2026-05-22--16-04-17Z

This release contains changes for datasets:

• Bundibugyo ebolavirus (nextstrain/orthoebolavirus/bdbv)

Bundibugyo ebolavirus (nextstrain/orthoebolavirus/bdbv)

• adjust QC param settings to reudce private mutation threshold (outbreak genomes should be very similar)
• add SNP cluster QC rule to trigger on stretches of high private mutation density
• update tree

2026-05-18--20-09-34Z

This release contains changes for datasets:

• Bundibugyo ebolavirus (nextstrain/orthoebolavirus/bdbv)

Bundibugyo ebolavirus (nextstrain/orthoebolavirus/bdbv)

• Add outbreak annotation
• add GP_003:367 to known stop codons
• Include 2026 genomes

2026-05-15--16-16-45Z

This release contains changes for datasets:

• Bundibugyo ebolavirus (nextstrain/orthoebolavirus/bdbv)

Bundibugyo ebolavirus (nextstrain/orthoebolavirus/bdbv)

2026-05-12--16-39-06Z

This release contains changes for datasets:

• Andesvirus (segment L) (nextstrain/orthohantavirus/andv/l)
• Andesvirus (segment M) (nextstrain/orthohantavirus/andv/m)
• Andesvirus (segment S) (nextstrain/orthohantavirus/andv/s)
• orov/L/refseq (community/itps/orov/L/refseq)
• orov/M/refseq (community/itps/orov/M/refseq)
• orov/M/tefe (community/itps/orov/M/tefe)
• orov/L/tefe (community/itps/orov/L/tefe)
• orov/S/tefe (community/itps/orov/S/tefe)
• orov/S/refseq (community/itps/orov/S/refseq)

Andesvirus (segment L) (nextstrain/orthohantavirus/andv/l)

• update outbreak name to 2026-Hondius
• make nucleotide default sequence view.
• add GPC amino acid substitutions

Andesvirus (segment M) (nextstrain/orthohantavirus/andv/m)

• update outbreak name to 2026-Hondius
• make nucleotide default sequence view.
• add GPC amino acid substitutions

Andesvirus (segment S) (nextstrain/orthohantavirus/andv/s)

• update outbreak name to 2026-Hondius
• make nucleotide default sequence view.
• add GPC amino acid substitutions

orov/L/refseq (community/itps/orov/L/refseq)

Initial release of a Oropouche Virus (OROV) dataset for segment L based on NCBI refseq reference genome.

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html

orov/M/refseq (community/itps/orov/M/refseq)

Initial release of a Oropouche Virus (OROV) dataset for segment M based on NCBI refseq reference genome.

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html

orov/M/tefe (community/itps/orov/M/tefe)

Initial release of a Oropouche Virus (OROV) dataset for segment M based on Tefe outbreak reference genome (ILMD_TF29).

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html

orov/L/tefe (community/itps/orov/L/tefe)

Initial release of a Oropouche Virus (OROV) dataset for segment L based on Tefe outbreak reference genome (ILMD_TF29).

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html

orov/S/tefe (community/itps/orov/S/tefe)

Initial release of a Oropouche Virus (OROV) dataset for segment S based on Tefe outbreak reference genome (ILMD_TF29).

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html

orov/S/refseq (community/itps/orov/S/refseq)

Initial release of a Oropouche Virus (OROV) dataset for segment S based on NCBI refseq reference genome.

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html

2026-05-11--18-59-50Z

This release contains changes for datasets:

• Andesvirus (segment L) (nextstrain/orthohantavirus/andv/l)
• Andesvirus (segment M) (nextstrain/orthohantavirus/andv/m)
• Andesvirus (segment S) (nextstrain/orthohantavirus/andv/s)

Andesvirus (segment L) (nextstrain/orthohantavirus/andv/l)

• Updating Nextclade dataset with the latest sequences and metadata from Pathoplexus
• Include 2026 outbreak sequences
• add 2026 outbreak annotation

Andesvirus (segment M) (nextstrain/orthohantavirus/andv/m)

• Updating Nextclade dataset with the latest sequences and metadata from Pathoplexus
• Include 2026 outbreak sequences
• add 2026 outbreak annotation

Andesvirus (segment S) (nextstrain/orthohantavirus/andv/s)

