055 ampicillin +beta-lactam blaZ_69 NZ_CUHB01000033 ampicillin +beta-lactam blaZ_7 AP004832 ampicillin +beta-lactam blaZ_70 NZ_CUEK01000047 ampicillin +beta-lactam blaZ_71 NZ_CUGR01000082 ampicillin +beta-lactam blaZ_72 NZ_CUHG01000035 ampicillin +beta-lactam blaZ_73 CYNA01000004 ampicillin +beta-lactam blaZ_74 CZWI01000159 ampicillin +beta-lactam blaZ_75 LNTF01000008 ampicillin +beta-lactam blaZ_76 FFOR01000002 ampicillin +beta-lactam blaZ_77 FGNH01000009 ampicillin +beta-lactam blaZ_78 KU607301 ampicillin +beta-lactam blaZ_79 KU607584 ampicillin +beta-lactam blaZ_8 HE993884 ampicillin +beta-lactam blaZ_80 KU607855 ampicillin +beta-lactam blaZ_81 FGJZ01000020 ampicillin +beta-lactam blaZ_82 FGSJ01000003 ampicillin +beta-lactam blaZ_83 FGWO01000019 ampicillin +beta-lactam blaZ_84 FHDH01000010 ampicillin +beta-lactam blaZ_85 NZ_FHDT01000016 ampicillin +beta-lactam blaZ_86 AIZE01000023 ampicillin +beta-lactam blaZ_87 NZ_LRNC01000042 ampicillin +beta-lactam blaZ_88 FKTX01000011 ampicillin +beta-lactam blaZ_89 FKPS01000007 ampicillin +beta-lactam blaZ_9 DQ269019 ampicillin +beta-lactam blaZ_90 FKVU01000010 ampicillin +beta-lactam blaZ_91 FKQH01000022 ampicillin +beta-lactam blaZ_92 FKWG01000001 ampicillin +beta-lactam blaZ_93 FKQA01000038 ampicillin +beta-lactam blaZ_94 LYRW01000005 ampicillin +beta-lactam blaZ_95 MAJJ01000071 ampicillin +beta-lactam blaZ_96 LNDI01000019 ampicillin +beta-lactam blaZ_97 FMOK01000003 ampicillin +beta-lactam blaZ_98 LTEF01000041 ampicillin +beta-lactam blaZ_99 LTNH01000008 ampicillin beta-lactam blaZEG-1_1 AY265891 ampicillin +beta-lactam cepA_1 L13472 ampicillin +beta-lactam cepA_1 U05887 ampicillin +beta-lactam cepA_6 FR688022 ampicillin +beta-lactam cepA-29_1 U05884 ampicillin +beta-lactam cepA-44_1 U05885 ampicillin +beta-lactam cepA-49_1 U05886 ampicillin +beta-lactam cfiA1_1 AB087225 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA10_1 AB087227 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA13_1 FM200787 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA14_1 FM200789 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA2_1 AB087226 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA3_1 AB087228 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA4_1 AB087229 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA6_1 AB087231 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA8_1 AB087233 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem +beta-lactam cfiA9_1 AB087234 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem beta-lactam cfxA_1 U38243 ampicillin beta-lactam cfxA2_1 AF504914 ampicillin beta-lactam cfxA3_1 AF472622 ampicillin @@ -2252,13 +2234,31 @@ beta-lactam cphA8_1 AY261375 ampicillin beta-lactam hugA_1 AF324468 ampicillin beta-lactam imiH_1 AJ548797 ampicillin beta-lactam imiS_1 Y10415 ampicillin +beta-lactam mecA_1 NC_002745 penicillin +beta-lactam mecA_2 NC_002951 penicillin +beta-lactam mecA_3 Y13095 penicillin +beta-lactam mecA_4 AB546266 penicillin +beta-lactam mecA_5 AB546267 penicillin +beta-lactam mecA_6 BX571856 penicillin +beta-lactam mecA_7 HE861945 penicillin +beta-lactam mecA_8 NC_007168 penicillin +beta-lactam mecA_9 AB505630 penicillin +beta-lactam mecA1_1 AB547235 penicillin +beta-lactam mecA1_2 AY820253 penicillin +beta-lactam mecA1_3 Y13094 penicillin +beta-lactam mecA1_4 AB547236 penicillin +beta-lactam mecA1_5 AB547234 penicillin +beta-lactam mecA2_1 AM048811 penicillin +beta-lactam mecA2_2 AB546780 penicillin +beta-lactam mecB_1 NC_011996 penicillin +beta-lactam mecC_1 FR821779 penicillin +beta-lactam mecC_2 FR823292 penicillin +beta-lactam mecC_3 KR732654 penicillin +beta-lactam mecC_4 HG515014 penicillin +beta-lactam mecC2_1 KF955540 penicillin +beta-lactam mecD_1 KY013611 penicillin beta-lactam penA_1 AF515059 ampicillin -beta-lactam blaSPU-1_1 GQ919044 ampicilin,ceftriaxone -beta-lactam blaSRT-1_1 AB008454 ampicilin,ceftriaxone -beta-lactam blaSRT-2_1 AY524276 ampicilin,ceftriaxone -beta-lactam blaSST-1_1 AB008455 ampicilin,ceftriaxone -beta-lactam blaLAP-1_1 EF026092 ampicillin -beta-lactam blaLAP-2_1 EU159120 ampicillin +beta-lactam POM-1_1 GU002295 ampicillin,amoxicillin/clavulanic acid,cefoxitin,ceftriaxone,meropenem colistin mcr-1.1_1 KP347127 colistin colistin mcr-1.2_1 KX236309 colistin colistin