BA.5.1.21 (Orf1b:G662S) sublineage defined by Orf9b:D2G circulating in Denmark (310 sequences)

[FedeGueli]

Ba.5.1.21 is a lineage defined by the infamous delta signature Orf1b:G662S.

While checking how it was going how it is doing i noticed with CovSpectrum new tool "Mutations over time" that the mutation Orf9b:D2G (A28288G) was increasing its share in the BA.5.1.21 lineage, so this usually means some growth advantage/or founder effect is ongoing.

Being that all the last fastest lineages as BA.5.2 before and BQ.1 now are characterized by an Orf9b mutation i checked the growth advantage of this potential sublineage and it was quite clear:

https://cov-spectrum.org/explore/World/AllSamples/Past2M/variants?nextcladePangoLineage=BA.5.1.21*&aaMutations1=ORF9b%3AD2G&nextcladePangoLineage1=BA.5.1.21*&analysisMode=CompareToBaseline&

Tree:

https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_3345d_29b5e0.json?branchLabel=nuc%20mutations&c=country&label=nuc%20mutations:A28288G

Interestingly it is showing already a discrete level of diversity
with two main branches defined by Nuc mutations: one of A12841G , the other with T14046C.

It is already spread in multiple countries

Reaching over 0,5% of sequences in Denmark during the last month and we know well that every new fast variant already showed up in Denmark during last 30Days.

It counts 286 sequences on Usher
276 sequences on covspectrum with BA.5.1.21* (Nextclade) + ORF9b:D2G
https://cov-spectrum.org/explore/World/AllSamples/Past6M/variants?aaMutations=ORF9b%3AD2G&nextcladePangoLineage=BA.5.1.21*&nextcladePangoLineage1=BA.5.1.21*&

List of sequences:
contributors.csv

Unfortunately no Gisaid query could catch this one as a whole the only one catches just the lower branch with Orf3a:d155Y: NS3_D155Y,NSP12_G671S,NSP14_D379N 845 sequences as today

[FedeGueli]

310 seqs as today

[InfrPopGen]

Thanks for submitting. We've added lineage BT.2 with 50 newly designated sequences, and 119 updated designations from BA.5.1.21. Defining mutation A28288G (ORF9b:D2G).