tetano
Editor, Senior Moderator
J Med Virol
. 2021 Jul 22.
doi: 10.1002/jmv.27225. Online ahead of print.
Evolution Trace of SARS-CoV-2 from January 19 to March 12, 2020 in the United States
Ziying Lin[SUP] 1 [/SUP], Hua Qing[SUP] 1 [/SUP], Rui Li[SUP] 1 [/SUP], Lei Zheng[SUP] 2 [/SUP], Huipeng Yao[SUP] 1 [/SUP]
Affiliations
Abstract
As a kind of human betacoronavirus, SARS-CoV-2 has endangered globally public health. As of January 2021, the virus had resulted in 2,209,195 deaths. By studying the evolution trend and characteristics of 265 SARS-CoV-2 strains in the USA from January to March, it is found that the strains can be divided into six clades, USA clade-1, USA clade-2, USA clade-3, USA clade-4, USA clade-5 and USA clade-6, in which USA clade-1 may be the most ancestral clade, USA clade-2 is an interim clade of USA clade-1 and USA clade-3, the other three clades have similar codon usage pattern, while USA clade-6 is the newest and most adaptable clade. Mismatch analysis and protein alignment showed that the evolution of the clades arises from some special mutations in viral proteins, which may help the strain to invade, replicate, transcribe and so on. Compared with previous researches and classifications, we suggest that clade O in GISAID should not be an independent clade and Wuhan-Hu-1 (EPI_ISL_402125) should not be an ancestral reference sequence. Our study decoded the evolutionary dynamic of SARS-CoV-2 in the early stage from the USA, which give some clues to infer the current evolution trend of SARS-CoV-2 and study the function of viral mutational protein. This article is protected by copyright. All rights reserved.
Keywords: Coronavirus; SARS-CoV-2; clade; evolution.
. 2021 Jul 22.
doi: 10.1002/jmv.27225. Online ahead of print.
Evolution Trace of SARS-CoV-2 from January 19 to March 12, 2020 in the United States
Ziying Lin[SUP] 1 [/SUP], Hua Qing[SUP] 1 [/SUP], Rui Li[SUP] 1 [/SUP], Lei Zheng[SUP] 2 [/SUP], Huipeng Yao[SUP] 1 [/SUP]
Affiliations
- PMID: 34292617
- DOI: 10.1002/jmv.27225
Abstract
As a kind of human betacoronavirus, SARS-CoV-2 has endangered globally public health. As of January 2021, the virus had resulted in 2,209,195 deaths. By studying the evolution trend and characteristics of 265 SARS-CoV-2 strains in the USA from January to March, it is found that the strains can be divided into six clades, USA clade-1, USA clade-2, USA clade-3, USA clade-4, USA clade-5 and USA clade-6, in which USA clade-1 may be the most ancestral clade, USA clade-2 is an interim clade of USA clade-1 and USA clade-3, the other three clades have similar codon usage pattern, while USA clade-6 is the newest and most adaptable clade. Mismatch analysis and protein alignment showed that the evolution of the clades arises from some special mutations in viral proteins, which may help the strain to invade, replicate, transcribe and so on. Compared with previous researches and classifications, we suggest that clade O in GISAID should not be an independent clade and Wuhan-Hu-1 (EPI_ISL_402125) should not be an ancestral reference sequence. Our study decoded the evolutionary dynamic of SARS-CoV-2 in the early stage from the USA, which give some clues to infer the current evolution trend of SARS-CoV-2 and study the function of viral mutational protein. This article is protected by copyright. All rights reserved.
Keywords: Coronavirus; SARS-CoV-2; clade; evolution.