A novel SARS-CoV-2 related coronavirus with complex recombination isolated from bats in Yunnan province, China

References

• Corman VM, Muth D, Niemeyer D, et al. Hosts and sources of endemic human coronaviruses. Adv Virus Res. 2018;100:163–188.
   PubMed Web of Science ®Google Scholar
• Ye ZW, Yuan S, Yuen KS, et al. Zoonotic origins of human coronaviruses. Int J Biol Sci. 2020;16(10):1686–1697.
   PubMed Web of Science ®Google Scholar
• CDC. Severe Acute Respiratory Syndrome: Available online:https://www.cdc.gov/sars/about/fs-sars.html.
   Google Scholar
• Banerjee A, Kulcsar K, Misra V, et al. Bats and coronaviruses. Viruses. 2019;11(1):41.
   PubMed Web of Science ®Google Scholar
• Cui J, Li F, Shi ZL. Origin and evolution of pathogenic coronaviruses. Nat Rev Microbiol. 2019;17(3):181–192.
   PubMed Web of Science ®Google Scholar
• Woo PC, Lau SK, Huang Y, et al. Coronavirus diversity, phylogeny and interspecies jumping. Exp Biol Med (Maywood). 2009;234(10):1117–1127.
   PubMed Web of Science ®Google Scholar
• Zhou P, Yang XL, Wang XG, et al. A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature. 2020;579(7798):270–273.
   PubMed Web of Science ®Google Scholar
• Zhu N, Zhang D, Wang W, et al. A novel coronavirus from patients with pneumonia in China, 2019. N Engl J Med. 2020;382(8):727–733.
   PubMed Web of Science ®Google Scholar
• Wu F, Zhao S, Yu B, et al. A new coronavirus associated with human respiratory disease in China. Nature. 2020;579(7798):265–269.
   PubMed Web of Science ®Google Scholar
• Hu B, Guo H, Zhou P, et al. Characteristics of SARS-CoV-2 and COVID-19. Nat Rev Microbiol. 2021;19(3):141–154.
   PubMed Web of Science ®Google Scholar
• Lau SK, Woo PC, Li KS, et al. Severe acute respiratory syndrome coronavirus-like virus in Chinese horseshoe bats. Proc Natl Acad Sci U S A. 2005;102:14040–14045.
   PubMed Web of Science ®Google Scholar
• Lau SKP, Luk HKH, Wong ACP, et al. Possible bat origin of severe acute respiratory syndrome coronavirus 2. Emerg Infect Dis. 2020;26(7):1542–1547.
   PubMed Web of Science ®Google Scholar
• Menachery VD, Yount BL, Jr., Debbink K, et al. A SARS-like cluster of circulating bat coronaviruses shows potential for human emergence. Nat Med. 2015;21(12):1508–1513.
   PubMed Web of Science ®Google Scholar
• Hu D, Zhu C, Ai L, et al. Genomic characterization and infectivity of a novel SARS-like coronavirus in Chinese bats. Emerg Microbes Infect. 2018;7(1):154.
   PubMed Web of Science ®Google Scholar
• Li W, Shi Z, Yu M, et al. Bats are natural reservoirs of SARS-like coronaviruses. Science. 2005;310(5748):4.
   Web of Science ®Google Scholar
• Hu B, Zeng LP, Yang XL, et al. Discovery of a rich gene pool of bat SARS-related coronaviruses provides new insights into the origin of SARS coronavirus. PLoS Pathog. 2017;13(11):e1006698.
   PubMed Web of Science ®Google Scholar
• Hul V, Delaune D, Karlsson EA, et al. A novel SARS-CoV-2 related coronavirus in bats from Cambodia. bioRxiv 2021.
   Google Scholar
• Zhou H, Chen X, Hu T, et al. A novel bat coronavirus closely related to SARS-CoV-2 contains natural insertions at the S1/S2 cleavage site of the spike protein. Curr Biol. 2020;30(11):2196–2203e3.
   PubMed Web of Science ®Google Scholar
• Xiao K, Zhai J, Feng Y, et al. Isolation of SARS-CoV-2-related coronavirus from Malayan pangolins. Nature. 2020;583(7815):286–289.
   PubMed Web of Science ®Google Scholar
• Lam TT, Jia N, Zhang YW, et al. Identifying SARS-CoV-2-related coronaviruses in Malayan pangolins. Nature. 2020;583(7815):282–285.
   PubMed Web of Science ®Google Scholar
• Murakami S, Kitamura T, Suzuki J, et al. Detection and characterization of bat sarbecovirus phylogenetically related to SARS-CoV-2, Japan. Emerg Infect Dis. 2020;26(12):3025–3029.
   PubMed Web of Science ®Google Scholar
• Wacharapluesadee S, Tan CW, Maneeorn P, et al. Evidence for SARS-CoV-2 related coronaviruses circulating in bats and pangolins in Southeast Asia. Nat Commun. 2021;12(1):972.
   PubMed Web of Science ®Google Scholar
• Banerjee A, Doxey AC, Mossman K, et al. Unraveling the zoonotic origin and transmission of SARS-CoV-2. Trends Ecol Evol. 2021;36(3):180–184.
   PubMed Web of Science ®Google Scholar
• Irwin DM, Kocher TD, Wilson AC. Evolution of the cytochrome b gene of mammals. J Mol Evol. 1991;32(2):128–144.
   PubMed Web of Science ®Google Scholar
• Schmieder R, Edwards R. Quality control and preprocessing of metagenomic datasets. Bioinformatics. 2011;27(6):863–864.
   PubMed Web of Science ®Google Scholar
• Langmead B, Salzberg SL. Fast gapped-read alignment with Bowtie 2. Nat Methods. 2012;9:357–359.
   PubMed Web of Science ®Google Scholar
• Chevreux B, Wetter T, Suhai S. Genome sequence assembly using trace signals and additional sequence information. Comput Sci Biol: Proc German Conf Bioinf. 1999;99:45–56.
   Google Scholar
• Letunic I, Bork P. Interactive Tree of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation. Nucleic Acids Res. 2021;49:W293–W296.
   PubMed Web of Science ®Google Scholar
• Andersen KG, Rambaut A, Lipkin WI, et al. The proximal origin of SARS-CoV-2. Nat Med. 2020;26(4):450–452.
   PubMed Web of Science ®Google Scholar
• Lytras S, Hughes J, Xia W, et al. Exploring the natural origins of SARS-CoV-2. bioRxiv. 2021;01(22):427830.
   Google Scholar
• Zhang T, Wu Q, Zhang Z. Probable pangolin origin of SARS-CoV-2 associated with the COVID-19 outbreak. Curr Biol. 2020;30(7):1346–1351.e2.
   PubMed Web of Science ®Google Scholar
• Zhang YZ, Holmes EC. A genomic perspective on the origin and emergence of SARS-CoV-2. Cell. 2020;181(2):223–227.
   PubMed Web of Science ®Google Scholar