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mobio-simple.owl
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mobio-simple.owl
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<?xml version="1.0"?>
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/mobio/mobio-simple.owl#"
xml:base="http://purl.obolibrary.org/obo/mobio/mobio-simple.owl"
xmlns:obo="http://purl.obolibrary.org/obo/"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:xml="http://www.w3.org/XML/1998/namespace"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:foaf="http://xmlns.com/foaf/0.1/"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:terms="http://purl.org/dc/terms/"
xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/mobio/mobio-simple.owl">
<owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/mobio/releases/2023-04-13/mobio-simple.owl"/>
<terms:description>None</terms:description>
<terms:license rdf:resource="https://creativecommons.org/licenses/unspecified"/>
<terms:title>Mobilome Ontology</terms:title>
<owl:versionInfo>2023-04-13</owl:versionInfo>
</owl:Ontology>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Annotation properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/IAO_0000111 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000111"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000112 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000112"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000115 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000115">
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">definition</rdfs:label>
<rdfs:label>definition</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000116 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000116"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000117 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000117"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000118 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000118"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000119 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000119"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000232 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000232"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000589 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000589"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000600 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000600"/>
<!-- http://purl.obolibrary.org/obo/RO_0001900 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0001900"/>
<!-- http://purl.obolibrary.org/obo/RO_0040042 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0040042"/>
<!-- http://purl.obolibrary.org/obo/valid_for_go_annotation_extension -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/valid_for_go_annotation_extension">
<rdfs:subPropertyOf rdf:resource="http://www.geneontology.org/formats/oboInOwl#SubsetProperty"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/valid_for_go_gp2term -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/valid_for_go_gp2term">
<rdfs:subPropertyOf rdf:resource="http://www.geneontology.org/formats/oboInOwl#SubsetProperty"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/valid_for_go_ontology -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/valid_for_go_ontology">
<rdfs:subPropertyOf rdf:resource="http://www.geneontology.org/formats/oboInOwl#SubsetProperty"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/valid_for_gocam -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/valid_for_gocam">
<rdfs:subPropertyOf rdf:resource="http://www.geneontology.org/formats/oboInOwl#SubsetProperty"/>
</owl:AnnotationProperty>
<!-- http://purl.org/dc/terms/description -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/description"/>
<!-- http://purl.org/dc/terms/license -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/license"/>
<!-- http://purl.org/dc/terms/title -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/title"/>
<!-- http://www.geneontology.org/formats/oboInOwl#SubsetProperty -->
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#SubsetProperty"/>
<!-- http://www.geneontology.org/formats/oboInOwl#hasDbXref -->
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasDbXref">
<rdfs:label>database_cross_reference</rdfs:label>
</owl:AnnotationProperty>
<!-- http://www.geneontology.org/formats/oboInOwl#hasExactSynonym -->
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasExactSynonym">
<rdfs:label>has_exact_synonym</rdfs:label>
</owl:AnnotationProperty>
<!-- http://www.geneontology.org/formats/oboInOwl#hasOBONamespace -->
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasOBONamespace"/>
<!-- http://www.geneontology.org/formats/oboInOwl#id -->
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#id"/>
<!-- http://www.geneontology.org/formats/oboInOwl#inSubset -->
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#inSubset"/>
<!-- http://www.geneontology.org/formats/oboInOwl#shorthand -->
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#shorthand"/>
<!-- http://www.w3.org/2000/01/rdf-schema#label -->
<owl:AnnotationProperty rdf:about="http://www.w3.org/2000/01/rdf-schema#label"/>
<!-- http://xmlns.com/foaf/0.1/mbox -->
<owl:AnnotationProperty rdf:about="http://xmlns.com/foaf/0.1/mbox"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Object Properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/BFO_0000050 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000050">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<obo:IAO_0000111 xml:lang="en">is part of</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">my brain is part of my body (continuant parthood, two material entities)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this day is part of this year (occurrent parthood)</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a core relation that holds between a part and its whole</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other.</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="en">Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="en">Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)
A continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">part_of</obo:IAO_0000118>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000002"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000003"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000004"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000019"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
