About: Analysis of synonymous codon usage patterns in sixty-four different bivalve species

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Analysis of synonymous codon usage patterns in sixty-four different bivalve species
Creator	De Moro, Gianluca Gerdol, Marco Pallavicini, Alberto Venier, Paola
source	Medline; PMC
abstract	Synonymous codon usage bias (CUB) is a defined as the non-random usage of codons encoding the same amino acid across different genomes. This phenomenon is common to all organisms and the real weight of the many factors involved in its shaping still remains to be fully determined. So far, relatively little attention has been put in the analysis of CUB in bivalve mollusks due to the limited genomic data available. Taking advantage of the massive sequence data generated from next generation sequencing projects, we explored codon preferences in 64 different species pertaining to the six major evolutionary lineages in Bivalvia. We detected remarkable differences across species, which are only partially dependent on phylogeny. While the intensity of CUB is mild in most organisms, a heterogeneous group of species (including Arcida and Mytilida, among the others) display higher bias and a strong preference for AT-ending codons. We show that the relative strength and direction of mutational bias, selection for translational efficiency and for translational accuracy contribute to the establishment of synonymous codon usage in bivalves. Although many aspects underlying bivalve CUB still remain obscure, we provide for the first time an overview of this phenomenon in this large, commercially and environmentally important, class of marine invertebrates.
has issue date	2015-12-14(xsd:dateTime)
bibo:doi	10.7717/peerj.1520
bibo:pmid	26713259
has license	cc-by
sha1sum (hex)	b2d2050a4b62e13a5c78e23190f61a7895ca33e2
schema:url	https://doi.org/10.7717/peerj.1520
resource representing a document's title	Analysis of synonymous codon usage patterns in sixty-four different bivalve species
has PubMed Central identifier	PMC4690358
has PubMed identifier	26713259
schema:publication	PeerJ
resource representing a document's body	covid:b2d2050a4b62e13a5c78e23190f61a7895ca33e2#body_text
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