• Updating Nextclade dataset with the latest sequences and metadata from Pathoplexus
• Include 2026 outbreak sequences
• add 2026 outbreak annotation

2026-05-08--21-17-05Z

This release contains changes for datasets:

• Andesvirus (segment L) (nextstrain/orthohantavirus/andv/l)
• Andesvirus (segment M) (nextstrain/orthohantavirus/andv/m)
• Andesvirus (segment S) (nextstrain/orthohantavirus/andv/s)

Andesvirus (segment L) (nextstrain/orthohantavirus/andv/l)

• initial release

Andesvirus (segment M) (nextstrain/orthohantavirus/andv/m)

• initial release

Andesvirus (segment S) (nextstrain/orthohantavirus/andv/s)

• initial release

2026-04-22--11-53-11Z

This release contains changes for datasets:

• Coxsackievirus A16 (enpen/enterovirus/cva16)

Coxsackievirus A16 (enpen/enterovirus/cva16)

Initial release of a Coxsackievirus A16 dataset for lineage classification!

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html

2026-04-21--09-39-50Z

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

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

• Add all 202 Pango lineages newly designated between 2025-12-24 and 2026-04-15. Unfold below to see a list of all newly included lineages with their designation dates:

Newly included lineages, with designation date in parentheses

• RG.2 (2026-01-06)
• RG.3 (2026-01-06)
• XFG.3.3.2 (2026-01-06)
• XFG.3.3.3 (2026-01-06)
• XGN (2026-01-06)
• RD.1.1.1 (2026-01-07)
• RE.3 (2026-01-07)
• RE.3.1 (2026-01-07)
• RE.1.1.1 (2026-01-07)
• RE.1.1.2 (2026-01-07)
• RE.1.1.3 (2026-01-07)
• RE.2.1.1 (2026-01-07)
• RE.2.1.2 (2026-01-07)
• RE.2.1.3 (2026-01-07)
• RE.2.3 (2026-01-07)
• RE.2.2.1 (2026-01-07)
• RE.2.2.2 (2026-01-07)
• RE.2.2.3 (2026-01-07)
• RE.2.2.4 (2026-01-07)
• RE.2.2.5 (2026-01-07)
• RE.2.2.6 (2026-01-07)
• RE.2.4 (2026-01-11)
• XFG.2.13 (2026-01-11)
• XFG.2.13.1 (2026-01-11)
• RR.1 (2026-01-11)
• PQ.43 (2026-01-11)
• PQ.43.1 (2026-01-11)
• PQ.43.1.1 (2026-01-11)
• PQ.43.2 (2026-01-11)
• PQ.17.9 (2026-01-11)
• PQ.17.10 (2026-01-11)
• PQ.17.10.1 (2026-01-11)
• PQ.17.11 (2026-01-11)
• PQ.17.11.1 (2026-01-11)
• PQ.4.10 (2026-01-11)
• PQ.4.10.1 (2026-01-11)
• PQ.17.12 (2026-01-11)
• QF.7 (2026-01-11)
• XGP (2026-01-11)
• PP.1.2 (2026-01-12)
• XGQ (2026-01-12)
• PQ.17.2.1 (2026-01-12)
• RF.5 (2026-01-14)
• RE.1.2 (2026-01-14)
• RS.1 (2026-01-14)
• RT.1 (2026-01-14)
• RE.2.2.7 (2026-01-20)
• RE.2.2.8 (2026-01-20)
• XFY.2 (2026-01-21)
• XFY.3 (2026-01-21)
• XGR (2026-01-21)
• XGS (2026-01-21)
• PQ.44 (2026-01-21)
• PQ.45 (2026-01-21)
• PQ.46 (2026-01-21)
• PQ.46.1 (2026-01-21)
• XFG.3.33 (2026-01-21)
• QW.2 (2026-01-21)
• RU.1 (2026-01-21)
• RV.1 (2026-01-21)
• PQ.47 (2026-01-21)
• PQ.48 (2026-01-28)
• PQ.48.1 (2026-01-28)
• PQ.49 (2026-01-28)
• XFG.6.2.2 (2026-01-28)
• XGT (2026-01-28)
• QF.2.4 (2026-01-28)
• QF.2.3 (2026-01-28)
• XFG.5.4.2 (2026-03-12)
• RW.1 (2026-03-14)
• RW.1.1 (2026-03-14)
• XFZ.3 (2026-03-14)
• XFZ.2.1 (2026-03-14)