<oboInOwl:hasDbXref>BFO:0000050</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>RO:part_of</oboInOwl:hasDbXref>
<oboInOwl:hasOBONamespace>external</oboInOwl:hasOBONamespace>
<oboInOwl:id>part_of</oboInOwl:id>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/valid_for_go_annotation_extension"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/valid_for_go_gp2term"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/valid_for_go_ontology"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/valid_for_gocam"/>
<oboInOwl:shorthand>part_of</oboInOwl:shorthand>
<rdfs:label xml:lang="en">part of</rdfs:label>
<rdfs:label>part of</rdfs:label>
<rdfs:label>part_of</rdfs:label>
<rdfs:seeAlso rdf:resource="http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections"/>
<rdfs:seeAlso rdf:resource="http://ontologydesignpatterns.org/wiki/Submissions:PartOf"/>
<rdfs:seeAlso>http://www.obofoundry.org/ro/#OBO_REL:part_of</rdfs:seeAlso>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000056 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000056">
<obo:IAO_0000111 xml:lang="en">participates in</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this blood clot participates in this blood coagulation</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this input material (or this output material) participates in this process</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigator participates in this investigation</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a relation between a continuant and a process, in which the continuant is somehow involved in the process</obo:IAO_0000115>
<obo:IAO_0000118 xml:lang="en">participates_in</obo:IAO_0000118>
<oboInOwl:hasDbXref>RO:participates_in</oboInOwl:hasDbXref>
<rdfs:label xml:lang="en">participates in</rdfs:label>
<rdfs:label>participates_in</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002211 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002211">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<obo:IAO_0000115>p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q.</obo:IAO_0000115>
<obo:IAO_0000117 rdf:resource="https://orcid.org/0000-0001-7476-6306"/>
<obo:IAO_0000117 rdf:resource="https://orcid.org/0000-0002-3837-8864"/>
<obo:IAO_0000117 rdf:resource="https://orcid.org/0000-0002-6601-2165"/>
<obo:IAO_0000119 rdf:resource="http://purl.obolibrary.org/obo/ro/docs/causal-relations"/>
<obo:IAO_0000119>GO</obo:IAO_0000119>
<obo:IAO_0000232>Regulation precludes parthood; the regulatory process may not be within the regulated process.</obo:IAO_0000232>
<obo:IAO_0000589>regulates (processual)</obo:IAO_0000589>
<obo:IAO_0000600 rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">false</obo:IAO_0000600>
<oboInOwl:hasDbXref>RO:0002211</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>RO:regulates</oboInOwl:hasDbXref>
<oboInOwl:hasOBONamespace>external</oboInOwl:hasOBONamespace>
<oboInOwl:id>regulates</oboInOwl:id>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/valid_for_go_annotation_extension"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/valid_for_go_ontology"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/valid_for_gocam"/>
<oboInOwl:shorthand>regulates</oboInOwl:shorthand>
<rdfs:label xml:lang="en">regulates</rdfs:label>
<rdfs:label>regulates</rdfs:label>
</owl:ObjectProperty>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Classes
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/MOBIO_0000001 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000001">
<obo:IAO_0000115>Mobile genetic elements (MGEs) are a type of genetic material, a segment of DNA or RNA, that is capable of movement around a genome or that can be transferred from one species or replicon to another. These include transposons, plasmids, bacteriophages, and genomic islands. The mechanism of movement may be self-encoded or may rely on other enzymes and structures, such as a pilus. In bacteria, MGEs are often associated with the movement of antibiotic resistance genes and virulence factors from one species to another, for example by plasmid-mediated transfer.</obo:IAO_0000115>
<rdfs:label>mobile genetic element</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000002 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000002">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000001"/>
<obo:IAO_0000115>A plasmid is a small, circular, double-stranded DNA molecule that is distinct from a cell's chromosomal DNA. Plasmids naturally exist in bacterial cells, and they also occur in some eukaryotes. Often, the genes carried in plasmids provide bacteria with genetic advantages, such as antibiotic resistance. Plasmids have a wide range of lengths, from roughly one thousand DNA base pairs to hundreds of thousands of base pairs.</obo:IAO_0000115>
<rdfs:label>plasmid</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000003 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000003">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000001"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000002"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>A transposable element (TE or transposon) is a DNA sequence that can change its position within a genome, sometimes creating or reversing mutations and altering the cell's genome size. Transposition often results in duplication of the same genetic material. Transposons were originally discovered as "jumping genes" by Barbara McClintock.</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>transposon</oboInOwl:hasExactSynonym>
<rdfs:label>transposable element</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000004 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000004">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000001"/>
<obo:IAO_0000115>Bacteriophage are viral infectious agents with bacterial host organisms. Bacteriophage infect and replicate inside bacterial host cells, causing cell lysis as viral particles replicate. Bacteriophage are involved in DNA transfer between host organisms at low frequency through transduction: when segments of host DNA is accidentally packaged with the viral DNA, then integrated into a new host genome and later inherited.</obo:IAO_0000115>
<rdfs:label>bacteriophage</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000006 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000006">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000002"/>