mcr-1.3_1 KU934208 colistin @@ -2311,7 +2311,7 @@ colistin mcr-3.23_1 NG060583 colistin colistin mcr-3.25_1 NG060585 colistin colistin mcr-4.5_1 MG822664 colistin colistin mcr-8_1 MG736312 colistin -colistin mcr-9_1 NZ_NAAN01000063.1 None +colistin mcr-9_1 NZ_NAAN01000063.1 fosfomycin fosB1_1 CP001903 fosfomycin fosfomycin fosX_1 AP010904 fosfomycin fosfomycin fos_1 ACCV01000052 fosfomycin @@ -2526,8 +2526,8 @@ macrolide mph(E)_2 JF769133 erythromycin,azithromycin macrolide vga(D)_1 GQ205627 virginiamycin macrolide vga(C)_1 FN806792 virginiamycin macrolide vga(E)_1 FR772051 virginiamycin -macrolide lsa(A)_1 AY225127 lincomycin -macrolide lsa(A)_3 AY737526 lincomycin +macrolide lsa(A)_1 AY225127 lincomycin,clindamycin +macrolide lsa(A)_3 AY737526 lincomycin,clindamycin macrolide erm(W)_1 D14532 lincomycin macrolide cfr_1 AM408573 clindamycin macrolide cfr_2 AJ879565 clindamycin @@ -2572,6 +2572,7 @@ macrolide mdf(A)_1 Y08743 erythromycin,azithromycin,lincomycin,tetracycline macrolide mdt(A)_1 X92946 erythromycin,azithromycin,lincomycin,tetracycline macrolide mre(A)_1 U92073 erythromycin,azithromycin macrolide cmr_1 U43535 +macrolide lsa(E)_1 JX560992 lincomycin,clindamycin nitroimidazole nimA_1 X71444 nitroimidazole nitroimidazole nimB_1 X71443 nitroimidazole nitroimidazole nimC_1 X76948 nitroimidazole From 5485a9603cfe159c00d19e630154fc5ce9d8e662 Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 14:41:32 -0600 Subject: [PATCH 15/25] Reverting changes to ampC_promoter. --- .../resistance/data/ARG_drug_key_pointfinder.tsv | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv index 46a1425..99b1b4f 100644 --- a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv +++ b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv @@ -110,10 +110,10 @@ e.coli 16S_rrsC 794 kasugamicin e.coli 16S_rrsC 926 kasugamicin e.coli 16S_rrsC 1519 kasugamicin e.coli 16S_rrsH 1192 spectinomycin -e.coli ampC_promoter_size_53bp -42 ampicillin,amoxicillin/clavulanic acid,cefoxitin -e.coli ampC_promoter_size_53bp -32 ampicillin,amoxicillin/clavulanic acid,cefoxitin -e.coli ampC_promoter_size_53bp -13 ampicillin,amoxicillin/clavulanic acid,cefoxitin -e.coli ampC_promoter_size_53bp -12 ampicillin,amoxicillin/clavulanic acid,cefoxitin +e.coli ampC_promoter -42 ampicillin,amoxicillin/clavulanic acid,cefoxitin +e.coli ampC_promoter -32 ampicillin,amoxicillin/clavulanic acid,cefoxitin +e.coli ampC_promoter -13 ampicillin,amoxicillin/clavulanic acid,cefoxitin +e.coli ampC_promoter -12 ampicillin,amoxicillin/clavulanic acid,cefoxitin campylobacter gyrA 70 ciprofloxacin,nalidixic acid campylobacter gyrA 85 ciprofloxacin,nalidixic acid campylobacter gyrA 86 ciprofloxacin,nalidixic acid From fc0520e44f5a63ff9086159567b32f272e003951 Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 15:28:28 -0600 Subject: [PATCH 16/25] e.coli -> escherichia_coli --- .../data/ARG_drug_key_pointfinder.tsv | 130 +++++++++--------- 1 file changed, 65 insertions(+), 65 deletions(-) diff --git a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv index 99b1b4f..904510b 100644 --- a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv +++ b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv @@ -49,71 +49,71 @@ salmonella 16S_rrsD 1065 spectinomycin salmonella 16S_rrsD 1192 spectinomycin salmonella parC 57 salmonella acrB 171 azithromycin -e.coli gyrA 51 ciprofloxacin I/R,nalidixic acid -e.coli gyrA 67 ciprofloxacin I/R,nalidixic acid -e.coli gyrA 81 ciprofloxacin I/R,nalidixic acid -e.coli gyrA 82 ciprofloxacin I/R,nalidixic acid -e.coli gyrA 83 ciprofloxacin I/R,nalidixic acid -e.coli gyrA 84 ciprofloxacin I/R,nalidixic acid -e.coli gyrA 87 ciprofloxacin I/R,nalidixic acid -e.coli gyrA 106 ciprofloxacin I/R,nalidixic acid -e.coli gyrA 196 ciprofloxacin I/R,nalidixic acid -e.coli gyrB 136 aminocoumarin -e.coli gyrB 426 ciprofloxacin I/R,nalidixic acid -e.coli gyrB 447 ciprofloxacin I/R,nalidixic acid -e.coli parC 56 ciprofloxacin I/R,nalidixic acid -e.coli parC 57 -e.coli parC 60 ciprofloxacin I/R,nalidixic acid -e.coli parC 78 ciprofloxacin I/R,nalidixic acid -e.coli parC 80 ciprofloxacin I/R,nalidixic acid -e.coli parC 84 ciprofloxacin I/R,nalidixic acid -e.coli parC 108 ciprofloxacin I/R,nalidixic acid -e.coli parE 416 ciprofloxacin I/R,nalidixic