The correlation of evolutionary rate with pathway position in plant terpenoid biosynthesis.
Identifieur interne : 003461 ( Main/Exploration ); précédent : 003460; suivant : 003462The correlation of evolutionary rate with pathway position in plant terpenoid biosynthesis.
Auteurs : Heather Ramsay [Canada] ; Loren H. Rieseberg ; Kermit RitlandSource :
- Molecular biology and evolution [ 1537-1719 ] ; 2009.
Descripteurs français
- KwdFr :
- Codon (génétique), Dosage génique (MeSH), Gènes de plante (MeSH), Phylogenèse (MeSH), Plantes (enzymologie), Plantes (génétique), Plantes (métabolisme), Similitude de séquences d'acides aminés (MeSH), Sélection génétique (MeSH), Terpènes (métabolisme), Voies et réseaux métaboliques (génétique), Évolution moléculaire (MeSH).
- MESH :
- enzymologie : Plantes.
- génétique : Codon, Plantes, Voies et réseaux métaboliques.
- métabolisme : Plantes, Terpènes.
- Dosage génique, Gènes de plante, Phylogenèse, Similitude de séquences d'acides aminés, Sélection génétique, Évolution moléculaire.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : Codon.
- enzymology : Plants.
- genetics : Metabolic Networks and Pathways, Plants.
- metabolism : Plants, Terpenes.
- Evolution, Molecular, Gene Dosage, Genes, Plant, Phylogeny, Selection, Genetic, Sequence Homology, Amino Acid.
Abstract
Genes are expected to face stronger selective constraint and to evolve more slowly if they encode enzymes upstream as opposed to downstream in metabolic pathways, because upstream genes are more pleiotropic, being required for a wider range of end products. However, few clear examples of this trend in evolutionary rate variation exist. We examined whether genes involved in plant terpenoid biosynthesis exhibit such a pattern, using data for 40 genes from five fully sequenced angiosperms, Oryza, Vitis, Arabidopsis, Populus, and Ricinus. Our results show that d(N)/d(S) does in fact correlate with pathway position along pathways converting glucose to the terpenoid phytohormones abscissic acid, gibberellic acid (GA), and brassinosteroids. Upstream versus downstream rate variation is particularly strong in the GA pathway. In contrast, we found no or little apparent variation in d(N)/d(S) with gene copy number. We also introduce a new measure of pathway position, the Pathway Pleiotropy Index (PPI), which counts groups of enzymes between pathway branch points. We found that this measure is superior to pathway position in explaining variation in d(N)/d(S) along each pathway. Although at least 8 of the 40 genes showed evidence of positive selection, correlations of d(N)/d(S) with PPI remain significant when these genes are removed. Therefore, our results are consistent with the prediction that selective constraint is progressively relaxed along metabolic pathways.
DOI: 10.1093/molbev/msp021
PubMed: 19188263
Affiliations:
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Le document en format XML
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Rieseberg</name></author><author><name sortKey="Ritland, Kermit" sort="Ritland, Kermit" uniqKey="Ritland K" first="Kermit" last="Ritland">Kermit Ritland</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2009">2009</date><idno type="RBID">pubmed:19188263</idno><idno type="pmid">19188263</idno><idno type="doi">10.1093/molbev/msp021</idno><idno type="wicri:Area/Main/Corpus">003665</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">003665</idno><idno type="wicri:Area/Main/Curation">003665</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">003665</idno><idno type="wicri:Area/Main/Exploration">003665</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">The correlation of evolutionary rate with pathway position in plant terpenoid biosynthesis.</title><author><name sortKey="Ramsay, Heather" sort="Ramsay, Heather" uniqKey="Ramsay H" first="Heather" last="Ramsay">Heather Ramsay</name><affiliation wicri:level="4"><nlm:affiliation>Faculty of Forestry, Department of Forest Sciences, University of British Columbia, Vancouver, British Columbia, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Faculty of Forestry, Department of Forest Sciences, University of British Columbia, Vancouver, British Columbia</wicri:regionArea><orgName type="university">Université de la Colombie-Britannique</orgName><placeName><settlement type="city">Vancouver</settlement><region type="state">Colombie-Britannique </region></placeName></affiliation></author><author><name sortKey="Rieseberg, Loren H" sort="Rieseberg, Loren H" uniqKey="Rieseberg L" first="Loren