<obo:IAO_0000115>These plasmids contain genes that code for bacteriocins, proteins that can kill other bacteria.</obo:IAO_0000115>
<rdfs:label>Col Plasmids</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000007 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000007">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000002"/>
<obo:IAO_0000115>Fertility F-plasmids contain tra genes and are capable of conjugation resulting in the expression of sex pilli.</obo:IAO_0000115>
<rdfs:label>Fertility F-Plasmids</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000008 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000008">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000002"/>
<obo:IAO_0000115>These plasmids contain genes that provide resistance against antibiotics or poisons. Historically known as R-factors, before the nature of plasmids was understood.</obo:IAO_0000115>
<rdfs:label>Resistance Plasmids</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000009 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000009">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000002"/>
<obo:IAO_0000115>These plasmids enable the digestion of unusual substances, e.g. toluene and salicylic acid.</obo:IAO_0000115>
<rdfs:label>Degradative Plasmids</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000010 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000010">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000002"/>
<obo:IAO_0000115>which turn the bacterium into a pathogen</obo:IAO_0000115>
<rdfs:label>Virulence Plasmids</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000011 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000011">
<obo:IAO_0000115>The set of specific processes that needed for plasmid partition, stability, replication, and mobility. These are all processes that allow for the plasmid to move between organisms.</obo:IAO_0000115>
<rdfs:label>mechanism of plasmid maintenance</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000012 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000012">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000011"/>
<obo:IAO_0000115>Any process or set of processes through which plasmid replication is initiated.</obo:IAO_0000115>
<rdfs:label>mechanism of replication</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000013 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000013">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000012"/>
<obo:IAO_0000115>Replication by the Theta Mechanism - opening of the strands followed by RNA priming</obo:IAO_0000115>
<rdfs:label>theta type</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000014 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000014">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000012"/>
<obo:IAO_0000115>strand displacement replication. Opening of the strands followed by RNA priming</obo:IAO_0000115>
<rdfs:label>strand displacement</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000015 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000015">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000012"/>
<obo:IAO_0000115>A mechanism of plasmid replication in which the two strands are asynchronously copied, with one strand initially forming a single-stranded circle.</obo:IAO_0000115>
<rdfs:label>rolling circle replication</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000016 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000016">
<obo:IAO_0000115>Molecular mechanisms involved in the intracellular and intercellular transfer, integration, stabilization and recombination of mobile genetic elements.</obo:IAO_0000115>
<rdfs:label>process or mechanism of genetic mobility</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000017 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000017">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000196"/>
<obo:IAO_0000115>Conjugation is the process by which one bacterium transfers genetic material to another through direct contact. During conjugation, one bacterium serves as the donor of the genetic material, and the other serves as the recipient.</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>Conjugation</oboInOwl:hasExactSynonym>
<rdfs:label>conjugative transfer</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000019 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000019">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000011"/>
<obo:IAO_0000115>Stabilization mechanisms facilitate and promote the survival of plasmids in their host cells. This includes mechanisms that allow for the survival of the host cell itself in harsh conditions.</obo:IAO_0000115>
<rdfs:label>mechanism of stabilization</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000020 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000020">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000016"/>
<obo:IAO_0000115>Transformation refers to process of free DNA uptake by competent cells and subsequent integration and functional expression of genes. Extracellular DNA continually enters the environment upon release from decomposing cells, disrupted cells, viral particles or excretion from living cells.</obo:IAO_0000115>
<rdfs:label>transformation</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000021 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000021">
<obo:IAO_0000115>A toxin-antitoxin system is a set of two or more closely linked genes that together encode both a protein 'poison' and a corresponding 'antidote'. When these systems are contained on plasmids – transferable genetic elements – they ensure that only the daughter cells that inherit the plasmid survive after cell division. If the plasmid is absent in a daughter cell, the unstable anti-toxin is degraded and the stable toxic protein kills the new cell; this is known as 'post-segregational killing' (PSK).</obo:IAO_0000115>
<rdfs:label>Toxin-antitoxin system</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000022 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000022">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000021"/>
<obo:IAO_0000115>Type I toxin-antitoxin systems rely on the base-pairing of complementary antitoxin RNA with the toxin's mRNA. Translation of the mRNA is then inhibited either by degradation via RNase III or by occluding the Shine-Dalgarno sequence or ribosome binding site.</obo:IAO_0000115>
