github nextstrain/nextclade_data 2024-02-16--04-00-32Z
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latest releases: 2024-11-14--17-22-16Z, 2024-11-05--09-19-52Z, 2024-10-17--16-48-48Z...
9 months ago

This release contains changes for datasets:

  • SARS-CoV-2 (nextstrain/sars-cov-2/wuhan-hu-1/orfs)
  • SARS-CoV-2 (Mature proteins) (nextstrain/sars-cov-2/wuhan-hu-1/proteins)
  • SARS-CoV-2 (BA.2) (nextstrain/sars-cov-2/BA.2)
  • SARS-CoV-2 (XBB) (nextstrain/sars-cov-2/XBB)
  • SARS-CoV-2 (BA.2.86) (nextstrain/sars-cov-2/BA.2.86)
  • PRRSV-2 ORF5 Lineages, Yim-im & Zhang 2023 Microbiol Spectr (community/isuvdl/mazeller/prrsv2/orf5/yimim2023)

SARS-CoV-2 (nextstrain/sars-cov-2/wuhan-hu-1/orfs)

  • All 35 Pango lineages designated between 2024-01-16 and 2024-02-12 are now included, unfold below to see a list of all newly included lineages with their designation dates:
Newly included lineages, with designation date in parentheses
  • XDN (2024-01-16)
  • XDP (2024-01-16)
  • JN.3.2 (2024-01-16)
  • JN.3.2.1 (2024-01-16)
  • JN.11 (2024-01-21)
  • JN.1.12 (2024-01-21)
  • JN.12 (2024-01-22)
  • JN.1.11.1 (2024-01-22)
  • KM.1 (2024-01-31)
  • BA.2.87 (2024-02-01)
  • BA.2.87.1 (2024-02-01)
  • XDQ (2024-02-01)
  • GK.1.10.1 (2024-02-01)
  • XDR (2024-02-01)
  • JN.1.13 (2024-02-01)
  • JN.1.14 (2024-02-01)
  • JN.1.15 (2024-02-01)
  • JN.1.4.1 (2024-02-01)
  • JN.1.2.1 (2024-02-01)
  • JN.1.16 (2024-02-01)
  • JN.1.17 (2024-02-01)
  • JN.1.4.2 (2024-02-02)
  • JN.1.18 (2024-02-04)
  • JN.1.19 (2024-02-04)
  • JN.1.20 (2024-02-04)
  • XDS (2024-02-04)
  • JN.1.9.1 (2024-02-04)
  • JN.1.21 (2024-02-04)
  • JN.1.22 (2024-02-04)
  • JN.1.4.3 (2024-02-12)
  • XDT (2024-02-12)
  • HK.13.2.1 (2024-02-12)
  • KN.1 (2024-02-12)
  • KN.1.1 (2024-02-12)
  • JN.1.1.4 (2024-02-12)

SARS-CoV-2 (Mature proteins) (nextstrain/sars-cov-2/wuhan-hu-1/proteins)

  • All 35 Pango lineages designated between 2024-01-16 and 2024-02-12 are now included, unfold below to see a list of all newly included lineages with their designation dates:
Newly included lineages, with designation date in parentheses
  • XDN (2024-01-16)
  • XDP (2024-01-16)
  • JN.3.2 (2024-01-16)
  • JN.3.2.1 (2024-01-16)
  • JN.11 (2024-01-21)
  • JN.1.12 (2024-01-21)
  • JN.12 (2024-01-22)
  • JN.1.11.1 (2024-01-22)
  • KM.1 (2024-01-31)
  • BA.2.87 (2024-02-01)
  • BA.2.87.1 (2024-02-01)
  • XDQ (2024-02-01)
  • GK.1.10.1 (2024-02-01)
  • XDR (2024-02-01)
  • JN.1.13 (2024-02-01)
  • JN.1.14 (2024-02-01)
  • JN.1.15 (2024-02-01)
  • JN.1.4.1 (2024-02-01)
  • JN.1.2.1 (2024-02-01)
  • JN.1.16 (2024-02-01)
  • JN.1.17 (2024-02-01)
  • JN.1.4.2 (2024-02-02)
  • JN.1.18 (2024-02-04)
  • JN.1.19 (2024-02-04)
  • JN.1.20 (2024-02-04)
  • XDS (2024-02-04)
  • JN.1.9.1 (2024-02-04)
  • JN.1.21 (2024-02-04)
  • JN.1.22 (2024-02-04)
  • JN.1.4.3 (2024-02-12)
  • XDT (2024-02-12)
  • HK.13.2.1 (2024-02-12)
  • KN.1 (2024-02-12)
  • KN.1.1 (2024-02-12)
  • JN.1.1.4 (2024-02-12)

SARS-CoV-2 (BA.2) (nextstrain/sars-cov-2/BA.2)

