Author: Juan Angel Patino-Galindo; Ioan Filip; Mohammed AlQuraishi; Raul Rabadan
Title: Recombination and lineage-specific mutations led to the emergence of SARS-CoV-2 Document date: 2020_2_18
ID: bgdcm1i1_18
Snippet: Trough ancestral state reconstruction, we then inferred the entire Spike sequence of the most recent common ancestor (MRCA) of RaTG13 and SARS-CoV-2. We assessed the changes that were specific to the lineage leading to SARS-CoV-2 and identified 32 substitutions (of which 2 only were in the RBD) at 4-fold degenerated sites, and 10 amino acid changes (of which 5 were in the RBD) which have likely occurred in the lineage leading to SARS-CoV-2 (Suppl.....
Document: Trough ancestral state reconstruction, we then inferred the entire Spike sequence of the most recent common ancestor (MRCA) of RaTG13 and SARS-CoV-2. We assessed the changes that were specific to the lineage leading to SARS-CoV-2 and identified 32 substitutions (of which 2 only were in the RBD) at 4-fold degenerated sites, and 10 amino acid changes (of which 5 were in the RBD) which have likely occurred in the lineage leading to SARS-CoV-2 (Supplementary Table 6 ). Thus, we report a significant enrichment of nonsynonymous changes in the RBD (Fisher Exact Test: p-value =0.005; Odds Ratio = 13.6, 95% Confidence Interval = 1.7 -180.0). The five amino acid changes in RBD were I428L, A430S, K465T and Y484Q. Interestingly, position 484 has already been reported to directly interact with ACE2 23 .
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