Apr 24, 2020

Evolution and molecular characteristics of SARS-CoV-2 genome

BioRxiv : the Preprint Server for Biology
Y. BaiHongli Du


In the evolution analysis of 622 complete human severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genomes with high quality, the estimated Ka/Ks ratio of SARS-CoV-2 is 1.008, which is significantly higher than that of SARS-CoV and MERS-CoV, and the time to the most recent common ancestor (tMRCA) of SARS-CoV-2 is inferred in late September 2019 (95% CI: 2019/08/28-2019/10/26), which indicating that SARS-CoV-2 may have completed a positive selection pressure of the cross-host evolution in the early stage and be going through a neutral evolution at present. In addition, no-root phylogenetic tree of the 622 SARS-CoV-2 genomes were constructed by maximum likelihood (ML) with the bootstrap value of 100. According to the phylogenetic trees, all genomes were divided into Cluster 1 to 3, in which genomes were mainly from North America, global and Europe respectively. Further we find 9 key specific sites of highly linkage which play a decisive role in the classification of each cluster. Among them, 3 and 4 sites of almost complete linkage are the specific sites for Cluster 1 and Cluster 3 respectively. Notably the frequencies of haplotype TTTG and H1 are generally high in European countries and correlated to death rate (r>0.4)...Continue Reading

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Mentioned in this Paper

Biochemical Pathway
Study of Epigenetics
Drug Interactions
Chromatin Location
Globule Dosage Form

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