About: Interpatient mutational spectrum of human coronavirus‐OC43 revealed by illumina sequencing

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About: Interpatient mutational spectrum of human coronavirus‐OC43 revealed by illumina sequencing Goto Sponge NotDistinct Permalink

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

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Interpatient mutational spectrum of human coronavirus‐OC43 revealed by illumina sequencing
Creator	Gorse, Geoffrey Patel, Gira Fan, \|
source	Medline; PMC
abstract	Human coronaviruses (HCoV) are RNA viruses that cause respiratory tract infections with viral replication of limited duration. The host and viral population heterogeneity could influence clinical phenotypes. Employing long RT‐PCR with Illumina sequencing, we quantified the gene mutation load at 0.5% mutation frequency for the 4529 bp‐domain spanning the Spike gene (4086 bp) of HCoV‐OC43 in four upper respiratory clinical specimens obtained during acute illness. There were a total of 121 mutations for all four HCoV samples with the average number of mutations at 30.3 ± 10.2, which is significantly higher than that expected from the Illumina sequencing error rate. There were two mutation peaks, one at the 5′ end and the other near position 1 550 in the S1 subunit. Two coronavirus samples were genotype B and two were genotype D, clustering with HCoV‐OC43 strain AY391777 in neighbor‐joining tree phylogenetic analysis. Nonsynonymous mutations were 76.1 ± 14% of mutation load. Although lower than other RNA viruses such as hepatitis C virus, HCoV‐OC43 did exhibit quasi‐species. The rate of nonsynonymous mutations was higher in the HCoV‐OC43 isolates than in hepatitis C (HCV) virus genotype 1a isolates analyzed for comparison in this study. These characteristics of HCoV‐OC43 may affect viral replication dynamics, receptor binding, antigenicity, evolution, transmission, and clinical illness.
has issue date	2017-03-14(xsd:dateTime)
bibo:doi	10.1002/jmv.24780
bibo:pmid	28191658
has license	no-cc
sha1sum (hex)	dcc160e2b4d3b8b9bc87dc48157b29d818d211da
schema:url	https://doi.org/10.1002/jmv.24780
resource representing a document's title	Interpatient mutational spectrum of human coronavirus‐OC43 revealed by illumina sequencing
has PubMed Central identifier	PMC7166611
has PubMed identifier	28191658
schema:publication	J Med Virol
resource representing a document's body	covid:dcc160e2b4d3b8b9bc87dc48157b29d818d211da#body_text
is schema:about of	named entity 'HCoV-OC43' named entity 'viral replication' named entity 'coronavirus' named entity 'The host' named entity 'phenotypes' named entity 'gene' named entity 'mutations' named entity 'Illumina sequencing' named entity 'neighbor-joining' named entity 'viruses' named entity 'average' named entity 'peaks' named entity 'mutation' named entity 'respiratory tract infections' named entity 'position' named entity 'heterogeneity' named entity 'respiratory tract infections' named entity 'mutation frequency' named entity 'Nonsynonymous' named entity 'HCoV-OC43' named entity 'illumina' named entity 'OC43' named entity 'human coronavirus' named entity 'Illumina sequencing' named entity 'motif' named entity 'host immune responses' named entity 'MERS' named entity '3.5' named entity 'mutation load' named entity 'genotype' named entity 'HCoV-OC43' named entity 'gene' named entity 'ultraviolet light' named entity 'human populations' named entity 'infectivity' named entity 'acute respiratory illnesses' named entity 'tissue tropism' named entity 'mutation load' named entity 'nonsynonymous' named entity 'N-terminal domain' named entity 'disease burden' named entity 'high-risk' named entity 'SARS-CoV' named entity 'genotype' named entity 'HCoV-OC43' named entity 'Middle East respiratory syndrome' named entity 'antiviral treatment' named entity 'acute illness' named entity '5′ end' named entity 'HCoV-OC43' named entity 'genotype' named entity 'low complexity' named entity 'immunosorbent assay' named entity 'clone' named entity 'HCoV-OC43' named entity 'clones' named entity 'phylogenetically' named entity 'clones' named entity '5.2' named entity 'St. Louis' named entity 'HCV' named entity 'influenza season' named entity 'tissue culture' named entity 'genotype' named entity 'signs and symptoms' named entity 'amino acid' named entity 'antigenicity' named entity 'diabetes mellitus' named entity 'Nonsynonymous' named entity 'antigenic protein' named entity 'genotype' named entity 'HCoV-OC43' named entity 'Illumina sequencing' named entity 'host range' named entity 'Flaviviridae' named entity 'HCoV-OC43' named entity 'amino acid' named entity 'membrane fusion' named entity 'amino acids'

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