  • All 35 Pango lineages designated between 2024-01-16 and 2024-02-12 are now included, unfold below to see a list of all newly included lineages with their designation dates:
Newly included lineages, with designation date in parentheses
  • XDN (2024-01-16)
  • XDP (2024-01-16)
  • JN.3.2 (2024-01-16)
  • JN.3.2.1 (2024-01-16)
  • JN.11 (2024-01-21)
  • JN.1.12 (2024-01-21)
  • JN.12 (2024-01-22)
  • JN.1.11.1 (2024-01-22)
  • KM.1 (2024-01-31)
  • BA.2.87 (2024-02-01)
  • BA.2.87.1 (2024-02-01)
  • XDQ (2024-02-01)
  • GK.1.10.1 (2024-02-01)
  • XDR (2024-02-01)
  • JN.1.13 (2024-02-01)
  • JN.1.14 (2024-02-01)
  • JN.1.15 (2024-02-01)
  • JN.1.4.1 (2024-02-01)
  • JN.1.2.1 (2024-02-01)
  • JN.1.16 (2024-02-01)
  • JN.1.17 (2024-02-01)
  • JN.1.4.2 (2024-02-02)
  • JN.1.18 (2024-02-04)
  • JN.1.19 (2024-02-04)
  • JN.1.20 (2024-02-04)
  • XDS (2024-02-04)
  • JN.1.9.1 (2024-02-04)
  • JN.1.21 (2024-02-04)
  • JN.1.22 (2024-02-04)
  • JN.1.4.3 (2024-02-12)
  • XDT (2024-02-12)
  • HK.13.2.1 (2024-02-12)
  • KN.1 (2024-02-12)
  • KN.1.1 (2024-02-12)
  • JN.1.1.4 (2024-02-12)

SARS-CoV-2 (XBB) (nextstrain/sars-cov-2/XBB)

  • All 35 Pango lineages designated between 2024-01-16 and 2024-02-12 are now included, unfold below to see a list of all newly included lineages with their designation dates:
Newly included lineages, with designation date in parentheses
  • XDN (2024-01-16)
  • XDP (2024-01-16)
  • JN.3.2 (2024-01-16)
  • JN.3.2.1 (2024-01-16)
  • JN.11 (2024-01-21)
  • JN.1.12 (2024-01-21)
  • JN.12 (2024-01-22)
  • JN.1.11.1 (2024-01-22)
  • KM.1 (2024-01-31)
  • BA.2.87 (2024-02-01)
  • BA.2.87.1 (2024-02-01)
  • XDQ (2024-02-01)
  • GK.1.10.1 (2024-02-01)
  • XDR (2024-02-01)
  • JN.1.13 (2024-02-01)
  • JN.1.14 (2024-02-01)
  • JN.1.15 (2024-02-01)
  • JN.1.4.1 (2024-02-01)
  • JN.1.2.1 (2024-02-01)
  • JN.1.16 (2024-02-01)
  • JN.1.17 (2024-02-01)
  • JN.1.4.2 (2024-02-02)
  • JN.1.18 (2024-02-04)
  • JN.1.19 (2024-02-04)
  • JN.1.20 (2024-02-04)
  • XDS (2024-02-04)
  • JN.1.9.1 (2024-02-04)
  • JN.1.21 (2024-02-04)
  • JN.1.22 (2024-02-04)
  • JN.1.4.3 (2024-02-12)
  • XDT (2024-02-12)
  • HK.13.2.1 (2024-02-12)
  • KN.1 (2024-02-12)
  • KN.1.1 (2024-02-12)
  • JN.1.1.4 (2024-02-12)

SARS-CoV-2 (BA.2.86) (nextstrain/sars-cov-2/BA.2.86)

  • All 35 Pango lineages designated between 2024-01-16 and 2024-02-12 are now included, unfold below to see a list of all newly included lineages with their designation dates:
Newly included lineages, with designation date in parentheses
  • XDN (2024-01-16)
  • XDP (2024-01-16)
  • JN.3.2 (2024-01-16)
  • JN.3.2.1 (2024-01-16)
  • JN.11 (2024-01-21)
  • JN.1.12 (2024-01-21)
  • JN.12 (2024-01-22)
  • JN.1.11.1 (2024-01-22)
  • KM.1 (2024-01-31)
  • BA.2.87 (2024-02-01)
  • BA.2.87.1 (2024-02-01)
  • XDQ (2024-02-01)
  • GK.1.10.1 (2024-02-01)
  • XDR (2024-02-01)
  • JN.1.13 (2024-02-01)
  • JN.1.14 (2024-02-01)
  • JN.1.15 (2024-02-01)
  • JN.1.4.1 (2024-02-01)
  • JN.1.2.1 (2024-02-01)
  • JN.1.16 (2024-02-01)
  • JN.1.17 (2024-02-01)
  • JN.1.4.2 (2024-02-02)
  • JN.1.18 (2024-02-04)
  • JN.1.19 (2024-02-04)
  • JN.1.20 (2024-02-04)
  • XDS (2024-02-04)
  • JN.1.9.1 (2024-02-04)
  • JN.1.21 (2024-02-04)
  • JN.1.22 (2024-02-04)
  • JN.1.4.3 (2024-02-12)
  • XDT (2024-02-12)
  • HK.13.2.1 (2024-02-12)
  • KN.1 (2024-02-12)
  • KN.1.1 (2024-02-12)
  • JN.1.1.4 (2024-02-12)

PRRSV-2 ORF5 Lineages, Yim-im & Zhang 2023 Microbiol Spectr (community/isuvdl/mazeller/prrsv2/orf5/yimim2023)

Initial release for Nextclade v3!

Proposed dataset for PRRSV2 nomenclature from Yimim et al. 2023. Dataset includes clades, dates, geographic locations,
RFLPs, and vaccines.

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