acid -e.coli parE 423 ciprofloxacin I/R,nalidixic acid -e.coli parE 439 ciprofloxacin I/R,nalidixic acid -e.coli parE 444 ciprofloxacin I/R,nalidixic acid -e.coli parE 458 ciprofloxacin I/R,nalidixic acid -e.coli parE 460 ciprofloxacin I/R,nalidixic acid -e.coli parE 464 ciprofloxacin I/R,nalidixic acid -e.coli parE 470 ciprofloxacin I/R,nalidixic acid -e.coli parE 475 ciprofloxacin I/R,nalidixic acid -e.coli parE 476 ciprofloxacin I/R,nalidixic acid -e.coli parE 529 ciprofloxacin I/R,nalidixic acid -e.coli pmrA 39 colistin -e.coli pmrA 81 colistin -e.coli pmrB 161 colistin -e.coli folP 64 sulfisoxazole -e.coli rpoB 146 rifamycin -e.coli rpoB 513 rifamycin -e.coli rpoB 526 rifamycin -e.coli rpoB 529 rifamycin -e.coli rpoB 531 rifamycin -e.coli rpoB 533 rifamycin -e.coli rpoB 563 rifamycin -e.coli rpoB 564 rifamycin -e.coli rpoB 687 rifamycin -e.coli 23S 2059 erythromycin,azithromycin -e.coli 16S_rrsB 523 streptomycin -e.coli 16S_rrsB 527 streptomycin -e.coli 16S_rrsB 528 streptomycin -e.coli 16S_rrsB 964 tetracycline -e.coli 16S_rrsB 1053 tetracycline -e.coli 16S_rrsB 1054 tetracycline -e.coli 16S_rrsB 1055 tetracycline -e.coli 16S_rrsB 1058 tetracycline -e.coli 16S_rrsB 1064 spectinomycin -e.coli 16S_rrsB 1066 spectinomycin -e.coli 16S_rrsB 1068 spectinomycin -e.coli 16S_rrsB 1406 gentamicin,kanamycin,tobramycin -e.coli 16S_rrsB 1408 gentamicin,kanamycin,neomycin,paromomycin -e.coli 16S_rrsC 794 kasugamicin -e.coli 16S_rrsC 926 kasugamicin -e.coli 16S_rrsC 1519 kasugamicin -e.coli 16S_rrsH 1192 spectinomycin -e.coli ampC_promoter -42 ampicillin,amoxicillin/clavulanic acid,cefoxitin -e.coli ampC_promoter -32 ampicillin,amoxicillin/clavulanic acid,cefoxitin -e.coli ampC_promoter -13 ampicillin,amoxicillin/clavulanic acid,cefoxitin -e.coli ampC_promoter -12 ampicillin,amoxicillin/clavulanic acid,cefoxitin +escherichia_coli gyrA 51 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrA 67 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrA 81 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrA 82 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrA 83 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrA 84 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrA 87 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrA 106 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrA 196 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrB 136 aminocoumarin +escherichia_coli gyrB 426 ciprofloxacin I/R,nalidixic acid +escherichia_coli gyrB 447 ciprofloxacin I/R,nalidixic acid +escherichia_coli parC 56 ciprofloxacin I/R,nalidixic acid +escherichia_coli parC 57 +escherichia_coli parC 60 ciprofloxacin I/R,nalidixic acid +escherichia_coli parC 78 ciprofloxacin I/R,nalidixic acid +escherichia_coli parC 80 ciprofloxacin I/R,nalidixic acid +escherichia_coli parC 84 ciprofloxacin I/R,nalidixic acid +escherichia_coli parC 108 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 416 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 423 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 439 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 444 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 458 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 460 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 464 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 470 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 475 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 476 ciprofloxacin I/R,nalidixic acid +escherichia_coli parE 529 ciprofloxacin I/R,nalidixic acid +escherichia_coli pmrA 39 colistin +escherichia_coli pmrA 81 colistin +escherichia_coli pmrB 161 colistin +escherichia_coli folP 64 sulfisoxazole +escherichia_coli rpoB 146 rifamycin +escherichia_coli rpoB 513 rifamycin +escherichia_coli rpoB 526 rifamycin +escherichia_coli rpoB 529 rifamycin +escherichia_coli rpoB 531 rifamycin +escherichia_coli rpoB 533 rifamycin +escherichia_coli rpoB 563 rifamycin +escherichia_coli rpoB 564 rifamycin +escherichia_coli rpoB 687 rifamycin +escherichia_coli 23S 2059 erythromycin,azithromycin +escherichia_coli 16S_rrsB 523 streptomycin +escherichia_coli 16S_rrsB 527 streptomycin +escherichia_coli 16S_rrsB 528 streptomycin +escherichia_coli 16S_rrsB 964 tetracycline +escherichia_coli 