气候变化领域集成服务门户(CCPortal): Evolutionary analysis and lineage designation of SARS-CoV-2 genomes

CCPortal

DOI	10.1016/j.scib.2021.02.012
	Evolutionary analysis and lineage designation of SARS-CoV-2 genomes
	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.
发表日期	2021
ISSN	20959273
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
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
语种	英语
来源期刊	Science Bulletin
文献类型	期刊论文
条目标识符	http://gcip.llas.ac.cn/handle/2XKMVOVA/207570
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 Medic...
推荐引用方式 GB/T 7714	Tang X.,Ying R.,Yao X.,et al. Evolutionary analysis and lineage designation of SARS-CoV-2 genomes[J],2021.
APA	Tang X..,Ying R..,Yao X..,Li G..,Wu C..,...&Lu J..(2021).Evolutionary analysis and lineage designation of SARS-CoV-2 genomes.Science Bulletin.
MLA	Tang X.,et al."Evolutionary analysis and lineage designation of SARS-CoV-2 genomes".Science Bulletin (2021).