About: Mutation pressure shapes codon usage in the GC-Rich genome of foot-and-mouth disease virus

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About: Mutation pressure shapes codon usage in the GC-Rich genome of foot-and-mouth disease virus 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	Mutation pressure shapes codon usage in the GC-Rich genome of foot-and-mouth disease virus
Creator	Zhao, Sheng Ae, Li Ae, Liu Shenggang, A Yanmin, A Zhang, Zhidong Zhong, Jincheng
source	Medline; PMC
abstract	Foot-and-mouth disease (FMD) is economically the most important viral-induced livestock disease worldwide. In this study, we report the results of a survey of codon usage bias of FMD virus (FMDV) representing all seven serotypes (A, O, C, Asia 1, SAT 1, SAT 2, and SAT 3). Correspondence analysis, a commonly used multivariate statistical approach, was carried out to analyze synonymous codon usage bias. The analysis showed that the overall extent of codon usage bias in FMDV is low. Furthermore, the good correlation between the frequency of G + C at the synonymous third position of sense codons (GC(3S)) content at silent sites of each sequence and codon usage bias suggested that mutation pressure rather than natural (translational) selection is the most important determinant of the codon bias observed. In addition, other factors, such as the lengths of open reading frame (ORF) and the hydrophobicity of genes also influence the codon usage variation among the genomes of FMDV in a minor way. The result of phylogenetic analyses based on the relative synonymous codon usage (RSCU) values indicated a few obvious phylogenetic incongruities, which suggest that more FMDV genome diversity may exist in nature than is currently indicated. Our work might give some clues to the features of FMDV genome and some evolutionary information of this virus.
has issue date	2007-09-01(xsd:dateTime)
bibo:doi	10.1007/s11262-007-0159-z
bibo:pmid	17768673
has license	no-cc
sha1sum (hex)	b52f3b7a525263af4c27e61d2cf4e2d4d8e5ba6f
schema:url	https://doi.org/10.1007/s11262-007-0159-z
resource representing a document's title	Mutation pressure shapes codon usage in the GC-Rich genome of foot-and-mouth disease virus
has PubMed Central identifier	PMC7089325
has PubMed identifier	17768673
schema:publication	Virus Genes
resource representing a document's body	covid:b52f3b7a525263af4c27e61d2cf4e2d4d8e5ba6f#body_text
is schema:about of	named entity 'survey' named entity 'FMD' named entity 'sequence' named entity 'obvious' named entity 'based' named entity 'virus' named entity 'FMDV' named entity 'LIVESTOCK' named entity 'SAT 3' named entity 'WORLDWIDE' named entity 'SEVEN' named entity 'VIRUS' named entity 'IMPORTANT' named entity 'APPROACH' named entity 'CODONS' named entity 'EXTENT OF' named entity 'CORRELATION' named entity 'LENGTHS' named entity 'RATHER' named entity 'SELECTION' named entity 'INFORMATION' named entity 'OF EACH' named entity 'DISEASE' covid:arg/b52f3b7a525263af4c27e61d2cf4e2d4d8e5ba6f named entity 'FOOT-AND-MOUTH DISEASE VIRUS' named entity 'CODON BIAS' named entity 'PRESSURE' named entity 'CODON USAGE BIAS' named entity 'CODON USAGE' named entity 'POSITION' named entity 'SENSE' named entity 'STUDY' named entity 'ASIA 1' named entity 'OVERALL' named entity 'VARIATION' named entity 'CURRENTLY' named entity 'GENOME' named entity 'PRESSURE' named entity 'RICH' named entity 'SHAPES' named entity 'REPORT' named entity 'VALUES' named entity 'VIRAL-' named entity 'SURVEY' named entity 'SUGGEST' named entity 'GENES' named entity 'MUTATION' named entity 'CODON USAGE' named entity 'SAT 1' named entity 'SEROTYPES' named entity 'FOOT-AND-MOUTH DISEASE' named entity 'SYNONYMOUS' named entity 'CARRIED' named entity 'SYNONYMOUS CODON' named entity 'NATURAL' named entity 'FEATURES' named entity 'OPEN READING FRAME' named entity 'SAT 2' named entity '28A' named entity 'A MINOR' named entity 'GENOME' named entity 'DIVERSITY' named entity 'USED' named entity 'NATURE' named entity 'BASED' named entity 'SITES' named entity 'FMD' named entity 'GENOMES' named entity 'WAY' named entity 'CORRESPONDENCE' named entity 'MUTATION' named entity 'CONTENT' named entity 'HYDROPHOBICITY' named entity 'SILENT' named entity 'INDUCED'

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