16S_rrsB 1053 tetracycline +escherichia_coli 16S_rrsB 1054 tetracycline +escherichia_coli 16S_rrsB 1055 tetracycline +escherichia_coli 16S_rrsB 1058 tetracycline +escherichia_coli 16S_rrsB 1064 spectinomycin +escherichia_coli 16S_rrsB 1066 spectinomycin +escherichia_coli 16S_rrsB 1068 spectinomycin +escherichia_coli 16S_rrsB 1406 gentamicin,kanamycin,tobramycin +escherichia_coli 16S_rrsB 1408 gentamicin,kanamycin,neomycin,paromomycin +escherichia_coli 16S_rrsC 794 kasugamicin +escherichia_coli 16S_rrsC 926 kasugamicin +escherichia_coli 16S_rrsC 1519 kasugamicin +escherichia_coli 16S_rrsH 1192 spectinomycin +escherichia_coli ampC_promoter -42 ampicillin,amoxicillin/clavulanic acid,cefoxitin +escherichia_coli ampC_promoter -32 ampicillin,amoxicillin/clavulanic acid,cefoxitin +escherichia_coli ampC_promoter -13 ampicillin,amoxicillin/clavulanic acid,cefoxitin +escherichia_coli ampC_promoter -12 ampicillin,amoxicillin/clavulanic acid,cefoxitin campylobacter gyrA 70 ciprofloxacin,nalidixic acid campylobacter gyrA 85 ciprofloxacin,nalidixic acid campylobacter gyrA 86 ciprofloxacin,nalidixic acid From ae7e7d8fd37cfe8d40811759241f18bc0f8e3117 Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 15:41:28 -0600 Subject: [PATCH 17/25] Removing Nones/blanks. --- staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv | 2 -- 1 file changed, 2 deletions(-) diff --git a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv index 904510b..9d31ef2 100644 --- a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv +++ b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv @@ -47,7 +47,6 @@ salmonella parE 514 ciprofloxacin I/R,nalidixic acid salmonella parE 521 ciprofloxacin I/R,nalidixic acid salmonella 16S_rrsD 1065 spectinomycin salmonella 16S_rrsD 1192 spectinomycin -salmonella parC 57 salmonella acrB 171 azithromycin escherichia_coli gyrA 51 ciprofloxacin I/R,nalidixic acid escherichia_coli gyrA 67 ciprofloxacin I/R,nalidixic acid @@ -62,7 +61,6 @@ escherichia_coli gyrB 136 aminocoumarin escherichia_coli gyrB 426 ciprofloxacin I/R,nalidixic acid escherichia_coli gyrB 447 ciprofloxacin I/R,nalidixic acid escherichia_coli parC 56 ciprofloxacin I/R,nalidixic acid -escherichia_coli parC 57 escherichia_coli parC 60 ciprofloxacin I/R,nalidixic acid escherichia_coli parC 78 ciprofloxacin I/R,nalidixic acid escherichia_coli parC 80 ciprofloxacin I/R,nalidixic acid From 9f82e3140ee6969c5fcd561cf7c839314898d39e Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 15:43:26 -0600 Subject: [PATCH 18/25] Updating changelog. --- CHANGELOG.md | 3 +++ 1 file changed, 3 insertions(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index bf39046..d24c8e7 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,5 +1,8 @@ # Unreleased +* Removed ARG drug key entries with "None" or missing resistance. +* The ARG drug key for salmonella acrB 717 has changed to acrB 171. + # Version 0.10.0 * Updated the Plasmidfinder database to use the January 18th 2023 release. From bb930f56791dba99f2c8d396af9058a78ce05b66 Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 15:44:59 -0600 Subject: [PATCH 19/25] Updating ARG database versions. --- staramr/databases/resistance/data/info.ini | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/staramr/databases/resistance/data/info.ini b/staramr/databases/resistance/data/info.ini index 60d1b67..9e25f62 100644 --- a/staramr/databases/resistance/data/info.ini +++ b/staramr/databases/resistance/data/info.ini @@ -1,3 +1,3 @@ [Versions] -pointfinder_gene_drug_version = 072621.2 -resfinder_gene_drug_version = 072621 +pointfinder_gene_drug_version = 070623 +resfinder_gene_drug_version = 072423 From 22197c01a7a74dea2cc3d4545ec457bb4f114823 Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 9 Dec 2024 15:59:09 -0600 Subject: [PATCH 20/25] Adding Jupyter notebook changes. --- .../pointfinder-drug-resistance.ipynb | 14 ++- .../resfinder-drug-resistance.ipynb | 101 ++++++++++-------- 2 files changed, 67 insertions(+), 48 deletions(-) diff --git a/scripts/data-conversion/pointfinder-drug-resistance.ipynb b/scripts/data-conversion/pointfinder-drug-resistance.ipynb index ef3d567..ff765de 100644 --- a/scripts/data-conversion/pointfinder-drug-resistance.ipynb +++ b/scripts/data-conversion/pointfinder-drug-resistance.ipynb @@ -17,7 +17,7 @@ { "data": { "text/plain": [ - "dict_keys(['Salmonella', 'Shigella E. coli', 'Campylobacter'])" + "dict_keys(['Salmonella', 'Shigella E. coli', 'Campylobacter', 'NCBI AMRfinder'])" ] }, "execution_count": 1, @@ -28,7 +28,7 @@ "source": [ "import pandas as pd\n", "\n", - "pointfinder_file = '../../drug-key-update/pointfinder 072621.xlsx'\n", + "pointfinder_file = '../../pointfinder.xlsx'\n", "\n", "pointfinder_excel = pd.ExcelFile(pointfinder_file)\n", "sheets_df_map_orig = {n: pd.read_excel(pointfinder_excel, sheet_name=n, header=None) for n in pointfinder_excel.sheet_names}\n", @@ -407,6 +407,14 @@ "source": [ "pointfinder_df_reduced.to_csv('../../staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv', sep='\\t', index=False)" ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "938df9d4-d16a-4855-aee0-5208fadfad68", + "metadata": {}, + "outputs": [], + "source": [] } ], "metadata": { @@ -425,7 +433,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.10.4" + "version": "3.12.3" } }, "nbformat": 4, diff --git a/scripts/data-conversion/resfinder-drug-resistance.ipynb b/scripts/data-conversion/resfinder-drug-resistance.ipynb index 40b8314..123b87a 100644 --- a/scripts/data-conversion/resfinder-drug-resistance.ipynb +++ b/scripts/data-conversion/resfinder-drug-resistance.ipynb @@ -10,17 +10,17 @@ }, { "cell_type": "code", - "execution_count": 1, + "execution_count": 3, "id": "ba3db1bf-344d-40c7-a4d4-fb5dab85a822", "metadata": {}, "outputs": [ { "data": { "text/plain": [ - "dict_keys(['Aminoglycoside', 'B-lactam', 'Colistin', 'Fosfomycin', 'Fusidic acid', 'Glycopeptide', 'Macrolide', 'Nitroimidazole', 'Oxazolidinone', 'Phenicol', 'Quinolone', 'Rifampicin', 'Sulphonamide', 'Tetracycline', 'Trimethoprim', 'Non-functional'])" + "dict_keys(['Aminoglycoside', 'B-lactam', 'Colistin', 'Fosfomycin', 'Fusidic acid', 'Glycopeptide', 'Macrolide', 'Nitroimidazole', 'Oxazolidinone', 'Phenicol', 'Quinolone', 'Sulphonamide', 'Rifampicin', 'Tetracycline', 'Trimethoprim', 'Non-functional'])" ] }, - "execution_count": 1, + "execution_count": 3, "metadata": {}, "output_type": "execute_result" } @@ -28,7 +28,7 @@ "source": [ "import pandas as pd\n", "\n", - "resfinder_file = '../../drug-key-update/Resfinder 3.0 drug key 072621.xlsx'\n", + "resfinder_file = '../../resfinder.xlsx'\n", "\n", "resfinder_excel = pd.ExcelFile(resfinder_file)\n", "sheets_df_map_orig = {n: pd.read_excel(resfinder_excel, sheet_name=n, header=None) for n in resfinder_excel.sheet_names}\n", @@ -45,7 +45,7 @@ }, { "cell_type": "code", - "execution_count": 2, + "execution_count": 4, "id": "247c35d5-3075-4a6f-aad8-c6da5b908b7b", "metadata": {}, "outputs": [ @@ -109,7 +109,7 @@ "2 aminoglycoside aac(6')-30-aac(6')-Ib'_1_AJ584652 gentamicin NaN" ] }, - "execution_count": 2, + "execution_count": 4, "metadata": {}, "output_type": "execute_result" } @@ -130,7 +130,7 @@ }, { "cell_type": "code", - "execution_count": 3, + "execution_count": 5, "id": "7ad1a1b3-e7a3-4617-94ce-cf4515f67fe1", "metadata": {}, "outputs": [ @@ -211,7 +211,7 @@ "2 NaN NaN " ] }, - "execution_count": 3, + "execution_count": 5, "metadata": {}, "output_type": "execute_result" } @@ -233,40 +233,43 @@ }, { "cell_type": "code", - "execution_count": 4, + "execution_count": 6, "id": "fb20e101-6ba9-4d7c-be25-6f3bac08ec07", "metadata": {}, "outputs": [ { "data": { "text/plain": [ - " 3069\n", + "Other\n", + " 3070\n", "formerly aadB 19\n", "formerly aadE 2\n", - "formerly strA 2\n", "AMRfinderShig/Ecoeffluxchromosomal wildtype pump 2\n", - " formerly strA_2 1\n", - " formerly strA_3 1\n", + "formerly strA 2\n", + "ResfinderSalmonellaaminoglycosidecryptic chromosomal wildtype gene, hidden 1\n", + "AMRfinderEcocolistintwo-component system sensor histidine kinase, multiple genes involved, effects not known 1\n", + "AMRfinderEcofosfomycinglycerol-3-phosphate transporter, drug not tested 1\n", "Resfinder BNEcomacrolidesremoved from updated Resfinder 1\n", "Resfinder JessSal/Ecoeffluxdisinfectants 1\n", "ResfinderShig/Ecoeffluxchromosomal wildtype pump, hidden 1\n", "AMRfindermultipleSTREPTOGRAMINdrug not tested 1\n", "AMRfindermultipleQUATERNARY AMMONIUMdrug not tested, biocide 1\n", "AMRfindermultipleSTREPTOTHRICINdrug not tested 1\n", - "ResfinderSalmonellaaminoglycosidecryptic