H" last="Rieseberg">Loren H. Rieseberg</name></author><author><name sortKey="Ritland, Kermit" sort="Ritland, Kermit" uniqKey="Ritland K" first="Kermit" last="Ritland">Kermit Ritland</name></author></analytic><series><title level="j">Molecular biology and evolution</title><idno type="eISSN">1537-1719</idno><imprint><date when="2009" type="published">2009</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Codon (genetics)</term><term>Evolution, Molecular (MeSH)</term><term>Gene Dosage (MeSH)</term><term>Genes, Plant (MeSH)</term><term>Metabolic Networks and Pathways (genetics)</term><term>Phylogeny (MeSH)</term><term>Plants (enzymology)</term><term>Plants (genetics)</term><term>Plants (metabolism)</term><term>Selection, Genetic (MeSH)</term><term>Sequence Homology, Amino Acid (MeSH)</term><term>Terpenes (metabolism)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Codon (génétique)</term><term>Dosage génique (MeSH)</term><term>Gènes de plante (MeSH)</term><term>Phylogenèse (MeSH)</term><term>Plantes (enzymologie)</term><term>Plantes (génétique)</term><term>Plantes (métabolisme)</term><term>Similitude de séquences d'acides aminés (MeSH)</term><term>Sélection génétique (MeSH)</term><term>Terpènes (métabolisme)</term><term>Voies et réseaux métaboliques (génétique)</term><term>Évolution moléculaire (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Codon</term></keywords><keywords scheme="MESH" qualifier="enzymologie" xml:lang="fr"><term>Plantes</term></keywords><keywords scheme="MESH" qualifier="enzymology" xml:lang="en"><term>Plants</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Metabolic Networks and Pathways</term><term>Plants</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Codon</term><term>Plantes</term><term>Voies et réseaux métaboliques</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Plants</term><term>Terpenes</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Plantes</term><term>Terpènes</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Evolution, Molecular</term><term>Gene Dosage</term><term>Genes, Plant</term><term>Phylogeny</term><term>Selection, Genetic</term><term>Sequence Homology, Amino Acid</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Dosage génique</term><term>Gènes de plante</term><term>Phylogenèse</term><term>Similitude de séquences d'acides aminés</term><term>Sélection génétique</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Genes are expected to face stronger selective constraint and to evolve more slowly if they encode enzymes upstream as opposed to downstream in metabolic pathways, because upstream genes are more pleiotropic, being required for a wider range of end products. However, few clear examples of this trend in evolutionary rate variation exist. We examined whether genes involved in plant terpenoid biosynthesis exhibit such a pattern, using data for 40 genes from five fully sequenced angiosperms, Oryza, Vitis, Arabidopsis, Populus, and Ricinus. Our results show that d(N)/d(S) does in fact correlate with pathway position along pathways converting glucose to the terpenoid phytohormones abscissic acid, gibberellic acid (GA), and brassinosteroids. Upstream versus downstream rate variation is particularly strong in the GA pathway. In contrast, we found no or little apparent variation in d(N)/d(S) with gene copy number. We also introduce a new measure of pathway position, the Pathway Pleiotropy Index (PPI), which counts groups of enzymes between pathway branch points. We found that this measure is superior to pathway position in explaining variation in d(N)/d(S) along each pathway. Although at least 8 of the 40 genes showed evidence of positive selection, correlations of d(N)/d(S) with PPI remain significant when these genes are removed. Therefore, our results are consistent with the prediction that selective constraint is progressively relaxed along metabolic pathways.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">19188263</PMID><DateCompleted><Year>2009</Year><Month>05</Month><Day>27</Day></DateCompleted><DateRevised><Year>2009</Year><Month>11</Month><Day>19</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1537-1719</ISSN><JournalIssue CitedMedium="Internet"><Volume>26</Volume><Issue>5</Issue><PubDate><Year>2009</Year><Month>May</Month></PubDate></JournalIssue><Title>Molecular biology and evolution</Title><ISOAbbreviation>Mol Biol Evol</ISOAbbreviation></Journal><ArticleTitle>The correlation of evolutionary rate with pathway position in plant terpenoid biosynthesis.