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JN.1.4 with S:N185D emerged in NY (118 sequences , US, Ireland as 01/17) #1180

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FedeGueli opened this issue Dec 15, 2023 · 8 comments
Closed

JN.1.4 with S:N185D emerged in NY (118 sequences , US, Ireland as 01/17) #1180

FedeGueli opened this issue Dec 15, 2023 · 8 comments
Labels
BA.2.86 designated JN.1 S:185 S:455 To be proposed Green light for proposal
Milestone
JN.1.4.2

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@FedeGueli
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FedeGueli commented Dec 15, 2023 •
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Defining mutations:
JN.1.4 [Orf1a:T170I (C774T)] > T18453C > S:N185D (A22115G)

Query:C774T,T18453C,A22115G

Samples: 6 (All NY)
First sample collected on 2023-11-17 last one collected on 26/11/2023
EPI_ISL_18601499, EPI_ISL_18621722, EPI_ISL_18621757,
EPI_ISL_18621810, EPI_ISL_18621904, EPI_ISL_18621928,

Tree:
Schermata 2023-12-15 alle 11 28 06
https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_36a3e_c29000.json?c=userOrOld&label=id:node_4451488
@FedeGueli FedeGueli added S:455 S:185 JN.1 Small clusters ?? This label identifies lineages with very few sequences,allowing to track them for a couple of weeks labels Dec 15, 2023
@Memorablea Memorablea mentioned this issue Dec 16, 2023
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@FedeGueli FedeGueli changed the title JN.1 + S:N185D in NY on the orf1a:T170I branch JN.1 + S:N185D in NY on the orf1a:T170I branch (9 sequences , US, Ireland) Dec 18, 2023
@FedeGueli
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+3 NY , Ireland

@FedeGueli FedeGueli changed the title JN.1 + S:N185D in NY on the orf1a:T170I branch (9 sequences , US, Ireland) JN.1 + S:N185D in NY on the orf1a:T170I branch (11 sequences , US, Ireland) Dec 19, 2023
@FedeGueli
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+2 NY

@HynnSpylor HynnSpylor mentioned this issue Dec 23, 2023
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@FedeGueli FedeGueli changed the title JN.1 + S:N185D in NY on the orf1a:T170I branch (11 sequences , US, Ireland) JN.1 + S:N185D in NY on the orf1a:T170I branch (20 sequences , US, Ireland) Dec 27, 2023
@FedeGueli
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20 now

@FedeGueli FedeGueli changed the title JN.1 + S:N185D in NY on the orf1a:T170I branch (20 sequences , US, Ireland) JN.1 + S:N185D in NY on the orf1a:T170I branch (2 sequences , US, Ireland) Jan 4, 2024
@FedeGueli FedeGueli changed the title JN.1 + S:N185D in NY on the orf1a:T170I branch (2 sequences , US, Ireland) JN.1 + S:N185D in NY on the orf1a:T170I branch (26 sequences , US, Ireland) Jan 4, 2024
@FedeGueli FedeGueli changed the title JN.1 + S:N185D in NY on the orf1a:T170I branch (26 sequences , US, Ireland) JN.1 + S:N185D in NY on the orf1a:T170I branch (27 sequences , US, Ireland as 01/06) Jan 6, 2024
@FedeGueli FedeGueli changed the title JN.1 + S:N185D in NY on the orf1a:T170I branch (27 sequences , US, Ireland as 01/06) JN.1 + orf1a:T170I with S:N185D emerged in NY (27 sequences , US, Ireland as 01/06) Jan 6, 2024
@FedeGueli FedeGueli changed the title JN.1 + orf1a:T170I with S:N185D emerged in NY (27 sequences , US, Ireland as 01/06) JN.1 + orf1a:T170I with S:N185D emerged in NY (28 sequences , US, Ireland as 01/06) Jan 8, 2024
@FedeGueli
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28 new states: California, Maryland

@FedeGueli FedeGueli changed the title JN.1 + orf1a:T170I with S:N185D emerged in NY (28 sequences , US, Ireland as 01/06) JN.1.4 with S:N185D emerged in NY (28 sequences , US, Ireland as 01/06) Jan 9, 2024
@Fearuncle
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image
now 60

@FedeGueli FedeGueli changed the title JN.1.4 with S:N185D emerged in NY (28 sequences , US, Ireland as 01/06) JN.1.4 with S:N185D emerged in NY (77 sequences , US, Ireland as 01/13) Jan 13, 2024
@FedeGueli
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77 now ping @corneliusroemer known fit mutation is spreading quite well , although still mainly NYC for now.

@FedeGueli FedeGueli changed the title JN.1.4 with S:N185D emerged in NY (77 sequences , US, Ireland as 01/13) JN.1.4 with S:N185D emerged in NY (118 sequences , US, Ireland as 01/17) Jan 17, 2024
@FedeGueli FedeGueli mentioned this issue Jan 17, 2024
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@FedeGueli
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transferred to main repo

@FedeGueli FedeGueli added To be proposed Green light for proposal and removed Small clusters ?? This label identifies lineages with very few sequences,allowing to track them for a couple of weeks labels Jan 17, 2024
@xz-keg xz-keg added this to the JN.1.4.2 milestone Feb 2, 2024
@FedeGueli
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Designated JN.1.4.2 via cov-lineages/pango-designation@271f9e0

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BA.2.86 designated JN.1 S:185 S:455 To be proposed Green light for proposal
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