chromosomal wildtype gene, hidden 1\n", + "AMRfinderShig/Ecoeffluxchromosomal wildtype pump, similar to AR pump in Klebsiella, may be involved in biofilm formation 1\n", "ResfinderSalmonellaquinolonescommon mutation, little or no effect on MICs, hidden 1\n", "AMRfinderSalmonellaeffluxchromosomal wildtype pump, may be involved in virulence 1\n", - "AMRfinderShig/Ecoeffluxchromosomal wildtype pump, similar to AR pump in Klebsiella, may be involved in biofilm formation 1\n", - "formerly aadA4 1\n", "AMRfinderShig/EcoB-lactamchromosomal wildtype gene, promoter mutations needed for function 1\n", "databaseorganismdrug classnotes 1\n", "formerly strB_3 1\n", " formerly strA_4 1\n", + " formerly strA_3 1\n", + " formerly strA_2 1\n", + "formerly aadA4 1\n", "*due to the higher breakpoints for some Enterobacteriaceae including shigella and E. coli, PMQRs are predicted to confer decreased susceptibility to fluoroquinolones but not intermediate susceptibility or resistance. 1\n", - "Name: Other, dtype: int64" + "Name: count, dtype: int64" ] }, - "execution_count": 4, + "execution_count": 6, "metadata": {}, "output_type": "execute_result" } @@ -291,7 +294,7 @@ }, { "cell_type": "code", - "execution_count": 5, + "execution_count": 7, "id": "1cbeebcf-cebb-4fb1-b063-b4bea7dc06cb", "metadata": {}, "outputs": [ @@ -304,15 +307,15 @@ "3 aac(6')-Iaj_1_AB709942\n", "4 aac(6')-Ian_1_AP014611\n", " ... \n", - "3107 dfrA17_6_AF180469\n", - "3108 dfrA17_7_AB196349\n", - "3109 dfrA17_8_AM932673\n", - "3110 dfrA17_9_FJ807902\n", - "3111 dfrA17_10_AM937244\n", - "Name: gene_accession, Length: 3112, dtype: object" + "3110 dfrA17_6_AF180469\n", + "3111 dfrA17_7_AB196349\n", + "3112 dfrA17_8_AM932673\n", + "3113 dfrA17_9_FJ807902\n", + "3114 dfrA17_10_AM937244\n", + "Name: gene_accession, Length: 3115, dtype: object" ] }, - "execution_count": 5, + "execution_count": 7, "metadata": {}, "output_type": "execute_result" } @@ -323,7 +326,7 @@ }, { "cell_type": "code", - "execution_count": 6, + "execution_count": 9, "id": "52028c02-0f54-4fc0-844d-f77e971fce1f", "metadata": {}, "outputs": [ @@ -398,35 +401,35 @@ " ...\n", " \n", " \n", - " 3107\n", + " 3110\n", " trimethoprim\n", " dfrA17_6\n", " AF180469\n", " trimethoprim\n", " \n", " \n", - " 3108\n", + " 3111\n", " trimethoprim\n", " dfrA17_7\n", " AB196349\n", " trimethoprim\n", " \n", " \n", - " 3109\n", + " 3112\n", " trimethoprim\n", " dfrA17_8\n", " AM932673\n", " trimethoprim\n", " \n", " \n", - " 3110\n", + " 3113\n", " trimethoprim\n", " dfrA17_9\n", " FJ807902\n", " trimethoprim\n", " \n", " \n", - " 3111\n", + " 3114\n", " trimethoprim\n", " dfrA17_10\n", " AM937244\n", @@ -434,7 +437,7 @@ " \n", " \n", "\n", - "

3098 rows × 4 columns

\n", + "

3099 rows × 4 columns

\n", "" ], "text/plain": [ @@ -445,16 +448,16 @@ "3 aminoglycoside aac(6')-Iaj_1 AB709942 gentamicin\n", "4 aminoglycoside aac(6')-Ian_1 AP014611 gentamicin\n", "... ... ... ... ...\n", - "3107 trimethoprim dfrA17_6 AF180469 trimethoprim\n", - "3108 trimethoprim dfrA17_7 AB196349 trimethoprim\n", - "3109 trimethoprim dfrA17_8 AM932673 trimethoprim\n", - "3110 trimethoprim dfrA17_9 FJ807902 trimethoprim\n", - "3111 trimethoprim dfrA17_10 AM937244 trimethoprim\n", + "3110 trimethoprim dfrA17_6 AF180469 trimethoprim\n", + "3111 trimethoprim dfrA17_7 AB196349 trimethoprim\n", + "3112 trimethoprim dfrA17_8 AM932673 trimethoprim\n", + "3113 trimethoprim dfrA17_9 FJ807902 trimethoprim\n", + "3114 trimethoprim dfrA17_10 AM937244 trimethoprim\n", "\n", - "[3098 rows x 4 columns]" + "[3099 rows x 4 columns]" ] }, - "execution_count": 6, + "execution_count": 9, "metadata": {}, "output_type": "execute_result" } @@ -485,7 +488,7 @@ "resfinder_df['Drug'] = resfinder_df['Drug'].str.strip()\n", "\n", "# Now, get rid of spaces and replace with commas\n", - "resfinder_df['Drug'] = resfinder_df['Drug'].str.replace('\\s+', ',', regex=True)\n", + "resfinder_df['Drug'] = resfinder_df['Drug'].str.replace(r'\\s+', ',', regex=True)\n", "\n", "# Now fix up specific cases where there should be spaces\n", "resfinder_df['Drug'] = resfinder_df['Drug'].str.replace(',acid', ' acid')\n", @@ -507,7 +510,7 @@ }, { "cell_type": "code", - "execution_count": 7, + "execution_count": 10, "id": "44663836-3cb9-49e4-bd78-2466a782d3d3", "metadata": {}, "outputs": [ @@ -570,7 +573,7 @@ "151 NaN NaN NaN NaN aac(6')-IIc_1 NC_012555 " ] }, - "execution_count": 7, + "execution_count": 10, "metadata": {}, "output_type": "execute_result" } @@ -590,13 +593,21 @@ }, { "cell_type": "code", - "execution_count": 8, + "execution_count": 11, "id": "be0dddd6-92db-4720-9632-3ccfa5bfbd7a", "metadata": {}, "outputs": [], "source": [ "resfinder_df.to_csv('../../staramr/databases/resistance/data/ARG_drug_key_resfinder.tsv', sep='\\t', index=False)" ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "36e8944e-6acc-4fa7-9424-8d51c657644f", + "metadata": {}, + "outputs": [], + "source": [] } ], "metadata": { @@ -615,7 +626,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.10.4" + "version": "3.12.3" } }, "nbformat": 4, From 439a66eaff3c9c859c0ebd4dbbccd68cd447f9c4 Mon Sep 17 00:00:00 2001 From: Eric Date: Tue, 10 Dec 2024 14:21:20 -0600 Subject: [PATCH 21/25] Updating README --- README.md | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-) diff --git a/README.md b/README.md index 748f064..5d616de 100644 --- a/README.md +++ b/README.md @@ -145,7 +145,7 @@ If you wish to update to the latest ResFinder, PointFinder, and PlasmidFinder da staramr db update --update-default ``` -If you wish to switch to specific git commits of either ResFinder, PointFinder, or PlasmidFinder databases you may also pass `--resfinder-commit [COMMIT]`, `--pointfinder-commit [COMMIT]`, and `--plasmidfinder-commit [COMMIT]`. +If you wish to switch to specific git commits of either ResFinder, PointFinder, or PlasmidFinder databases you may also pass `--resfinder-commit [COMMIT]`, `--pointfinder-commit [COMMIT]`, and `--plasmidfinder-commit [COMMIT]`. However, please note that because of compatibility issues arising from changes in the source databases, this functionality is largely unsupported and is unlikely to work for versions of the databases that the StarAMR release wasn't released with. ## Restore Database @@ -245,11 +245,11 @@ By default, the ResFinder/PointFinder/PlasmidFinder genes listed in [genes_to_ex ``` gene_id -aac(6')-Iaa_1_NC_003197 -ColpVC_1__JX133088 +gyrA_1_CP073768.1 +pmrB_1_CP051284.1 ``` -Please make sure to include `gene_id` in the first line. The default exclusion list can also be disabled with `--no-exclude-genes`. +Please make sure to include `gene_id` in the first line. The default exclusion list can also be disabled with `--no-exclude-genes`. Gene IDs must exactly match the FASTA record IDs provided in the source databases. ## Complex Mutations @@ -504,7 +504,7 @@ Restores the default database for `staramr`. # Caveats -This software is still a work-in-progress. In particular, not all organisms stored in the PointFinder database are supported (only *salmonella*, *campylobacter* are currently supported). Additionally, the predicted phenotypes are for microbiological resistance and *not* clinical resistance. Phenotype/drug resistance predictions are an experimental feature which is continually being improved. +This software is still a work-in-progress. In particular, not all organisms stored in the PointFinder database are supported (only *enterococcus_faecalis*, *helicobacter_pylori*, *enterococcus_faecium*, *campylobacter*, *escherichia_coli*, *salmonella* are currently supported). Additionally, the predicted phenotypes are for microbiological resistance and *not* clinical resistance. Phenotype/drug resistance predictions are an experimental feature which is continually being improved. `staramr` only works on assembled genomes and not directly on reads. A quick genome assembler you could use is [Shovill][shovill]. Or, you may also wish to try out the [ResFinder webservice][resfinder-web], or the command-line tools [rgi][] or [ariba][] which will work on sequence reads as well as genome assemblies. You may also wish to check out the [CARD webservice][card-web]. From d53dcf814434ace7a3939e0f6df2062e0f8ce48f Mon Sep 17 00:00:00 2001 From: Eric Date: Tue, 10 Dec 2024 14:27:18 -0600 Subject: [PATCH 22/25] Updating changelog. --- CHANGELOG.md | 4 ++++ 1 file changed, 4 insertions(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index d24c8e7..35f0503 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,5 +1,9 @@ # Unreleased +* Updated the Resfinder database