• XFG.5.2.7 (2026-03-14)
• XGU (2026-03-14)
• XFG.6.13 (2026-03-14)
• QY.2.1 (2026-03-14)
• XFG.14.10 (2026-03-14)
• XFG.10.4.1 (2026-03-14)
• RC.5 (2026-03-14)
• RC.6 (2026-03-14)
• XFG.1.1.3 (2026-03-14)
• XFG.1.1.4 (2026-03-14)
• XFG.1.1.5 (2026-03-14)
• RY.1 (2026-03-14)
• RY.1.1 (2026-03-14)
• RZ.1 (2026-03-14)
• RZ.2 (2026-03-14)
• RZ.2.1 (2026-03-14)
• SA.1 (2026-03-14)
• SA.1.1 (2026-03-14)
• PQ.2.12 (2026-03-14)
• PQ.2.12.1 (2026-03-14)
• PQ.2.13 (2026-03-14)
• PQ.2.13.1 (2026-03-14)
• XGA.4 (2026-03-15)
• XGV (2026-03-15)
• XGW (2026-03-15)
• SB.1 (2026-03-15)
• SB.1.1 (2026-03-15)
• XFG.6.2.3 (2026-03-15)
• SC.1 (2026-03-15)
• XFJ.3.1.4 (2026-03-15)
• QY.2.1.1 (2026-03-15)
• QY.2.2 (2026-03-15)
• QY.2.2.1 (2026-03-15)
• QF.2.5 (2026-03-15)
• QF.2.6 (2026-03-15)
• SD.1 (2026-03-15)
• SD.1.1 (2026-03-15)
• QF.2.2.2 (2026-03-15)
• XFG.3.17.1 (2026-03-15)
• XFG.3.17.2 (2026-03-15)
• SE.1 (2026-03-15)
• SE.2 (2026-03-15)
• SE.2.1 (2026-03-15)
• XFG.26.1 (2026-03-15)
• XFG.26.2 (2026-03-15)
• XFG.26.2.1 (2026-03-15)
• PQ.8.1.1 (2026-03-15)
• PQ.8.1.2 (2026-03-15)
• PQ.8.1.3 (2026-03-15)
• PQ.8.1.4 (2026-03-15)
• SF.1 (2026-03-15)
• SF.1.1 (2026-03-15)
• PQ.31.2 (2026-03-15)
• PQ.31.1.1 (2026-03-15)
• SG.1 (2026-03-15)
• PQ.31.3 (2026-03-15)
• PQ.31.3.1 (2026-03-15)
• PQ.31.4 (2026-03-15)
• RC.7 (2026-03-15)
• RC.7.1 (2026-03-15)
• RC.8 (2026-03-15)
• RC.9 (2026-03-15)
• RC.10 (2026-03-15)
• PQ.2.10.1 (2026-03-15)
• PQ.2.1.13 (2026-03-15)
• PQ.2.1.14 (2026-03-15)
• PQ.2.1.15 (2026-03-15)
• PQ.2.1.16 (2026-03-15)
• PQ.2.1.17 (2026-03-15)
• PQ.2.14 (2026-03-15)
• PQ.2.14.1 (2026-03-15)
• SH.1 (2026-03-15)
• PQ.17.12.1 (2026-03-15)
• XFG.14.1.9 (2026-03-18)
• XFG.14.1.10 (2026-03-18)
• RC.7.1.1 (2026-03-18)
• PE.1.4.4 (2026-03-18)
• RE.4 (2026-03-18)
• RE.1.1.4 (2026-03-18)
• RE.1.1.5 (2026-03-18)
• SJ.1 (2026-03-18)
• RE.1.1.6 (2026-03-18)
• RS.2 (2026-03-18)
• RS.3 (2026-03-18)
• RS.1.1 (2026-03-18)
• RS.1.2 (2026-03-18)
• RS.1.4 (2026-03-18)
• RS.1.3 (2026-03-18)
• RE.2.5 (2026-03-18)
• SK.1 (2026-03-18)
• SL.1 (2026-03-18)
• RE.2.1.4 (2026-03-18)
• RE.2.1.5 (2026-03-18)
• RE.2.1.6 (2026-03-18)
• RS.4 (2026-03-18)
• RE.2.2.9 (2026-03-18)
• SM.1 (2026-03-18)
• RT.2 (2026-03-18)
• SN.1 (2026-03-18)
• RE.2.2.10 (2026-03-18)
• QF.7.1 (2026-03-18)
• PQ.6.1 (2026-03-18)
• PQ.6.1.1 (2026-03-18)
• PQ.50 (2026-03-18)
• PQ.50.1 (2026-03-18)
• PQ.17.11.2 (2026-03-18)
• PQ.17.11.3 (2026-03-18)
• RM.3 (2026-03-19)
• RS.5 (2026-03-19)
• XFG.4.1.6 (2026-03-19)
• XFG.4.1.7 (2026-03-19)
• XFG.3.6.3 (2026-03-19)
• XFG.3.6.4 (2026-03-19)
• SP.1 (2026-03-19)
• SP.2 (2026-03-19)
• SP.2.1 (2026-03-19)
• XFG.1.1.6 (2026-03-19)
• XFG.1.1.7 (2026-03-19)
• SQ.1 (2026-03-20)
• SQ.1.1 (2026-03-20)
• SQ.2 (2026-03-20)
• SQ.3 (2026-03-20)
• SR.1 (2026-03-25)
• PQ.10.1.5 (2026-03-25)
• XFG.5.2.8 (2026-03-25)
• QS.3 (2026-03-25)
• QS.4 (2026-03-25)
• PQ.16.1 (2026-03-25)
• PQ.16.1.1 (2026-03-25)

