About: Characterization of Synonymous Codon Usage in the Newly Identified Duck Plague Virus UL16 Gene

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About: Characterization of Synonymous Codon Usage in the Newly Identified Duck Plague Virus UL16 Gene Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Characterization of Synonymous Codon Usage in the Newly Identified Duck Plague Virus UL16 Gene
Creator	Cheng, Anchun Wang, Mingshu Jia, Renyong Chen, Xiaoyue Zhu, Dekang Chen, Zhengli Luo, Qihui Zhou, Yi He, Qin
Source	PMC
abstract	A comparative analysis of the codon usage bias in the newly identified UL16 gene(GenBank accession no.EU195095) of DPV and the UL16 gene of 22 reference herpesviruses was performed. In this study, the synonymous codon usage bias of UL16 gene in the 23 herpesviruses have been analyzed and the results showed obvious differences by the CAI, RSCU, ENC and GC(3s). The results revealed that the synonymous codons with A and T at the third codon positon have widely usage in the codon of UL16 gene of DPV. The ENC-GC(3s) plot revealed that the genetic heterogeneity in UL16 gene of herpesviruses was constrained by G+C content at the third codon position. The phylogenetic analysis suggested that DPV was evolutionarily closer to herpesviruses which further clustered into Alphaherpesvirinae. Furthermore the ORF of DPV UL16 gene has sequential rare codons. There were 21 codons showing distinct usage differences between DPV with Escherichia coli, 19 codons showing distinct usage differences between DPV with yeast, and 20 between DPV and Human. Therefore the Escherichia coli, Yeast and Human expression system were suitable for the expression of DPV UL16 gene if some codons could be optimized.
has issue date	2012-01-01(xsd:dateTime)
bibo:doi	10.1007/978-3-642-27537-1_89
has license	no-cc
sha1sum (hex)	43d2f160f7b86e355031bf5763f2c96438820718
schema:url	https://doi.org/10.1007/978-3-642-27537-1_89
resource representing a document's title	Characterization of Synonymous Codon Usage in the Newly Identified Duck Plague Virus UL16 Gene
has PubMed Central identifier	PMC7122970
schema:publication	Information Technology and Agricultural Engineering
resource representing a document's body	covid:43d2f160f7b86e355031bf5763f2c96438820718#body_text
is schema:about of	named entity 'CAI' named entity 'optimized' named entity 'rare' named entity 'expression system' named entity 'DPV' named entity 'Identified' named entity 'CODON USAGE BIAS' named entity 'ESCHERICHIA COLI' named entity 'COMPARATIVE ANALYSIS' named entity 'POSITION' named entity 'CONTENT' named entity 'STUDY' named entity 'ANALYZED' named entity 'GENE' named entity 'YEAST' named entity 'EXPRESSION' named entity 'HUMAN' named entity 'REFERENCE' named entity 'DPV' named entity 'GENETIC HETEROGENEITY' named entity 'RESULTS' named entity 'PLOT' named entity 'PERFORMED' named entity 'EXPRESSION SYSTEM' named entity 'CAI' named entity 'ACCESSION' named entity 'COULD BE' named entity 'CLUSTERED' named entity 'ORF' named entity 'DISTINCT' named entity 'HAVE' named entity 'CODONS' named entity 'IDENTIFIED' named entity 'CHARACTERIZATION' named entity 'DUCK PLAGUE VIRUS' named entity 'NEWLY' named entity 'CODON USAGE' named entity 'PHYLOGENETIC ANALYSIS' named entity 'CODON' named entity 'ENC' named entity 'GENE' named entity 'NEWLY' named entity 'RARE' named entity 'SYNONYMOUS CODON' named entity 'HERPESVIRUSES' named entity 'REVEALED' named entity 'SEQUENTIAL' named entity 'USAGE' named entity 'SUITABLE' named entity 'IDENTIFIED' named entity 'CONSTRAINED' named entity 'ALPHAHERPESVIRINAE' named entity 'SYNONYMOUS CODON' named entity 'SYNONYMOUS' covid:arg/43d2f160f7b86e355031bf5763f2c96438820718 named entity 'DPV' named entity 'codons' named entity 'Yeast' named entity 'comparative' named entity 'gene' named entity 'Therefore' named entity 'GenBank' named entity 'codon' named entity 'Escherichia coli' named entity 'codons' named entity 'gene' named entity 'G+C' named entity 'codon usage bias' named entity 'codon' named entity 'codons' named entity 'viral replication' named entity 'HHV-1' named entity 'codon usage' named entity 'genome' named entity 'codon'

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