Host- and species-dependent quasispecies divergence of severe acute respiratory syndrome Coronavirus-2 in non-human primate models

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Title
Host- and species-dependent quasispecies divergence of severe acute respiratory syndrome Coronavirus-2 in non-human primate models
Author(s)
Eun Ha Hwang; HoyIn Chung; Green Kim; Hanseul OhYou Jung AnPhilyong KangChoong-Min Ryu; J H Park; Jung Joo HongBon-Sang Koo
Bibliographic Citation
Frontiers in Microbiology, vol. 12, pp. 694897-694897
Publication Year
2021
Abstract
Recently, newly emerging variants of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) have been continuously reported worldwide. However, the precise evaluation of SARS-CoV-2 microevolution in host is very limited because the exact genetic information of infected virus could not be acquired in human researches. In this report, we performed deep sequencing for seed virus and SARS-CoV-2 isolated in eight cynomolgus and rhesus macaques at 3 days postinoculation and evaluated single-nucleotide polymorphisms (SNPs) in SARS-CoV-2 by variant analysis. A total of 69 single-nucleotide variants (SNVs) were present in the 5′-untranslated region (UTR), 3′-UTR, ORF1ab, S, ORF3a, ORF8, and N genes of the seed virus passaged in VERO cells. Between those present on the seed virus and those on each SARS-CoV-2 isolated from the lungs of the macaques, a total of 29 variants was identified in 4 coding proteins (ORF1ab, S, ORF3a, and N) and non-coding regions (5′- and 3′-UTR). Variant number was significantly different according to individuals and ranged from 2 to 11. Moreover, the average major frequency variation was identified in six sites between the cynomolgus monkeys and rhesus macaques. As with diverse SNPs in SARS-CoV-2, the values of viral titers in lungs were significantly different according to individuals and species. Our study first revealed that the genomes of SARS-CoV-2 differ according to individuals and species despite infection of the identical virus in non-human primates (NHPs). These results are important for the interpretation of longitudinal studies evaluating the evolution of the SARS-CoV-2 in human beings and development of new diagnostics, vaccine, and therapeutics targeting SARS-CoV-2.
Keyword
SARS-CoV-2Non-human primateSingle nucleotide variantGenetic variantsSingle nucleotide polymorphism
ISSN
1664-302x
Publisher
Frontiers Media Sa
DOI
http://dx.doi.org/10.3389/fmicb.2021.694897
Type
Article
Appears in Collections:
Ochang Branch Institute > Division of Bioinfrastructure > National Primate Research Center > 1. Journal Articles
Ochang Branch Institute > Division of Bioinfrastructure > Futuristic Animal Resource & Research Center > 1. Journal Articles
Division of Research on National Challenges > Infectious Disease Research Center > 1. Journal Articles
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