<rdfs:label>Type I TA System</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000023 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000023">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000021"/>
<obo:IAO_0000115>In this system a labile protein antitoxin tightly binds and inhibits the activity of a stable toxin. Type II systems are organised in operons with the antitoxin protein typically being located upstream of the toxin. The antitoxin inhibits the toxin by downregulating its expression.</obo:IAO_0000115>
<rdfs:label>Type II TA System</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000024 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000024">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000021"/>
<obo:IAO_0000115>Type III toxin-antitoxin systems rely on direct interaction between a toxic protein and an RNA antitoxin. The toxic effects of the protein are neutralised by the RNA gene.</obo:IAO_0000115>
<rdfs:label>Type III TA System</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000025 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000025">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000185"/>
<obo:IAO_0000115>The process of conjugation requires several different types of subunits and complexes.</obo:IAO_0000115>
<rdfs:label>conjugal transfer subunit or complex</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000026 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000026">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000025"/>
<obo:IAO_0000115>Protein involved in the conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli.</obo:IAO_0000115>
<rdfs:label>pilX7</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000026"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>Protein involved in the conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli.</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:19717626</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000027 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000027">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000025"/>
<obo:IAO_0000115>Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli.</obo:IAO_0000115>
<rdfs:label>pilX8</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000027"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli.</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:19717626</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000028 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000028">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000188"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000006"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Colicin immunity proteins are plasmid encoded proteins necessary for protecting the cell against colicins. Colicins are toxins released by bacteria during times of stress</obo:IAO_0000115>
<rdfs:label>colicin immunity protein</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000029 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000029">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000025"/>
<obo:IAO_0000115>Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli.
</obo:IAO_0000115>
<rdfs:label>pilX9</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000029"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli.
</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:19717626</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000030 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000030">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000025"/>
<obo:IAO_0000115>Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli. It is homologous to type IV secretory pathway VirB10 protein</obo:IAO_0000115>
<rdfs:label>pilX10</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000030"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli. It is homologous to type IV secretory pathway VirB10 protein</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:19717626</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000031 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000031">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000025"/>
<obo:IAO_0000115>Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli. It is homologous to P-type DNA transfer ATPase VirB11.</obo:IAO_0000115>
<rdfs:label>pilX11</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000031"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli. It is homologous to P-type DNA transfer ATPase VirB11.</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:19717626</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000032 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000032">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000181"/>
<obo:IAO_0000115>conjugal transfer protein - conjugal transfer protein TraG</obo:IAO_0000115>
<rdfs:label>taxB</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000032"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>conjugal transfer protein - conjugal transfer protein TraG</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000033 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000033">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000051"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000123"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Toxic component of a type II toxin-antitoxin (TA) module. A sequence-specific, ribosome-dependent mRNA endoribonuclease that inhibits translation during amino acid starvation (the stringent response). In vitro acts by cleaving mRNA with high codon specificity in the ribosomal A site between positions 2 and 3. The stop codon UAG is cleaved at a fast rate while UAA and UGA are cleaved with intermediate and slow rates. In vitro mRNA cleavage can also occur in the ribosomal E site after peptide release from peptidyl-tRNA in the P site as well as on free 30S subunits. In vivo cuts frequently in the first 100 codons, most frequently after the second and third base and rarely near the stop codon. Overexpression of RelE results in the inhibition of bacterial growth and a sharp decrease in colony-forming ability which is neutralized by the labile cognate antitoxin RelB. Overexpression also sharply increases persisters (cells that neither grow nor die in the presence of bactericidal agents and are largely responsible for high levels of biofilm tolerance to antimicrobials). Plays a role in dormancy when expressed in high-density cells in the absence of antitoxin RelB; amino acid starvation and an unidentified extracellular factor promote dormancy, while expression of antitoxin RelB restores cell culturability. Acts with RelB as a corepressor of relBE transcription, considerably increasing the repression of RelB alone. 2 RelB dimers bind to 2 operator sequences; DNA-binding and repression is stronger when complexed with toxin/corepressor RelE by conditional cooperativity.</obo:IAO_0000115>