to use the 2024-08-06 release. +* Updated the Pointfinder database to use the 2024-08-08 release. +* The Resfinder and Pointfinder databases now use FASTA record IDs with accession numbers (ex: `pmrA` -> `pmrA_1_CP055130.1`). StarAMR has been updated to support this, but database backwards compatibility is unlikely. +* The `genes_to_exclude` is affected by the above change and must now use gene IDs that exactly match the new FASTA record IDs with accession IDs. * Removed ARG drug key entries with "None" or missing resistance. * The ARG drug key for salmonella acrB 717 has changed to acrB 171. From d5c2d839bbd07cdee386f50d21c4006ca4722dcb Mon Sep 17 00:00:00 2001 From: Eric Marinier Date: Tue, 10 Dec 2024 14:29:00 -0600 Subject: [PATCH 23/25] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 5d616de..562041e 100644 --- a/README.md +++ b/README.md @@ -145,7 +145,7 @@ If you wish to update to the latest ResFinder, PointFinder, and PlasmidFinder da staramr db update --update-default ``` -If you wish to switch to specific git commits of either ResFinder, PointFinder, or PlasmidFinder databases you may also pass `--resfinder-commit [COMMIT]`, `--pointfinder-commit [COMMIT]`, and `--plasmidfinder-commit [COMMIT]`. However, please note that because of compatibility issues arising from changes in the source databases, this functionality is largely unsupported and is unlikely to work for versions of the databases that the StarAMR release wasn't released with. +If you wish to switch to specific git commits of either ResFinder, PointFinder, or PlasmidFinder databases you may also pass `--resfinder-commit [COMMIT]`, `--pointfinder-commit [COMMIT]`, and `--plasmidfinder-commit [COMMIT]`. However, please note that because of compatibility issues arising from changes in the source databases, this functionality is largely unsupported and is unlikely to work for versions of the databases that StarAMR wasn't released with. ## Restore Database From de6c1b9bc94b14346d9e2709b4749eb79eb09930 Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 16 Dec 2024 11:24:05 -0600 Subject: [PATCH 24/25] Updating versions. --- CHANGELOG.md | 2 +- staramr/__init__.py | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 35f0503..09738ec 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,4 +1,4 @@ -# Unreleased +# Version 0.11.0 * Updated the Resfinder database to use the 2024-08-06 release. * Updated the Pointfinder database to use the 2024-08-08 release. diff --git a/staramr/__init__.py b/staramr/__init__.py index fe2ef9e..f323a57 100644 --- a/staramr/__init__.py +++ b/staramr/__init__.py @@ -1 +1 @@ -__version__ = '0.11.0.dev0' +__version__ = '0.11.0' From 2dd00853b909a9a9e90ed9d088e4fceba60e021b Mon Sep 17 00:00:00 2001 From: Eric Date: Mon, 16 Dec 2024 13:10:03 -0600 Subject: [PATCH 25/25] acrB 171 -> acrB 717 --- CHANGELOG.md | 1 - staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv | 2 +- 2 files changed, 1 insertion(+), 2 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 09738ec..ed37717 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -5,7 +5,6 @@ * The Resfinder and Pointfinder databases now use FASTA record IDs with accession numbers (ex: `pmrA` -> `pmrA_1_CP055130.1`). StarAMR has been updated to support this, but database backwards compatibility is unlikely. * The `genes_to_exclude` is affected by the above change and must now use gene IDs that exactly match the new FASTA record IDs with accession IDs. * Removed ARG drug key entries with "None" or missing resistance. -* The ARG drug key for salmonella acrB 717 has changed to acrB 171. # Version 0.10.0 diff --git a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv index 9d31ef2..3f8565c 100644 --- a/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv +++ b/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv @@ -47,7 +47,7 @@ salmonella parE 514 ciprofloxacin I/R,nalidixic acid salmonella parE 521 ciprofloxacin I/R,nalidixic acid salmonella 16S_rrsD 1065 spectinomycin salmonella 16S_rrsD 1192 spectinomycin -salmonella acrB 171 azithromycin +salmonella acrB 717 azithromycin escherichia_coli gyrA 51 ciprofloxacin I/R,nalidixic acid escherichia_coli gyrA 67 ciprofloxacin I/R,nalidixic acid escherichia_coli gyrA 81 ciprofloxacin I/R,nalidixic acid