XBL

[szhan]

This Pango X looks like an interesting case.

As per its pango-designation issue (cov-lineages/pango-designation#1532), XBL has two breakpoints. Its inheritance structure is XBB.1* + BA.2.75* + XBB.1*. The evidence for BA.2.75* being a parent is four mutations (C3796T, C3927T, C4586T, and C5183T).

It has just two samples ERR10910492 and ERR10937973 (labelled XBL.3) in Viridian v04. It is detected as a non-recombinant by sc2ts. Its parent is node 1433243, which has a Pango label of XBB.1.5.57. Their copying paths have 9 and 10 mutations, respectively.

ERR10910492: G3446A, C3796T, C3927T, C4586T, C5183T, C11824T, G14400T, C17766T, C29025T
ERR10937973: G3446A, C3796T, C3927T, C4586T, C5183T, C11824T, G14400T, C17766T, G23873T, C29025T

Why don't the paths have two switches: one to a BA.2.75* sample at 3796 and then another to an XBB.1* sample after 5183? There are four mutations (highlighted in bold) to support BA.2.75*. Is it that there are no XBB.1* samples which have C11824T, G14400T, C17766T, and C29025T?

[FedeGueli]

Great to see you are working on complex recombinants, i suggest to take look also at XFJ, XFP,XFM , LF.7.6.2 which are recombinants of a very undersampled lineage descending from LS.2 in Cote D'Ivoire.

[szhan]

@FedeGueli Thank you for point them out! If we do get to analyse them in the future, it'd be great to get your thoughts on it.

[FedeGueli]

@FedeGueli Thank you for point them out! If we do get to analyse them in the future, it'd be great to get your thoughts on it.

Thanks very happy to help.