Quite impressive to see how quickly 23I (BA.2.86 including JN.1 - shown here in light blue) has come to dominate globally, even across areas that had slightly different previous mixes of variants. 🌎
(Charts from #CoVariants http://covariants.org/per-country)
1/4
Of course, on the Shared Mutations page, you can see how these variants’ mutations compare to other notable variants.🧬🦠
http://covariants.org/shared-mutations
6/8
On the Per Country page you can also see the 3 new variants clearly. In particular, adding 23I clarifies that 21L was not ‘back from the past’ - rather it was this one, notable and unique 21L descendant.
http://covariants.org/per-country
5/8
🔍Small CoVariants.org Note🔍
Due to a bug, 'recombinants' as a category isn't showing up currently on #CoVariants. This may make it look like more 'other' are circulating until we get it fixed!
Apologies for any confusion & hopefully it'll be back soon!
@firefoxx66
More information on 23A (XBB.1.5) & its spread will become available in due course.
As always, http://CoVariants.org is open-source & we welcome your PRs & suggestions to add more studies & information to variant pages! (Or any error-catching!)
http://github.com/hodcroftlab/covariants
5/N
@firefoxx66 On the Per Country page (http://covariants.org/per-country), 23A (XBB.1.5) is already clearly visible in the USA, Canada, UK & Israel, & is starting to appear in smaller numbers in other countries, like Germany & Singapore. Remember, sequencing data is always a few weeks behind.
Finally, on the Shared Mutations page (https://covariants.org/shared-mutations), you can see how 23A's / XBB.1.5's Spike mutations compare to other VoC, including its Omicron family and 22F (XBB) parent.
4/N
@firefoxx66 There's also a link to the 23A (XBB.1.5) @nextstrain focal build:
http://nextstrain.org/groups/neherlab/ncov/23A.Omicron
Here, we can zoom in on the clade & get a closer look at how 23A sequences are distributed around the world, & their diversity. 🌏🌎
3/N
@firefoxx66 As I covered earlier (see thread https://mstdn.science/@firefoxx66/109643027333486673), #23A (XBB.1.5) is descended from the recombinant 22F (XBB) variant, with some additional mutations.
On the 23A #CoVariants page (https://covariants.org/variants/23A.Omicron), you can read about some initial 23A (XBB.1.5) work on neutralizing titres, see a list of defining mutations, a plot of the variant growth, link to Aquaria protein viz, & see a list of other mutations present in the variant.
2/N
Attached: 1 image I've updated my #SARSCoV2 #22F/#XBB figure to show how it has evolved into XBB.1 & XBB.1.5 XBB.1 has an additional spike S1 mutation at G252V XBB.1.5 has a second amino-acid change at 486, taking 486S -> 486P 1/2 #XBB1 #XBB15 https://twitter.com/firefoxx66/status/1587762412110974976
🎉 CoVariants.org Update! 🎉
23A (XBB.1.5) is now available on #CoVariants! It's visible as part of Per Country & Per Variant plots, on the shared mutation page - and of course, has a page of its own.
This is in line with the recent addition of 23A (XBB.1.5) as a @nextstrain clade - read more on that in this tweet thread: https://twitter.com/nextstrain/status/1623723987707564034
1/N
Dr Emma Hodcroft 