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

• Add all 202 Pango lineages newly designated between 2025-12-24 and 2026-04-15. Unfold below to see a list of all newly included lineages with their designation dates:

Newly included lineages, with designation date in parentheses

• RG.2 (2026-01-06)
• RG.3 (2026-01-06)
• XFG.3.3.2 (2026-01-06)
• XFG.3.3.3 (2026-01-06)
• XGN (2026-01-06)
• RD.1.1.1 (2026-01-07)
• RE.3 (2026-01-07)
• RE.3.1 (2026-01-07)
• RE.1.1.1 (2026-01-07)
• RE.1.1.2 (2026-01-07)
• RE.1.1.3 (2026-01-07)
• RE.2.1.1 (2026-01-07)
• RE.2.1.2 (2026-01-07)
• RE.2.1.3 (2026-01-07)
• RE.2.3 (2026-01-07)
• RE.2.2.1 (2026-01-07)
• RE.2.2.2 (2026-01-07)
• RE.2.2.3 (2026-01-07)
• RE.2.2.4 (2026-01-07)
• RE.2.2.5 (2026-01-07)
• RE.2.2.6 (2026-01-07)
• RE.2.4 (2026-01-11)
• XFG.2.13 (2026-01-11)
• XFG.2.13.1 (2026-01-11)
• RR.1 (2026-01-11)
• PQ.43 (2026-01-11)
• PQ.43.1 (2026-01-11)
• PQ.43.1.1 (2026-01-11)
• PQ.43.2 (2026-01-11)
• PQ.17.9 (2026-01-11)
• PQ.17.10 (2026-01-11)
• PQ.17.10.1 (2026-01-11)
• PQ.17.11 (2026-01-11)
• PQ.17.11.1 (2026-01-11)
• PQ.4.10 (2026-01-11)
• PQ.4.10.1 (2026-01-11)
• PQ.17.12 (2026-01-11)
• QF.7 (2026-01-11)
• XGP (2026-01-11)
• PP.1.2 (2026-01-12)
• XGQ (2026-01-12)
• PQ.17.2.1 (2026-01-12)
• RF.5 (2026-01-14)
• RE.1.2 (2026-01-14)
• RS.1 (2026-01-14)
• RT.1 (2026-01-14)
• RE.2.2.7 (2026-01-20)
• RE.2.2.8 (2026-01-20)
• XFY.2 (2026-01-21)
• XFY.3 (2026-01-21)
• XGR (2026-01-21)
• XGS (2026-01-21)
• PQ.44 (2026-01-21)
• PQ.45 (2026-01-21)
• PQ.46 (2026-01-21)
• PQ.46.1 (2026-01-21)
• XFG.3.33 (2026-01-21)
• QW.2 (2026-01-21)
• RU.1 (2026-01-21)
• RV.1 (2026-01-21)
• PQ.47 (2026-01-21)
• PQ.48 (2026-01-28)
• PQ.48.1 (2026-01-28)
• PQ.49 (2026-01-28)
• XFG.6.2.2 (2026-01-28)
• XGT (2026-01-28)
• QF.2.4 (2026-01-28)
• QF.2.3 (2026-01-28)
• XFG.5.4.2 (2026-03-12)
• RW.1 (2026-03-14)
• RW.1.1 (2026-03-14)
• XFZ.3 (2026-03-14)
• XFZ.2.1 (2026-03-14)
• XFG.5.2.7 (2026-03-14)
• XGU (2026-03-14)
• XFG.6.13 (2026-03-14)
• QY.2.1 (2026-03-14)
• XFG.14.10 (2026-03-14)
• XFG.10.4.1 (2026-03-14)
• RC.5 (2026-03-14)
• RC.6 (2026-03-14)
• XFG.1.1.3 (2026-03-14)
• XFG.1.1.4 (2026-03-14)
• XFG.1.1.5 (2026-03-14)
• RY.1 (2026-03-14)
• RY.1.1 (2026-03-14)
• RZ.1 (2026-03-14)
• RZ.2 (2026-03-14)
• RZ.2.1 (2026-03-14)
• SA.1 (2026-03-14)
• SA.1.1 (2026-03-14)
• PQ.2.12 (2026-03-14)
• PQ.2.12.1 (2026-03-14)
• PQ.2.13 (2026-03-14)
• PQ.2.13.1 (2026-03-14)
