globalchange  > 气候变化与战略
DOI: 10.1016/j.scib.2021.02.012
论文题名:
Evolutionary analysis and lineage designation of SARS-CoV-2 genomes
作者: Tang X.; Ying R.; Yao X.; Li G.; Wu C.; Tang Y.; Li Z.; Kuang B.; Wu F.; Chi C.; Du X.; Qin Y.; Gao S.; Hu S.; Ma J.; Liu T.; Pang X.; Wang J.; Zhao G.; Tan W.; Zhang Y.; Lu X.; Lu J.
刊名: Science Bulletin
ISSN: 20959273
出版年: 2021
语种: 英语
中文关键词: Adaptive evolution ; Compensatory advantageous mutation ; COVID-19 ; Evolutionary analysis ; Lineage designation
英文关键词: Diseases ; Adaptive evolution ; Compensatory advantageous mutation ; Coronavirus disease 2019 ; Coronaviruses ; Etiological agent ; Evolutionary analyse ; Genome sequences ; Genomics ; Lineage designation ; Single nucleotides ; Genes
英文摘要: The pandemic due to the SARS-CoV-2, the etiological agent of coronavirus disease 2019 (COVID-19), has caused immense global disruption. With the rapid accumulation of SARS-CoV-2 genome sequences, however, thousands of genomic variants of SARS-CoV-2 are now publicly available. To improve the tracing of the viral genomes’ evolution during the development of the pandemic, we analyzed single nucleotide variants (SNVs) in 121,618 high-quality SARS-CoV-2 genomes. We divided these viral genomes into two major lineages (L and S) based on variants at sites 8782 and 28144, and further divided the L lineage into two major sublineages (L1 and L2) using SNVs at sites 3037, 14408, and 23403. Subsequently, we categorized them into 130 sublineages (37 in S, 35 in L1, and 58 in L2) based on marker SNVs at 201 additional genomic sites. This lineage/sublineage designation system has a hierarchical structure and reflects the relatedness among the subclades of the major lineages. We also provide a companion website (www.covid19evolution.net) that allows users to visualize sublineage information and upload their own SARS-CoV-2 genomes for sublineage classification. Finally, we discussed the possible roles of compensatory mutations and natural selection during SARS-CoV-2’s evolution. These efforts will improve our understanding of the temporal and spatial dynamics of SARS-CoV-2’s genome evolution. © 2021 Science China Press
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资源类型: 期刊论文
标识符: http://119.78.100.158/handle/2HF3EXSE/170404
Appears in Collections:气候变化与战略

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作者单位: State Key Laboratory of Protein and Plant Gene Research, Center for Bioinformatics, School of Life Sciences, Peking University, Beijing, 100871, China; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, 650223, China; Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, China; Yuxi Rongjian Information Technology Co., Ltd., Yuxi, 653100, China; State Key Laboratory of Microbial Resources (SKLMR), The Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China; The Microresource and Big Data Center, The Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China; Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, China; Beijing Center for Disease Prevention and Control (CDC) & Research Centre for Preventive Medicine of Beijing, Beijing, 100013, China; NHC Key Laboratory of Systems Biology of Pathogens and Christophe Mérieux Laboratory, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, 100730, China; Key Laboratory of Respiratory Disease Pathogenomics, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100730, China; Key Laboratory of Synthetic Biology, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, 200032, China; NHC Key Laboratory of Biosafety, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, 102206, China

Recommended Citation:
Tang X.,Ying R.,Yao X.,et al. Evolutionary analysis and lineage designation of SARS-CoV-2 genomes[J]. Science Bulletin,2021-01-01
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