Netherlands/202500758.Netherlands.Cx_pipiens.2025/2025-09-04
Heather Graham, Kiki Streng, Pauline de Best, Jeroen Spitzen, Eva Dieterman, Melle Holwerda, Erley Lizarazo, Bas Oude Munnink, Mathilde Uiterwijk, Chantal Reusken, Jordy van der Beek, Henk van der Jeugd, Vanessa Visser, Maarten Schrama, Matthijs Welkers, Hein Sprong, Marion Koopmans, Arjan Stroo, Linda van den Wollenberg, Judith van den Brand, Reina Sikkema & Marieta Braks

Wageningen Bioveterinary Research, Lelystad, the Netherlands; Erasmus Medical Center (EMC), Rotterdam, the Netherlands; Centre for Monitoring of Vectors (CMV), Netherlands Institute for Vectors, Invasive plants and Plant health (NIVIP), Netherlands Food and Consumer Product Safety Authority (NVWA), Wageningen, the Netherlands; Royal GD, Deventer, the Netherlands; Centre for Infectious Disease Control, National Institute for Public Health and the Environment (RIVM), Bilthoven, the Netherlands; Naturalis Biodiversity Center, the Netherlands; Vogeltrekstation, Dutch Centre for Avian Migration and Demography, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, the Netherlands, Netherlands Food and Consumer Product Safety Authority, Utrecht, Tthe Netherlands, Institute of Environmental Sciences (CML), Leiden University, Leiden, the Netherlands; Amsterdam Medical Center (AMC), Amsterdam, the Netherlands; Dutch Wildlife Health Centre (DWHC), Utrecht University, Utrecht, the Netherlands; Veterinary Pathology Diagnostic Centre, Utrecht University, Utrecht, the Netherlands

Sample details

Collection date
2025-09-04
Sampling location
Netherlands (Zuid-Holland)

Data use terms

Data use terms
OPEN

Lineage

Lineage
2

INSDC

INSDC accession
BioProject accession
BioSample accession
GCA accession

Sampling

Collection device
mosquito trap

Sequencing

Sequencing date
2025-09-17
Sequencing instrument
GridION
Depth of coverage
30

Submission details

Submission ID
202500758.Netherlands.Cx_pipiens.2025
Submitting group
Date submitted
2026-08-21 07:33:21 UTC
Date released
2026-08-21 08:49:32 UTC
Earliest release date
2026-08-21

Alignment and QC

Length
10929 (96.5%)
# of SNPs
2163
# of inserted bases
26
# of deleted bases
5
# of unknown bases
260

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions
  • G22C
  • C123T
  • G126A
  • G128A
  • A156T
  • T167G
  • G168A
  • T180A
  • T199C
  • C204T
  • C210T
  • C216G
  • G219A
  • G222C
  • A231T
  • T234C
  • C246T
  • C255T
Deletions
6994-6996, 10904, 10921
Insertions
ins_7006:TTGAGA, ins_10401:ATAAAGC, ins_10520:CAGGCCAGATTAA

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

2K

  • 2K:M15L

NS1

  • NS1:S9G
  • NS1:Y34F
  • NS1:K44R
  • NS1:K51A
  • NS1:V71I
  • NS1:E94N
  • NS1:S99A
  • NS1:T105A
  • NS1:I113M
  • NS1:L123I
  • NS1:V135I
  • NS1:K141E
  • NS1:Q146A
  • NS1:L153M
  • NS1:K170R
  • NS1:V171I
  • NS1:S174T
  • NS1:L192M

NS2A

  • NS2A:M34I
  • NS2A:L38M
  • NS2A:I39L
  • NS2A:S68A
  • NS2A:M90L
  • NS2A:N104S
  • NS2A:V112A
  • NS2A:H119Y
  • NS2A:R122K
  • NS2A:Q123N
  • NS2A:I124V
  • NS2A:L126S
  • NS2A:I129V
  • NS2A:A137S
  • NS2A:T147S
  • NS2A:T150N
  • NS2A:R167K
  • NS2A:I183V

NS2B

  • NS2B:A41V
  • NS2B:S61T
  • NS2B:M88I
  • NS2B:V103A
  • NS2B:V119I
  • NS2B:V120I

NS3

  • NS3:K11R
  • NS3:Q92H
  • NS3:F130Y
  • NS3:D172E
  • NS3:I175A
  • NS3:R203K
  • NS3:A233S
  • NS3:N253S
  • NS3:V283I
  • NS3:S302A
  • NS3:S331A
  • NS3:L336M
  • NS3:S347T
  • NS3:T356V
  • NS3:V384I
  • NS3:T436E
  • NS3:E439D
  • NS3:V450I

NS4A

  • NS4A:I6V
  • NS4A:K11R
  • NS4A:T64S
  • NS4A:M65L
  • NS4A:A85V
  • NS4A:V86I
  • NS4A:V89A

NS4B

  • NS4B:S11N
  • NS4B:S14G
  • NS4B:F17L
  • NS4B:Q19H
  • NS4B:R20K
  • NS4B:I21P
  • NS4B:V23T
  • NS4B:K24R
  • NS4B:N26T
  • NS4B:F27T
  • NS4B:S28L
  • NS4B:M29G
  • NS4B:G30V
  • NS4B:T48A
  • NS4B:T116A
  • NS4B:I168V
  • NS4B:L183M
  • NS4B:K193R
  • NS4B:I202T
  • NS4B:A206V

NS5

  • NS5:Q18H
  • NS5:I33T
  • NS5:K45R
  • NS5:V49I
  • NS5:I78V
  • NS5:R101K
  • NS5:C139A
  • NS5:C140S
  • NS5:I162V
  • NS5:R177K
  • NS5:V181I
  • NS5:K190R
  • NS5:L197T
  • NS5:R224H
  • NS5:V229I
  • NS5:R247K
  • NS5:Y254F
  • NS5:R287K

capsid

  • capsid:S11N
  • capsid:V24G
  • capsid:S100T
  • capsid:K108T
  • capsid:T109A
  • capsid:I111F
  • capsid:A112T
  • capsid:V113I
  • capsid:M114L
  • capsid:I115L
  • capsid:S120C
  • capsid:V121A

env

  • env:E55D
  • env:T64S
  • env:K71R
  • env:D83E
  • env:R93K
  • env:S122T
  • env:I126T
  • env:R128W
  • env:T129I
  • env:L131Q
  • env:V159T
  • env:L167F
  • env:A172S
  • env:N199S
  • env:T205S
  • env:T208A
  • env:T210S
  • env:V232T

prM

  • prM:M44L
  • prM:D46E
  • prM:S57A
  • prM:A73S
  • prM:M112L
  • prM:V156A
  • prM:V157I
Deletions
N/A
Insertions

NS4B

ins_NS4B:31:N

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