<rdfs:label>RelE</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000033"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>Toxic component of a type II toxin-antitoxin (TA) module. A sequence-specific, ribosome-dependent mRNA endoribonuclease that inhibits translation during amino acid starvation (the stringent response). In vitro acts by cleaving mRNA with high codon specificity in the ribosomal A site between positions 2 and 3. The stop codon UAG is cleaved at a fast rate while UAA and UGA are cleaved with intermediate and slow rates. In vitro mRNA cleavage can also occur in the ribosomal E site after peptide release from peptidyl-tRNA in the P site as well as on free 30S subunits. In vivo cuts frequently in the first 100 codons, most frequently after the second and third base and rarely near the stop codon. Overexpression of RelE results in the inhibition of bacterial growth and a sharp decrease in colony-forming ability which is neutralized by the labile cognate antitoxin RelB. Overexpression also sharply increases persisters (cells that neither grow nor die in the presence of bactericidal agents and are largely responsible for high levels of biofilm tolerance to antimicrobials). Plays a role in dormancy when expressed in high-density cells in the absence of antitoxin RelB; amino acid starvation and an unidentified extracellular factor promote dormancy, while expression of antitoxin RelB restores cell culturability. Acts with RelB as a corepressor of relBE transcription, considerably increasing the repression of RelB alone. 2 RelB dimers bind to 2 operator sequences; DNA-binding and repression is stronger when complexed with toxin/corepressor RelE by conditional cooperativity.</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:12526800</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:15576765</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:21324908</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:22210768</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:9767574</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000034 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000034">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000187"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000013"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000014"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000015"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Topoisomerases are enzymes that participate in the overwinding or underwinding of DNA. They bind to double-stranded DNA and cut the phosphate backbone of either one or both the DNA strands. </obo:IAO_0000115>
<rdfs:label>DNA topoisomerase</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000035 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000035">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000034"/>
<obo:IAO_0000115>The traE gene, first identified in plasmid RP4, is a homologue of E. coli DNA topoisomerase III.</obo:IAO_0000115>
<rdfs:label>traE</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000035"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>The traE gene, first identified in plasmid RP4, is a homologue of E. coli DNA topoisomerase III.</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000036 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000036">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000187"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000015"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Molecular chaperones are proteins that assist the covalent folding or unfolding and the assembly or disassembly of other macromolecular structures. Chaperones are present when the macromolecules perform their normal biological functions and have correctly completed the processes of folding and/or assembly. The chaperones are concerned primarily with protein folding. One major function of chaperones is to prevent both newly synthesized polypeptide chains and assembled subunits from aggregating into nonfunctional structures. Many chaperones are heat shock proteins because the tendency to aggregate increases as proteins are denatured by stress.
Molecular chaperones have been shown to be involved in both the assembly and disassembly of DNA replication complexes.</obo:IAO_0000115>
<rdfs:label>Molecular Chaperone</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000037 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000037">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000036"/>
<obo:IAO_0000115>Chaperone DnaJ, also known as Hsp40 (heat shock protein 40 kD), is a molecular chaperone protein. The J domain of DnaJ interacts with Hsp70 heat shock proteins. DnaJ heat-shock proteins play a role in regulating the ATPase activity of Hsp70 heat-shock proteins.</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>Hsp40</oboInOwl:hasExactSynonym>
<rdfs:label>DnaJ</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000037"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>Chaperone DnaJ, also known as Hsp40 (heat shock protein 40 kD), is a molecular chaperone protein. The J domain of DnaJ interacts with Hsp70 heat shock proteins. DnaJ heat-shock proteins play a role in regulating the ATPase activity of Hsp70 heat-shock proteins.</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18375554</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000038 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000038">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000190"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000003"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Class 2 transposons encode transposase, which is an enzyme that binds to the end of a transposon and catalyzes the movement of the transposon to another part of the genome by a cut and paste mechanism or a replicative transposition mechanism.