</ArticleTitle><Pagination><MedlinePgn>1045-53</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1093/molbev/msp021</ELocationID><Abstract><AbstractText>Genes are expected to face stronger selective constraint and to evolve more slowly if they encode enzymes upstream as opposed to downstream in metabolic pathways, because upstream genes are more pleiotropic, being required for a wider range of end products. However, few clear examples of this trend in evolutionary rate variation exist. We examined whether genes involved in plant terpenoid biosynthesis exhibit such a pattern, using data for 40 genes from five fully sequenced angiosperms, Oryza, Vitis, Arabidopsis, Populus, and Ricinus. Our results show that d(N)/d(S) does in fact correlate with pathway position along pathways converting glucose to the terpenoid phytohormones abscissic acid, gibberellic acid (GA), and brassinosteroids. Upstream versus downstream rate variation is particularly strong in the GA pathway. In contrast, we found no or little apparent variation in d(N)/d(S) with gene copy number. We also introduce a new measure of pathway position, the Pathway Pleiotropy Index (PPI), which counts groups of enzymes between pathway branch points. We found that this measure is superior to pathway position in explaining variation in d(N)/d(S) along each pathway. Although at least 8 of the 40 genes showed evidence of positive selection, correlations of d(N)/d(S) with PPI remain significant when these genes are removed. Therefore, our results are consistent with the prediction that selective constraint is progressively relaxed along metabolic pathways.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Ramsay</LastName><ForeName>Heather</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>Faculty of Forestry, Department of Forest Sciences, University of British Columbia, Vancouver, British Columbia, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Rieseberg</LastName><ForeName>Loren H</ForeName><Initials>LH</Initials></Author><Author ValidYN="Y"><LastName>Ritland</LastName><ForeName>Kermit</ForeName><Initials>K</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2009</Year><Month>02</Month><Day>02</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Mol Biol Evol</MedlineTA><NlmUniqueID>8501455</NlmUniqueID><ISSNLinking>0737-4038</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D003062">Codon</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D013729">Terpenes</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D003062" MajorTopicYN="N">Codon</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="Y">Evolution, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018628" MajorTopicYN="N">Gene Dosage</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="N">Genes, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D053858" MajorTopicYN="N">Metabolic Networks and Pathways</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010944" MajorTopicYN="N">Plants</DescriptorName><QualifierName UI="Q000201" MajorTopicYN="N">enzymology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012641" MajorTopicYN="N">Selection, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017386" MajorTopicYN="N">Sequence Homology, Amino Acid</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D013729" MajorTopicYN="N">Terpenes</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2009</Year><Month>2</Month><Day>4</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2009</Year><Month>2</Month><Day>4</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2009</Year><Month>5</Month><Day>28</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">19188263</ArticleId><ArticleId IdType="pii">msp021</ArticleId><ArticleId IdType="doi">10.1093/molbev/msp021</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Canada</li></country><region><li>Colombie-Britannique </li></region><settlement><li>Vancouver</li></settlement><orgName><li>Université de la Colombie-Britannique</li></orgName></list><tree><noCountry><name sortKey="Rieseberg, Loren H" sort="Rieseberg, Loren H" uniqKey="Rieseberg L" first="Loren H" last="Rieseberg">Loren H. Rieseberg</name><name sortKey="Ritland, Kermit" sort="Ritland, Kermit" uniqKey="Ritland K" first="Kermit" last="Ritland">Kermit Ritland</name></noCountry><country name="Canada"><region name="Colombie-Britannique "><name sortKey="Ramsay, Heather" sort="Ramsay, Heather" uniqKey="Ramsay H" first="Heather" last="Ramsay">Heather Ramsay</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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