Gene Presence/Absence Variation analysis of coronavirus family displays its pan-genomic diversity.
Int J Biol Sci
; 17(14): 3717-3727, 2021.
Article
in English
| MEDLINE | ID: covidwho-1417291
ABSTRACT
SARS-CoV-2 belongs to the coronavirus family. Comparing genomic features of viral genomes of coronavirus family can improve our understanding about SARS-CoV-2. Here we present the first pan-genome analysis of 3,932 whole genomes of 101 species out of 4 genera from the coronavirus family. We found that a total of 181 genes in the pan-genome of coronavirus family, among which only 3 genes, the S gene, M gene and N gene, are highly conserved. We also constructed a pan-genome from 23,539 whole genomes of SARS-CoV-2. There are 13 genes in total in the SARS-CoV-2 pan-genome. All of the 13 genes are core genes for SARS-CoV-2. The pan-genome of coronaviruses shows a lower level of diversity than the pan-genomes of other RNA viruses, which contain no core gene. The three highly conserved genes in coronavirus family, which are also core genes in SARS-CoV-2 pan-genome, could be potential targets in developing nucleic acid diagnostic reagents with a decreased possibility of cross-reaction with other coronavirus species.
Keywords
Full text:
Available
Collection:
International databases
Database:
MEDLINE
Main subject:
Phylogeny
/
Genome, Viral
/
Coronaviridae
Type of study:
Randomized controlled trials
Language:
English
Journal:
Int J Biol Sci
Journal subject:
Biology
Year:
2021
Document Type:
Article
Affiliation country:
Ijbs.58220
Similar
MEDLINE
...
LILACS
LIS