• XGA.4 (2026-03-15)
• XGV (2026-03-15)
• XGW (2026-03-15)
• SB.1 (2026-03-15)
• SB.1.1 (2026-03-15)
• XFG.6.2.3 (2026-03-15)
• SC.1 (2026-03-15)
• XFJ.3.1.4 (2026-03-15)
• QY.2.1.1 (2026-03-15)
• QY.2.2 (2026-03-15)
• QY.2.2.1 (2026-03-15)
• QF.2.5 (2026-03-15)
• QF.2.6 (2026-03-15)
• SD.1 (2026-03-15)
• SD.1.1 (2026-03-15)
• QF.2.2.2 (2026-03-15)
• XFG.3.17.1 (2026-03-15)
• XFG.3.17.2 (2026-03-15)
• SE.1 (2026-03-15)
• SE.2 (2026-03-15)
• SE.2.1 (2026-03-15)
• XFG.26.1 (2026-03-15)
• XFG.26.2 (2026-03-15)
• XFG.26.2.1 (2026-03-15)
• PQ.8.1.1 (2026-03-15)
• PQ.8.1.2 (2026-03-15)
• PQ.8.1.3 (2026-03-15)
• PQ.8.1.4 (2026-03-15)
• SF.1 (2026-03-15)
• SF.1.1 (2026-03-15)
• PQ.31.2 (2026-03-15)
• PQ.31.1.1 (2026-03-15)
• SG.1 (2026-03-15)
• PQ.31.3 (2026-03-15)
• PQ.31.3.1 (2026-03-15)
• PQ.31.4 (2026-03-15)
• RC.7 (2026-03-15)
• RC.7.1 (2026-03-15)
• RC.8 (2026-03-15)
• RC.9 (2026-03-15)
• RC.10 (2026-03-15)
• PQ.2.10.1 (2026-03-15)
• PQ.2.1.13 (2026-03-15)
• PQ.2.1.14 (2026-03-15)
• PQ.2.1.15 (2026-03-15)
• PQ.2.1.16 (2026-03-15)
• PQ.2.1.17 (2026-03-15)
• PQ.2.14 (2026-03-15)
• PQ.2.14.1 (2026-03-15)
• SH.1 (2026-03-15)
• PQ.17.12.1 (2026-03-15)
• XFG.14.1.9 (2026-03-18)
• XFG.14.1.10 (2026-03-18)
• RC.7.1.1 (2026-03-18)
• PE.1.4.4 (2026-03-18)
• RE.4 (2026-03-18)
• RE.1.1.4 (2026-03-18)
• RE.1.1.5 (2026-03-18)
• SJ.1 (2026-03-18)
• RE.1.1.6 (2026-03-18)
• RS.2 (2026-03-18)
• RS.3 (2026-03-18)
• RS.1.1 (2026-03-18)
• RS.1.2 (2026-03-18)
• RS.1.4 (2026-03-18)
• RS.1.3 (2026-03-18)
• RE.2.5 (2026-03-18)
• SK.1 (2026-03-18)
• SL.1 (2026-03-18)
• RE.2.1.4 (2026-03-18)
• RE.2.1.5 (2026-03-18)
• RE.2.1.6 (2026-03-18)
• RS.4 (2026-03-18)
• RE.2.2.9 (2026-03-18)
• SM.1 (2026-03-18)
• RT.2 (2026-03-18)
• SN.1 (2026-03-18)
• RE.2.2.10 (2026-03-18)
• QF.7.1 (2026-03-18)
• PQ.6.1 (2026-03-18)
• PQ.6.1.1 (2026-03-18)
• PQ.50 (2026-03-18)
• PQ.50.1 (2026-03-18)
• PQ.17.11.2 (2026-03-18)
• PQ.17.11.3 (2026-03-18)
• RM.3 (2026-03-19)
• RS.5 (2026-03-19)
• XFG.4.1.6 (2026-03-19)
• XFG.4.1.7 (2026-03-19)
• XFG.3.6.3 (2026-03-19)
• XFG.3.6.4 (2026-03-19)
• SP.1 (2026-03-19)
• SP.2 (2026-03-19)
• SP.2.1 (2026-03-19)
• XFG.1.1.6 (2026-03-19)
• XFG.1.1.7 (2026-03-19)
• SQ.1 (2026-03-20)
• SQ.1.1 (2026-03-20)
• SQ.2 (2026-03-20)
• SQ.3 (2026-03-20)
• SR.1 (2026-03-25)
• PQ.10.1.5 (2026-03-25)
• XFG.5.2.8 (2026-03-25)
• QS.3 (2026-03-25)
• QS.4 (2026-03-25)
• PQ.16.1 (2026-03-25)
• P...

