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GSD_002CMXS.1

USA/GSD_002CMXS.1/2026-02-12
A. Rothstein, G. Muir, A. Sum, A. Simas, B. Lu, B. Girinathan, H. Mammadova, P. Leeson, A. Plocik & D. Gratalo

Ginkgo Biosecurity

Submission details

Submission ID
PZ048878.1.seg2/PZ048877.1.seg3/PZ048873.1.seg4/PZ048875.1.seg5/PZ048874.1.seg6/PZ048876.1.seg8
Submitting group
Date submitted
2026-03-16 09:57:14 UTC
Date released
2026-03-16 10:41:01 UTC

INSDC

Bioproject accession
INSDC accession seg2
INSDC accession seg3
INSDC accession seg4
INSDC accession seg5
INSDC accession seg6
INSDC accession seg8
NCBI release date
2026-02-24

Clade

Clade HA
V1A.3a.2
Clade NA
B.8

Sample details

Collection country
USA
Collection subdivision level 1
California
Collection date
2026-02-12
Isolate name
B/California/GKISBBBH83215/2026

Host

Host

INSDC seg4

Lineage seg4
vic

Alignment and QC

Length seg2
2381 (100%)
Total inserted nucs seg2
23
Total SNPs seg2
55
Length seg3
2291 (100%)
Total inserted nucs seg3
46
Total SNPs seg3
51
Length seg4
1849 (98.6%)
Total deleted nucs seg4
9
Total SNPs seg4
54
Length seg5
1831 (100%)
Total inserted nucs seg5
81
Total SNPs seg5
32
Length seg6
1529 (100%)
Total inserted nucs seg6
128
Total SNPs seg6
34
Length seg8
1083 (99.6%)
Total inserted nucs seg8
21
Total SNPs seg8
22

Nucleotide mutations

Mutations called relative to the CY115157.1, CY115158.1, CY115156.1, KX058884.1, CY115154.1, CY073894.1, CY115152.1 & CY115155.1 references

Substitutions

seg2

  • G12A
  • A54G
  • G81A
  • T165C
  • T168C
  • T171C
  • T174C
  • T240C
  • T300A
  • T330C
  • C342T
  • A405G
  • G441A
  • G447A
  • G510A
  • C513T
  • A576G
  • A594G

seg3

  • T111C
  • C117T
  • C216T
  • T339C
  • A411G
  • G414A
  • T423C
  • A525C
  • G549A
  • A618G
  • T654C
  • A665G
  • T746C
  • A771G
  • A789G
  • C813T
  • G867A
  • C897T

seg4

  • C111T
  • T159C
  • C252A
  • C270T
  • G297A
  • G312T
  • A318G
  • C375T
  • C378T
  • A427G
  • C441T
  • T444C
  • G457A
  • G460A
  • A463G
  • A484G
  • C509T
  • T510C

seg5

  • C3T
  • T9C
  • T46C
  • A55G
  • C178T
  • A224G
  • G244T
  • T298C
  • C313T
  • G361A
  • A373G
  • C380T
  • A454G
  • C523T
  • C608T
  • A634G
  • A763G
  • C841T

seg6

  • T9C
  • C125A
  • T134C
  • G194A
  • T212C
  • C309T
  • A358G
  • C394T
  • C399T
  • A504G
  • C519T
  • C534T
  • C573A
  • A660C
  • T714A
  • C849T
  • T879C
  • T885G

seg8

  • G26A
  • T103C
  • A118G
  • T163C
  • G190A
  • A267G
  • T341C
  • A352C
  • A374G
  • T391C
  • C419T
  • G422A
  • T577C
  • C604T
  • A610T
  • C632T
  • G661A
  • T775C
Deletions

seg4

562-570
Insertions

seg2

ins_0:GTTTTC, ins_2358:AATGCTCGTGTTTCTAC

seg3

ins_0:GCGTTTGATTTGTCATA, ins_2241:AGAAAC, ins_2245:ATCAAAAATGCTCGTGTTTCTAC

seg5

ins_0:GCATTTTCTTGTGAACTCCA, ins_1750:CGTTTGGAATATGGGTGTTTATTCTCATTAAAATAAATACAAAAAATGCTGTTGTTTCTAC

seg6

ins_0:ATCTTCTCAAAACTGAAGCAAATAGGCCAAAAAATGAACA, ins_1401:TGGGGGAGTGGTTAAGTCTGTTCTAAACCCTTTGTTCCTATTTTATTTGAACAATTATCCTTACTAAACTTAATTGTTTCTGAAAAAT

seg8

ins_1066:TAAAAATCCTCTTGTTACTAC

Amino acid mutations

Mutations called relative to the CY115157.1, CY115158.1, CY115156.1, KX058884.1, CY115154.1, CY073894.1, CY115152.1 & CY115155.1 references

Substitutions

HA1

  • HA1:I117V
  • HA1:A127T
  • HA1:E128K
  • HA1:N129D
  • HA1:K136E
  • HA1:P144L
  • HA1:N150K
  • HA1:A154E
  • HA1:G184E
  • HA1:A199T
  • HA1:K203R
  • HA1:S208P
  • HA1:S255P
  • HA1:I267V
  • HA1:R279K

NA

  • NA:P42Q
  • NA:I45T
  • NA:R65H
  • NA:V71A
  • NA:I120V
  • NA:K220N
  • NA:S295R
  • NA:N340D
  • NA:K343E
  • NA:E358K
  • NA:D384G
  • NA:A395V
  • NA:S397K
  • NA:V401I

NEP

  • NEP:L30S
  • NEP:S93P

NP

  • NP:I9M
  • NP:T66A
  • NP:V453A

NS1

  • NS1:K79R
  • NS1:Y104H
  • NS1:K107N
  • NS1:T115A
  • NS1:L130F
  • NS1:D131N
  • NS1:H201Y

PA

  • PA:N222S
  • PA:L249S
  • PA:K312R
  • PA:T352A
  • PA:S530T
  • PA:G708A
  • PA:F709I
  • PA:N714S
  • PA:I723V

PB2

  • PB2:X303I
  • PB2:I492T
  • PB2:X582E
  • PB2:S630N
Deletions

HA1

HA1:162-164
Insertions
N/A