Eräs uusi mutaatio pisti silmään: L834M fuusiopeptidin (FP) alueessa

 

Sublineage of BF.7 with S:I834M, ORF1a:H374Y, & ORF1b:H604Y (72 seq) #1265

Open

ryhisner opened this issue 2 days ago · 0 comments

Comments

ryhisner commented 2 days ago

Description Sub-lineage of: BF.7 Earliest sequence: 2022-8-16, Germany — EPI_ISL_14695826 Most recent sequence: 2022-10-20, Denmark — EPI_ISL_15551009 Countries circulating: Denmark (41), Germany (17), France (3), Netherlands (3), Switzerland (2), Belgium (1), Czech Republic (1), Poland (1), Scotland (1), Spain (1), USA (1) Number of Sequences: 72 GISAID Query: Spike_I834M, NSP2_H194Y, NSP12_H613Y CovSpectrum Query: S:I834M & ORF1a:H374Y & ORF1b:H604Y Substitutions on top of BA.: Spike: I834M ORF1a: H374Y ORF1b: H604Y Nucleotide: C1385T, C15277T, C24064G USHER Tree https://nextstrain.org/fetch/ (I will put a permalink here for the Usher tree once GISAID stops malfunctioning and it is possible to download multiple sequences again.) It’s worth noting that 29 of the 72 sequences in this sublineage, including a majority of those with collection dates after October 10, also have ORF7a:P48L. Fifty of the 72 sequences here have collection dates in October. Evidence In the past few weeks this branch of BF.7 has grown faster than BF.7 overall, both within Denmark and in Europe overall. S:I834M involves a C->G nucleotide mutation, which is the rarest type, and S:834 is part of the fusion peptide (FP), near the border between its two parts, FP1 and the fusion-peptide proximal region (FPPR). It has been proposed that the FPPR helps to stabilize the RBD in the down conformation: “The FP forms a short helix and tucks in a pocket formed by two neighboring S protomers. The structured FPPR clashes with the CTD1 if the RBD moves up and thus appears to help clamp the prefusion S trimer in the closed, RBD-down conformation. It has also been suggested to function as a pH-dependent switch domain that modulates the RBD position.” (Zhang, et al, “Structures of SARS-CoV-2 Spike protein” https://doi.org/10.1016/j.coviro.2021.08.010) Genomes Genomes EPI_ISL_14694427, EPI_ISL_14695826, EPI_ISL_14977608, EPI_ISL_14979444, EPI_ISL_15020780, EPI_ISL_15056605, EPI_ISL_15063518, EPI_ISL_15100064, EPI_ISL_15100933, EPI_ISL_15130174, EPI_ISL_15252539, EPI_ISL_15263398, EPI_ISL_15265186, EPI_ISL_15267684, EPI_ISL_15267899, EPI_ISL_15268001, EPI_ISL_15311217, EPI_ISL_15316676, EPI_ISL_15316704, EPI_ISL_15316772, EPI_ISL_15347070, EPI_ISL_15366633, EPI_ISL_15374260, EPI_ISL_15374867, EPI_ISL_15379912, EPI_ISL_15383909, EPI_ISL_15383917, EPI_ISL_15384070, EPI_ISL_15405973, EPI_ISL_15406304, EPI_ISL_15420784, EPI_ISL_15430357, EPI_ISL_15430513, EPI_ISL_15430762, EPI_ISL_15430840, EPI_ISL_15430884, EPI_ISL_15431494, EPI_ISL_15431804, EPI_ISL_15433661, EPI_ISL_15448296, EPI_ISL_15451184, EPI_ISL_15451834, EPI_ISL_15452835, EPI_ISL_15453424, EPI_ISL_15453435, EPI_ISL_15453496, EPI_ISL_15453651, EPI_ISL_15467036, EPI_ISL_15467089, EPI_ISL_15467544, EPI_ISL_15476727, EPI_ISL_15480139, EPI_ISL_15480465, EPI_ISL_15499803, EPI_ISL_15518711, EPI_ISL_15519228, EPI_ISL_15521321, EPI_ISL_15522821, EPI_ISL_15523223, EPI_ISL_15536518, EPI_ISL_15550181, EPI_ISL_15550665, EPI_ISL_15550889, EPI_ISL_15550909, EPI_ISL_15551009, EPI_ISL_15551393, EPI_ISL_15551539, EPI_ISL_15551668, EPI_ISL_15552156, EPI_ISL_15552679, EPI_ISL_15552733, EPI_ISL_15553373

thomasppeacock added the BA.5 label 2 days ago