2026-04-14--11-55-23Z

This release contains changes for datasets:

• Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/MW626062)
• Influenza A H1N1pdm NA (nextstrain/flu/h1n1pdm/na/MW626056)
• Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/EPI1857216)
• Influenza A H3N2 NA (nextstrain/flu/h3n2/na/EPI1857215)
• Influenza B (all) HA (nextstrain/flu/b/ha/KX058884)
• Influenza B (all) NA (nextstrain/flu/b/na/CY073894)
• Influenza B Victoria HA (nextstrain/flu/vic/ha/KX058884)
• Influenza B Victoria NA (nextstrain/flu/vic/na/CY073894)
• Influenza B Yamagata HA (nextstrain/flu/yam/ha/JN993010)
• RSV-A (nextstrain/rsv/a/EPI_ISL_412866)
• RSV-B (nextstrain/rsv/b/EPI_ISL_1653999)
• Mpox virus (All clades) (nextstrain/mpox/all-clades)
• Mpox virus (Clade I) (nextstrain/mpox/clade-i)
• Mpox virus (Clade IIb) (nextstrain/mpox/clade-iib)
• Mpox virus (Lineage B.1) (nextstrain/mpox/lineage-b.1)
• Ebola virus (nextstrain/orthoebolavirus/ebov)
• Sudan virus (nextstrain/orthoebolavirus/sudv)
• Measles morbillivirus -- complete genome (nextstrain/measles/genome/WHO-2012)
• Dengue virus All serotypes (nextstrain/dengue/all)
• Human Metapneumovirus (nextstrain/hmpv/all-clades/NC_039199)
• Varicella-Zoster Virus (VZV) (nextstrain/herpes/vzv/NC_001348)
• Rubella virus E1 region (nextstrain/rubella/E1)
• Mumps MuV Genotypes (SH gene 315nt region) (nextstrain/mumps/sh)
• Mumps MuV Genotypes (Full genome) (nextstrain/mumps/genome)
• Rubella (nextstrain/rubella/genome)
• Influenza A H3N2 PB2 (nextstrain/flu/h3n2/pb2)
• Influenza A H3N2 PB1 (nextstrain/flu/h3n2/pb1)
• Influenza A H3N2 PA (nextstrain/flu/h3n2/pa)
• Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/CY163680)
• Influenza A H3N2 NP (nextstrain/flu/h3n2/np)
• Influenza A H3N2 MP (nextstrain/flu/h3n2/mp)
• Influenza A H3N2 NS (nextstrain/flu/h3n2/ns)
• Influenza A H1N1pdm PB2 (nextstrain/flu/h1n1pdm/pb2)
• Influenza A H1N1pdm PB1 (nextstrain/flu/h1n1pdm/pb1)
• Influenza A H1N1pdm PA (nextstrain/flu/h1n1pdm/pa)
• Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/CY121680)
• Influenza A H1N1pdm MP (nextstrain/flu/h1n1pdm/mp)
• Influenza A H1N1pdm NP (nextstrain/flu/h1n1pdm/np)
• Influenza A H1N1pdm NS (nextstrain/flu/h1n1pdm/ns)
• West Nile Virus (nextstrain/wnv/all-lineages)
• Enterovirus D68 (enpen/enterovirus/ev-d68)
• PRRSV-1 ORF5 (community/isuvdl/mazeller/prrsv1/orf5/yimim2025)
• PRRSV-2 ORF5 Lineages, Yim-im & Zhang 2023 Microbiol Spectr (community/isuvdl/mazeller/prrsv2/orf5/yimim2023)
• HIV-1 (HXB2) (community/neherlab/hiv-1/hxb2)
