Your browser doesn't support javascript.
Genome-wide data inferring the evolution and population demography of the novel pneumonia coronavirus (SARS-CoV-2)
Bing Fang; Linlin Liu; Xiao Yu; Xiang Li; Guojun Ye; Juan Xu; Ling Zhang; Faxian Zhan; Guiming Liu; Tao Pan; Yilin Shu; Yongzhong Jiang.
  • Bing Fang; Influenza Reference Laboratory, Institute of Health Inspection and Testing, Hubei Provincial Center for Disease Control and Prevention
  • Linlin Liu; Influenza Reference Laboratory, Institute of Health Inspection and Testing, Hubei Provincial Center for Disease Control and Prevention
  • Xiao Yu; Influenza Reference Laboratory, Institute of Health Inspection and Testing, Hubei Provincial Center for Disease Control and Prevention
  • Xiang Li; Influenza Reference Laboratory, Institute of Health Inspection and Testing, Hubei Provincial Center for Disease Control and Prevention
  • Guojun Ye; Influenza Reference Laboratory, Institute of Health Inspection and Testing, Hubei Provincial Center for Disease Control and Prevention
  • Juan Xu; Hubei Province Key Laboratory of Occupational Hazard Identification and Control, School of Public Health, Wuhan University of Science and Technology
  • Ling Zhang; Hubei Province Key Laboratory of Occupational Hazard Identification and Control, School of Public Health, Wuhan University of Science and Technology
  • Faxian Zhan; Influenza Reference Laboratory, Institute of Health Inspection and Testing, Hubei Provincial Center for Disease Control and Prevention
  • Guiming Liu; Beijing Agro-Biotechnology Research Center, Beijing Academy of Agriculture and Forestry Sciences
  • Tao Pan; Anhui Province Key Laboratory for Conservation and Exploitation of Biological Resource, College of Life Sciences, Anhui Normal University
  • Yilin Shu; Anhui Province Key Laboratory for Conservation and Exploitation of Biological Resource, College of Life Sciences, Anhui Normal University
  • Yongzhong Jiang; Influenza Reference Laboratory, Institute of Health Inspection and Testing, Hubei Provincial Center for Disease Control and Prevention
Preprint in English | bioRxiv | ID: ppbiorxiv-976662
ABSTRACT
As the highly risk and infectious diseases, the outbreak of coronavirus disease 2019 (COVID-19) poses unprecedent challenges to global health. Up to March 3, 2020, SARS-CoV-2 has infected more than 89,000 people in China and other 66 countries across six continents. In this study, we used 10 new sequenced genomes of SARS-CoV-2 and combined 136 genomes from GISAID database to investigate the genetic variation and population demography through different analysis approaches (e.g. Network, EBSP, Mismatch, and neutrality tests). The results showed that 80 haplotypes had 183 substitution sites, including 27 parsimony-informative and 156 singletons. Sliding window analyses of genetic diversity suggested a certain mutations abundance in the genomes of SARS-CoV-2, which may be explaining the existing widespread. Phylogenetic analysis showed that, compared with the coronavirus carried by pangolins (Pangolin-CoV), the virus carried by bats (bat-RaTG13-CoV) has a closer relationship with SARS-CoV-2. The network results showed that SARS-CoV-2 had diverse haplotypes around the world by February 11. Additionally, 16 genomes, collected from Huanan seafood market assigned to 10 haplotypes, indicated a circulating infection within the market in a short term. The EBSP results showed that the first estimated expansion date of SARS-CoV-2 began from 7 December 2019.
Full text: Available Collection: Preprints Database: bioRxiv Language: English Year: 2020 Document Type: Preprint

Similar

MEDLINE

...
LILACS

LIS

Full text: Available Collection: Preprints Database: bioRxiv Language: English Year: 2020 Document Type: Preprint