About: Amino acid variation analysis of surface spike glycoprotein at 614 in SARS-CoV-2 strains

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About: Amino acid variation analysis of surface spike glycoprotein at 614 in SARS-CoV-2 strains Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Amino acid variation analysis of surface spike glycoprotein at 614 in SARS-CoV-2 strains
Creator	Wu, Peng Liu, Kui Qin, Yu Ma, Ke Cao, Canhui Ding, Wencheng Gui, Lingli Huang, Liang Sun, Haiyin Tian, Yuan
Source	Elsevier; Medline; PMC
abstract	Abstract As severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) continues to disperse globally with worrisome speed, identifying amino acid variations in the virus could help to understand the characteristics of it. Here, we studied 489 SARS-CoV-2 genomes obtained from 32 countries from the Nextstrain database and performed phylogenetic tree analysis by clade, country, and genotype of the surface spike glycoprotein (S protein) at site 614. We found that virus strains from mainland China were mostly distributed in Clade B and Clade undefined in the phylogenetic tree, with very few found in Clade A. In contrast, Clades A2 (one case) and A2a (112 cases) predominantly contained strains from European regions. Moreover, Clades A2 and A2a differed significantly from those of mainland China in age of infected population (P = 0.0071, mean age 40.24 to 46.66), although such differences did not exist between the US and mainland China. Further analysis demonstrated that the variation of the S protein at site 614 (QHD43416.1: p.614D>G) was a characteristic of stains in Clades A2 and A2a. Importantly, this variation was predicted to have neutral or benign effects on the function of the S protein. In addition, global quality estimates and 3D protein structures tended to be different between the two S proteins. In summary, we identified different genomic epidemiology among SARS-CoV-2 strains in different clades, especially in an amino acid variation of the S protein at 614, revealing potential viral genome divergence in SARS-CoV-2 strains.
has issue date	2020-06-02(xsd:dateTime)
bibo:doi	10.1016/j.gendis.2020.05.006
bibo:pmid	32837981
has license	els-covid
sha1sum (hex)	ef62fd9aa48b9b137e7af32ac5d64af90a37ff49
schema:url	https://doi.org/10.1016/j.gendis.2020.05.006
resource representing a document's title	Amino acid variation analysis of surface spike glycoprotein at 614 in SARS-CoV-2 strains
has PubMed Central identifier	PMC7264919
has PubMed identifier	32837981
schema:publication	Genes Dis
resource representing a document's body	covid:ef62fd9aa48b9b137e7af32ac5d64af90a37ff49#body_text
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