• H5Nx clade 2.3.4.4 (community/moncla-lab/iav-h5/ha/2.3.4.4)
• H5Nx (all clades) (community/moncla-lab/iav-h5/ha/all-clades)
• H5Nx clade 2.3.2.1 (community/moncla-lab/iav-h5/ha/2.3.2.1)
• DENV-1 (community/v-gen-lab/dengue/denv1)
• DENV-2 (community/v-gen-lab/dengue/denv2)
• DENV-3 (community/v-gen-lab/dengue/denv3)
• DENV-4 (community/v-gen-lab/dengue/denv4)
• chikV (community/v-gen-lab/chikV/genotypes)
• Zika virus (community/itps/zikav)

Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/MW626062)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse
• add NA clade annotations to tree

Influenza A H1N1pdm NA (nextstrain/flu/h1n1pdm/na/MW626056)

• add subclade D.3
• add HA clade annotations to tree

Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/EPI1857216)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse

Influenza A H3N2 NA (nextstrain/flu/h3n2/na/EPI1857215)

• Move aaMutLabelMap (NAI resistance markers) into mutLabels section
• Remove legacy nucMutLabelMapReverse

Influenza B (all) HA (nextstrain/flu/b/ha/KX058884)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse
• addition of subclade C.3.3
• inclusion of older sequences that precede the current subclade system

Influenza B (all) NA (nextstrain/flu/b/na/CY073894)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse
• inclusion of older sequences that precede the current subclade system

Influenza B Victoria HA (nextstrain/flu/vic/ha/KX058884)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse
• addition of subclade C.3.3
• inclusion of older sequences that precede the current subclade system

Influenza B Victoria NA (nextstrain/flu/vic/na/CY073894)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse
• Move aaMutLabelMap (NAI resistance markers) into mutLabels section
• inclusion of older sequences that precede the current subclade system

Influenza B Yamagata HA (nextstrain/flu/yam/ha/JN993010)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse

RSV-A (nextstrain/rsv/a/EPI_ISL_412866)

• Remove redundant geneOrderPreference (superseded by cdsOrderPreference)

RSV-B (nextstrain/rsv/b/EPI_ISL_1653999)

• Remove redundant geneOrderPreference (superseded by cdsOrderPreference)

Mpox virus (All clades) (nextstrain/mpox/all-clades)

• Align pathogen.json metadata with the current Nextclade schema layout.

Mpox virus (Clade I) (nextstrain/mpox/clade-i)

• Align pathogen.json metadata with the current Nextclade schema layout.

Mpox virus (Clade IIb) (nextstrain/mpox/clade-iib)

• Align pathogen.json metadata with the current Nextclade schema layout.