</obo:IAO_0000115>
<rdfs:label>transposase</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000039 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000039">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000046"/>
<obo:IAO_0000115>This protein is a specific topoisomerase involved in initiating replication. This protein is specifically required and may be rate-limiting for replication of the plasmid in vivo.
</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>repC</oboInOwl:hasExactSynonym>
<rdfs:label>replication initiation protein RepC</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000040 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000040">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000188"/>
<obo:IAO_0000115>These proteins reduce chromate accumulation and are essential for chromate resistance. They are composed of one or two copies of this region. The short-chain CHR proteins form heterodimer transporters which efflux chromate ions from the cytoplasm, while the long chain CHR proteins appear to have arisen from a gene fusion event of two short chain transporters</obo:IAO_0000115>
<rdfs:label>Chromate transport protein</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000041 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000041">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000187"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000013"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000014"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000015"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Dihydrofolate reductase converts dihydrofolate into tetrahydrofolate, a methyl group shuttle required for the de novo synthesis of purines, thymidylic acid, and certain amino acids.</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>DfrA</oboInOwl:hasExactSynonym>
<rdfs:label>Dihydrofolate reductase</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000042 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000042">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000104"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000043"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Class 1 Integrase is a site-specific recombination enzyme that is part of the class 1 integron system. It recognizes the recombination site, attI1, which is where it will catalyze the insertion of gene casettes.</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>Intl1</oboInOwl:hasExactSynonym>
<rdfs:label>Class 1 Integrase</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000042"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>Class 1 Integrase is a site-specific recombination enzyme that is part of the class 1 integron system. It recognizes the recombination site, attI1, which is where it will catalyze the insertion of gene casettes.</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:18193080</oboInOwl:hasDbXref>
<oboInOwl:hasDbXref>PMID:8574395</oboInOwl:hasDbXref>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000043 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000043">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000001"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000003"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Integrons are genetic mechanisms that allow bacteria to adapt and evolve rapidly through the acquisition, stockpiling and differential expression of new genes. Additionally, an integron will usually contain one or more gene cassettes that have been incorporated into it.</obo:IAO_0000115>
<rdfs:label>integron</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000044 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000044">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000045"/>
<obo:IAO_0000115>DNA-binding transcriptional regulator. Protein that is involved in negative regulation of phenolic acid metabolism.</obo:IAO_0000115>
<rdfs:label>PadR family transcriptional regulator</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000045 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000045">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000190"/>
<obo:IAO_0000115>transcriptional regulation is the means by which a cell regulates the conversion of DNA to RNA (transcription), thereby orchestrating gene activity.</obo:IAO_0000115>
<rdfs:label>transcriptional regulator of operons found in MGEs</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000046 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000046">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000187"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000013"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000014"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000015"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>protein required for initiation of replication</obo:IAO_0000115>
<rdfs:label>replication initiation protein</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000047 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000047">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000046"/>
<obo:IAO_0000115>This protein is essential for plasmid replication; it is involved in copy control functions</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>RepA</oboInOwl:hasExactSynonym>
<rdfs:label>replication initiation protein RepA</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000048 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000048">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000025"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000017"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>papB may act as both positive and negative regulator of the pyelonephritis-associated pili (pap) pilin gene transcription. It is found in the pap operon.</obo:IAO_0000115>
<rdfs:label>Major pili subunit operon regulatory protein papB</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000049 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000049">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000191"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000023"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>Type II systems are organised in operons with the antitoxin protein typically being located upstream of the toxin. The antitoxin inhibits the toxin by downregulating its expression. </obo:IAO_0000115>
<oboInOwl:hasExactSynonym>antitoxin</oboInOwl:hasExactSynonym>
<rdfs:label>Type II post-segregation antitoxin</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000050 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000050">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000045"/>
<obo:IAO_0000115>transcriptional regulator</obo:IAO_0000115>
<rdfs:label>C protein</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/MOBIO_0000051 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/MOBIO_0000051">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MOBIO_0000191"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>