Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae

Detalhes bibliográficos
Autor(a) principal: Yang,Yanhua
Data de Publicação: 2012
Outros Autores: Chen,Keping
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Genetics and Molecular Biology
Texto Completo: http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000300011
Resumo: We surveyed the substitution patterns in the ent-kaurenoic acid oxidase (KAO) gene in 11 species of Oryzeae with an outgroup in the Ehrhartoidaea. The synonymous and non-synonymous substitution rates showed a high positive correlation with each other, but were negatively correlated with codon usage bias and GC content at third codon positions. The substitution rate was heterogenous among lineages. Likelihood-ratio tests showed that the non-synonymous/synonymous rate ratio changed significantly among lineages. Site-specific models provided no evidence for positive selection of particular amino acid sites in any codon of the KAO gene. This finding suggested that the significant rate heterogeneity among some lineages may have been caused by variability in the relaxation of the selective constraint among lineages or by neutral processes.
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spelling Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeaecodon usage biasent-kaurenoic acid oxidase (KAO)positive selectionrate heterogeneitysubstitution rateWe surveyed the substitution patterns in the ent-kaurenoic acid oxidase (KAO) gene in 11 species of Oryzeae with an outgroup in the Ehrhartoidaea. The synonymous and non-synonymous substitution rates showed a high positive correlation with each other, but were negatively correlated with codon usage bias and GC content at third codon positions. The substitution rate was heterogenous among lineages. Likelihood-ratio tests showed that the non-synonymous/synonymous rate ratio changed significantly among lineages. Site-specific models provided no evidence for positive selection of particular amino acid sites in any codon of the KAO gene. This finding suggested that the significant rate heterogeneity among some lineages may have been caused by variability in the relaxation of the selective constraint among lineages or by neutral processes.Sociedade Brasileira de Genética2012-01-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersiontext/htmlhttp://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000300011Genetics and Molecular Biology v.35 n.2 2012reponame:Genetics and Molecular Biologyinstname:Sociedade Brasileira de Genética (SBG)instacron:SBG10.1590/S1415-47572012005000020info:eu-repo/semantics/openAccessYang,YanhuaChen,Kepingeng2012-06-19T00:00:00Zoai:scielo:S1415-47572012000300011Revistahttp://www.gmb.org.br/ONGhttps://old.scielo.br/oai/scielo-oai.php||editor@gmb.org.br1678-46851415-4757opendoar:2012-06-19T00:00Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG)false
dc.title.none.fl_str_mv Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae
title Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae
spellingShingle Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae
Yang,Yanhua
codon usage bias
ent-kaurenoic acid oxidase (KAO)
positive selection
rate heterogeneity
substitution rate
title_short Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae
title_full Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae
title_fullStr Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae
title_full_unstemmed Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae
title_sort Molecular evolution of the ent-kaurenoic acid oxidase gene in Oryzeae
author Yang,Yanhua
author_facet Yang,Yanhua
Chen,Keping
author_role author
author2 Chen,Keping
author2_role author
dc.contributor.author.fl_str_mv Yang,Yanhua
Chen,Keping
dc.subject.por.fl_str_mv codon usage bias
ent-kaurenoic acid oxidase (KAO)
positive selection
rate heterogeneity
substitution rate
topic codon usage bias
ent-kaurenoic acid oxidase (KAO)
positive selection
rate heterogeneity
substitution rate
description We surveyed the substitution patterns in the ent-kaurenoic acid oxidase (KAO) gene in 11 species of Oryzeae with an outgroup in the Ehrhartoidaea. The synonymous and non-synonymous substitution rates showed a high positive correlation with each other, but were negatively correlated with codon usage bias and GC content at third codon positions. The substitution rate was heterogenous among lineages. Likelihood-ratio tests showed that the non-synonymous/synonymous rate ratio changed significantly among lineages. Site-specific models provided no evidence for positive selection of particular amino acid sites in any codon of the KAO gene. This finding suggested that the significant rate heterogeneity among some lineages may have been caused by variability in the relaxation of the selective constraint among lineages or by neutral processes.
publishDate 2012
dc.date.none.fl_str_mv 2012-01-01
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000300011
url http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000300011
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 10.1590/S1415-47572012005000020
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv text/html
dc.publisher.none.fl_str_mv Sociedade Brasileira de Genética
publisher.none.fl_str_mv Sociedade Brasileira de Genética
dc.source.none.fl_str_mv Genetics and Molecular Biology v.35 n.2 2012
reponame:Genetics and Molecular Biology
instname:Sociedade Brasileira de Genética (SBG)
instacron:SBG
instname_str Sociedade Brasileira de Genética (SBG)
instacron_str SBG
institution SBG
reponame_str Genetics and Molecular Biology
collection Genetics and Molecular Biology
repository.name.fl_str_mv Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG)
repository.mail.fl_str_mv ||editor@gmb.org.br
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