Mpox virus (Lineage B.1) (nextstrain/mpox/lineage-b.1)

• Align pathogen.json metadata with the current Nextclade schema layout.

Ebola virus (nextstrain/orthoebolavirus/ebov)

• Align pathogen.json metadata with the current Nextclade schema layout.

Sudan virus (nextstrain/orthoebolavirus/sudv)

• Align pathogen.json metadata with the current Nextclade schema layout.

Measles morbillivirus -- complete genome (nextstrain/measles/genome/WHO-2012)

• Remove obsolete QC score-weight fields from pathogen.json.

Dengue virus All serotypes (nextstrain/dengue/all)

• Align pathogen.json metadata with the current Nextclade schema layout.

Human Metapneumovirus (nextstrain/hmpv/all-clades/NC_039199)

• Rename qc.frameShifts.ignoreFrameShifts to ignoredFrameShifts
• Rename geneOrderPreference to cdsOrderPreference

Varicella-Zoster Virus (VZV) (nextstrain/herpes/vzv/NC_001348)

• Remove obsolete QC score-weight fields from pathogen.json.

Rubella virus E1 region (nextstrain/rubella/E1)

• Fix typo: excessBandwith to excessBandwidth

Mumps MuV Genotypes (SH gene 315nt region) (nextstrain/mumps/sh)

• Align pathogen.json metadata with the current Nextclade schema layout.
• Move includeReference and includeNearestNodeInfo from alignmentParams to generalParams

Mumps MuV Genotypes (Full genome) (nextstrain/mumps/genome)

• Align pathogen.json metadata with the current Nextclade schema layout.
• Move includeNearestNodeInfo from alignmentParams to generalParams

Rubella (nextstrain/rubella/genome)

• Remove obsolete QC score-weight fields from pathogen.json.

Influenza A H3N2 PB2 (nextstrain/flu/h3n2/pb2)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H3N2 PB1 (nextstrain/flu/h3n2/pb1)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H3N2 PA (nextstrain/flu/h3n2/pa)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/CY163680)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse

Influenza A H3N2 NP (nextstrain/flu/h3n2/np)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H3N2 MP (nextstrain/flu/h3n2/mp)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H3N2 NS (nextstrain/flu/h3n2/ns)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H1N1pdm PB2 (nextstrain/flu/h1n1pdm/pb2)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H1N1pdm PB1 (nextstrain/flu/h1n1pdm/pb1)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H1N1pdm PA (nextstrain/flu/h1n1pdm/pa)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/CY121680)

• Remove empty nucMutLabelMap and legacy nucMutLabelMapReverse

Influenza A H1N1pdm MP (nextstrain/flu/h1n1pdm/mp)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H1N1pdm NP (nextstrain/flu/h1n1pdm/np)

• updates to reference trees
• added coloring by HA and NA clades by isolate

Influenza A H1N1pdm NS (nextstrain/flu/h1n1pdm/ns)

• updates to reference trees
• added coloring by HA and NA clades by isolate

West Nile Virus (nextstrain/wnv/all-lineages)

• Align pathogen.json metadata with the current Nextclade schema layout.

Enterovirus D68 (enpen/enterovirus/ev-d68)

• Remove deprecated nucMutLabelMapReverse field (computed at runtime in v3)
• Remove invalid qc.divergence rule (not a configurable parameter)

PRRSV-1 ORF5 (community/isuvdl/mazeller/prrsv1/orf5/yimim2025)

• Remove invalid qc.missingData.scoreWeight and qc.mixedSites.scoreWeight

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

• Unify attributes per schema update

HIV-1 (HXB2) (community/neherlab/hiv-1/hxb2)

• Move placementMaskRanges to tree.json
• Unify attributes per schema update

H5Nx clade 2.3.4.4 (community/moncla-lab/iav-h5/ha/2.3.4.4)

• Remove obsolete deprecated and experimental fiel...

2026-03-04--12-40-26Z

This release contains changes for datasets:

• Zika virus (community/itps/zikav)
• West Nile Virus (nextstrain/wnv/all-lineages)

Zika virus (community/itps/zikav)

Initial release of a Zika Virus (zikav) dataset for genotype classification!

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.htmls

West Nile Virus (nextstrain/wnv/all-lineages)

Initial release of this dataset.