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hodcroftlab / covariants

Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
https://covariants.org/
GNU Affero General Public License v3.0
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Add BA.2.9 alias for B.1.1.529.2.9 to covariant website #310

Closed summercms closed 2 days ago

summercms commented 2 years ago

Would it be a good idea to add BA.2.9

As of (today) has 349851 total sequences so far and in many countries.

I believe European Centre for Disease Prevention and Control labels it as a Variant under monitoring, checked WHO and UK Gov websites (they seem to be slow and not yet mention it).

Maybe you can add it or monitor it, because it has a 19.29% overall proportion to the world and so I thought I'd mention it as it's over 10%.

Links:

https://cov-spectrum.org/explore/World/AllSamples/Past3M/variants?pangoLineage=BA.2.9&

https://github.com/cov-lineages/pango-designation/issues/530

emmahodcroft commented 2 years ago

Hi @summercms - thanks for alerting me to this. This variant is indeed interesting. However, it differs only by 1 AA mutation in ORF3a as far as I can tell, and I'm not sure if this is just being pulled up by the spread of BA.2.

Currently with so many lineages going around, I'm trying to keep adding things to CoVariants that are likely of more specific interest, such as potential (or known) differences in transmission, immunity, etc. But, I'm happy to keep an eye on this, or a potential sublineage of this, if it seems like it becomes worth designating!

summercms commented 2 years ago

@emmahodcroft I let you decide if you want to close this issue, it seems like BA.2.9 numbers are declining quite quickly and BA.2.12.1 and BA.2.10 are taking over.

https://cov-spectrum.org/explore/World/AllSamples/Past3M/variants?pangoLineage=BA.2.12.1&

https://cov-spectrum.org/explore/World/AllSamples/Past3M/variants?pangoLineage=BA.2.10&

As you said it differs only by one AA mutation, so it's probably not wise to add it to CoVariants (as you guys seem to add variants with much more mutations).