tetano
Editor, Senior Moderator
Emerg Microbes Infect
. 2021 Aug 4;1-22.
doi: 10.1080/22221751.2021.1964925. Online ahead of print.
A novel SARS-CoV-2 related coronavirus with complex recombination isolated from bats in Yunnan province, China
Li-Li Li[SUP] 1 2 [/SUP], Jing-Lin Wang[SUP] 3 [/SUP], Xiao-Hua Ma[SUP] 1 4 [/SUP], Xiao-Man Sun[SUP] 1 2 [/SUP], Jin-Song Li[SUP] 1 2 [/SUP], Xiao-Fei Yang[SUP] 5 [/SUP], Wei-Feng Shi[SUP] 6 [/SUP], Zhao-Jun Duan[SUP] 1 2 [/SUP]
Affiliations
Abstract
AbstractAt the end of 2019，A new type of beta-CoV, SARS-CoV-2 emerged and triggered the COVID-19 pandemic, which spread overwhelmingly around the world in less than a year. However, the origin and direct ancestral viruses of SARS-CoV-2 remain unknown. RaTG13, a novel coronavirus found in bats in China's Yunnan Province, is the closest relative virus of the SARS-CoV-2 identified so far. In this study, a new SARS-CoV-2 related virus, provisionally named PrC31, was discovered in Yunnan province by retrospectively analyze bat next generation sequencing (NGS) data of intestinal samples collected in 2018. PrC31 shared 90.7% and 92.0% nucleotide identities to the genomes of SARS-CoV-2 and the bat SARSr-CoV ZC45, respectively. Sequence alignment of PrC31 showed that several genomic regions, especially orf1a and orf8 had the highest homology with those corresponding genomic regions of SARS-CoV-2 than any other related viruses. Phylogenetic analysis indicated that PrC31 shared a common ancestor with SARS-CoV-2 in evolutionary history. The differences between the PrC31 and SARS-CoV-2 genomes were mainly manifested in the spike genes. The amino acid homology between the receptor binding domains of PrC31 and SARS-CoV-2 was only 64.2%. Importantly, recombination analysis revealed that PrC31 underwent multiple complex recombination events (including three recombination breakpoints) involving the SARS-CoV and SARS-CoV-2 sub-lineages, indicating that PrC31 evolved from yet-to-be-identified intermediate recombination strains. Combined with previous studies, it is revealed that the beta-CoVs may possess a more complex recombination mechanism than we thought.
Keywords: Bats; Coronaviruses; Evolution; Recombination; SARS-CoV-2.
. 2021 Aug 4;1-22.
doi: 10.1080/22221751.2021.1964925. Online ahead of print.
A novel SARS-CoV-2 related coronavirus with complex recombination isolated from bats in Yunnan province, China
Li-Li Li[SUP] 1 2 [/SUP], Jing-Lin Wang[SUP] 3 [/SUP], Xiao-Hua Ma[SUP] 1 4 [/SUP], Xiao-Man Sun[SUP] 1 2 [/SUP], Jin-Song Li[SUP] 1 2 [/SUP], Xiao-Fei Yang[SUP] 5 [/SUP], Wei-Feng Shi[SUP] 6 [/SUP], Zhao-Jun Duan[SUP] 1 2 [/SUP]
Affiliations
- PMID: 34348599
- DOI: 10.1080/22221751.2021.1964925
Abstract
AbstractAt the end of 2019，A new type of beta-CoV, SARS-CoV-2 emerged and triggered the COVID-19 pandemic, which spread overwhelmingly around the world in less than a year. However, the origin and direct ancestral viruses of SARS-CoV-2 remain unknown. RaTG13, a novel coronavirus found in bats in China's Yunnan Province, is the closest relative virus of the SARS-CoV-2 identified so far. In this study, a new SARS-CoV-2 related virus, provisionally named PrC31, was discovered in Yunnan province by retrospectively analyze bat next generation sequencing (NGS) data of intestinal samples collected in 2018. PrC31 shared 90.7% and 92.0% nucleotide identities to the genomes of SARS-CoV-2 and the bat SARSr-CoV ZC45, respectively. Sequence alignment of PrC31 showed that several genomic regions, especially orf1a and orf8 had the highest homology with those corresponding genomic regions of SARS-CoV-2 than any other related viruses. Phylogenetic analysis indicated that PrC31 shared a common ancestor with SARS-CoV-2 in evolutionary history. The differences between the PrC31 and SARS-CoV-2 genomes were mainly manifested in the spike genes. The amino acid homology between the receptor binding domains of PrC31 and SARS-CoV-2 was only 64.2%. Importantly, recombination analysis revealed that PrC31 underwent multiple complex recombination events (including three recombination breakpoints) involving the SARS-CoV and SARS-CoV-2 sub-lineages, indicating that PrC31 evolved from yet-to-be-identified intermediate recombination strains. Combined with previous studies, it is revealed that the beta-CoVs may possess a more complex recombination mechanism than we thought.
Keywords: Bats; Coronaviruses; Evolution; Recombination; SARS-CoV-2.