File Download
  Links for fulltext
     (May Require Subscription)
Supplementary

Article: The rate heterogeneity of nonsynonymous substitutions in mammalian mitochondrial genes

TitleThe rate heterogeneity of nonsynonymous substitutions in mammalian mitochondrial genes
Authors
KeywordsNonsynonymous substitution
Codon
Mitochondrial gene
Rate heterogeneity
Mammal
Issue Date1998
PublisherOxford University Press. The Journal's web site is located at http://mbe.oxfordjournals.org/
Citation
Molecular Biology and Evolution, 1998, v. 15 n. 3, p. 336-344 How to Cite?
AbstractSubstitution rates at the three codon positions (r1, r2, and r3) of mammalian mitochondrial genes are in the order of r3 > r1 > r2, and the rate heterogeneity at the three positions, as measured by the shape parameter of the gamma distribution (alpha 1, alpha 2, and alpha 3), is in the order of alpha 3 > alpha 1 > alpha 2. The causes for the rate heterogeneity at the three codon positions remain unclear and, in particular, there has been no satisfactory explanation for the observation of alpha 1 > alpha 2. I attempted to dissect the causes of rate heterogeneity by studying the pattern of nonsynonymous substitutions with respect to codon positions in 10 mitochondrial genes from 19 mammalian species. Nonsynonymous substitutions involve more different amino acid replacements at the second than at the first codon position, which results in r1 > r2. The difference between r1 and r2 increases with the intensity of purifying selection, and so does the rate heterogeneity in nonsynonymous substitutions among sites at the same codon position. All mitochondrial genes appear to have functionally important and unimportant codons, with the latter having all three codon positions prone to nonsynonymous substitutions. Within the functionally important codons, the second codon position is much more conservative than the codon position. This explains why alpha 1 > alpha 2. The result suggests that overweighting of the second codon position in phylogenetic analysis may be a misguided practice.
Persistent Identifierhttp://hdl.handle.net/10722/49030
ISSN
2015 Impact Factor: 13.649
2015 SCImago Journal Rankings: 8.168
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorXia, Xen_HK
dc.date.accessioned2008-06-12T06:32:42Z-
dc.date.available2008-06-12T06:32:42Z-
dc.date.issued1998en_HK
dc.identifier.citationMolecular Biology and Evolution, 1998, v. 15 n. 3, p. 336-344en_HK
dc.identifier.issn0737-4038en_HK
dc.identifier.urihttp://hdl.handle.net/10722/49030-
dc.description.abstractSubstitution rates at the three codon positions (r1, r2, and r3) of mammalian mitochondrial genes are in the order of r3 > r1 > r2, and the rate heterogeneity at the three positions, as measured by the shape parameter of the gamma distribution (alpha 1, alpha 2, and alpha 3), is in the order of alpha 3 > alpha 1 > alpha 2. The causes for the rate heterogeneity at the three codon positions remain unclear and, in particular, there has been no satisfactory explanation for the observation of alpha 1 > alpha 2. I attempted to dissect the causes of rate heterogeneity by studying the pattern of nonsynonymous substitutions with respect to codon positions in 10 mitochondrial genes from 19 mammalian species. Nonsynonymous substitutions involve more different amino acid replacements at the second than at the first codon position, which results in r1 > r2. The difference between r1 and r2 increases with the intensity of purifying selection, and so does the rate heterogeneity in nonsynonymous substitutions among sites at the same codon position. All mitochondrial genes appear to have functionally important and unimportant codons, with the latter having all three codon positions prone to nonsynonymous substitutions. Within the functionally important codons, the second codon position is much more conservative than the codon position. This explains why alpha 1 > alpha 2. The result suggests that overweighting of the second codon position in phylogenetic analysis may be a misguided practice.en_HK
dc.format.extent418 bytes-
dc.format.mimetypetext/html-
dc.languageengen_HK
dc.publisherOxford University Press. The Journal's web site is located at http://mbe.oxfordjournals.org/en_HK
dc.rightsCreative Commons: Attribution 3.0 Hong Kong License-
dc.subjectNonsynonymous substitutionen_HK
dc.subjectCodonen_HK
dc.subjectMitochondrial geneen_HK
dc.subjectRate heterogeneityen_HK
dc.subjectMammalen_HK
dc.titleThe rate heterogeneity of nonsynonymous substitutions in mammalian mitochondrial genesen_HK
dc.typeArticleen_HK
dc.identifier.openurlhttp://library.hku.hk:4550/resserv?sid=HKU:IR&issn=0737-4038&volume=15&issue=3&spage=336&epage=344&date=1998&atitle=The+rate+heterogeneity+of+nonsynonymous+substitutions+in+mammalian+mitochondrial+genesen_HK
dc.identifier.emailXia, X: xxia@hkusua.hku.hken_HK
dc.description.naturepublished_or_final_versionen_HK
dc.identifier.pmid9501500-
dc.identifier.scopuseid_2-s2.0-0031916709-
dc.identifier.hkuros32225-
dc.identifier.isiWOS:000072361600011-

Export via OAI-PMH Interface in XML Formats


OR


Export to Other Non-XML Formats