Computational identification of genes modulating stem height-diameter allometry.
Identifieur interne : 001952 ( Main/Exploration ); précédent : 001951; suivant : 001953Computational identification of genes modulating stem height-diameter allometry.
Auteurs : Libo Jiang [République populaire de Chine] ; Meixia Ye [République populaire de Chine] ; Sheng Zhu [République populaire de Chine] ; Yi Zhai [République populaire de Chine] ; Meng Xu [République populaire de Chine] ; Minren Huang [République populaire de Chine] ; Rongling Wu [République populaire de Chine, États-Unis]Source :
- Plant biotechnology journal [ 1467-7652 ] ; 2016.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Locus de caractère quantitatif.
- Génotype, Modèles théoriques, Phénotype.
English descriptors
- KwdEn :
- MESH :
- genetics : Quantitative Trait Loci.
- Genotype, Models, Theoretical, Phenotype.
Abstract
The developmental variation in stem height with respect to stem diameter is related to a broad range of ecological and evolutionary phenomena in trees, but the underlying genetic basis of this variation remains elusive. We implement a dynamic statistical model, functional mapping, to formulate a general procedure for the computational identification of quantitative trait loci (QTLs) that control stem height-diameter allometry during development. Functional mapping integrates the biological principles underlying trait formation and development into the association analysis of DNA genotype and endpoint phenotype, thus providing an incentive for understanding the mechanistic interplay between genes and development. Built on the basic tenet of functional mapping, we explore two core ecological scenarios of how stem height and stem diameter covary in response to environmental stimuli: (i) trees pioneer sunlit space by allocating more growth to stem height than diameter and (ii) trees maintain their competitive advantage through an inverse pattern. The model is equipped to characterize 'pioneering' QTLs (piQTLs) and 'maintaining' QTLs (miQTLs) which modulate these two ecological scenarios, respectively. In a practical application to a mapping population of full-sib hybrids derived from two Populus species, the model has well proven its versatility by identifying several piQTLs that promote height growth at a cost of diameter growth and several miQTLs that benefit radial growth at a cost of height growth. Judicious application of functional mapping may lead to improved strategies for studying the genetic control of the formation mechanisms underlying trade-offs among quantities of assimilates allocated to different growth parts.
DOI: 10.1111/pbi.12579
PubMed: 27155207
PubMed Central: PMC5103235
Affiliations:
- République populaire de Chine, États-Unis
- Pennsylvanie
- Pékin, University Park (Pennsylvanie)
- Université d'État de Pennsylvanie
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Xu</name><affiliation wicri:level="1"><nlm:affiliation>Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing</wicri:regionArea><wicri:noRegion>Nanjing</wicri:noRegion></affiliation></author><author><name sortKey="Huang, Minren" sort="Huang, Minren" uniqKey="Huang M" first="Minren" last="Huang">Minren Huang</name><affiliation wicri:level="1"><nlm:affiliation>Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing</wicri:regionArea><wicri:noRegion>Nanjing</wicri:noRegion></affiliation></author><author><name sortKey="Wu, Rongling" sort="Wu, Rongling" uniqKey="Wu R" first="Rongling" last="Wu">Rongling Wu</name><affiliation wicri:level="3"><nlm:affiliation>Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="4"><nlm:affiliation>Center for Statistical Genetics, The Pennsylvania State University, Hershey, PA, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Statistical Genetics, The Pennsylvania State University, Hershey, 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scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Locus de caractère quantitatif</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Genotype</term><term>Models, Theoretical</term><term>Phenotype</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Génotype</term><term>Modèles théoriques</term><term>Phénotype</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The developmental variation in stem height with respect to stem diameter is related to a broad range of ecological and evolutionary phenomena in trees, but the underlying genetic basis of this variation remains elusive. We implement a dynamic statistical model, functional mapping, to formulate a general procedure for the computational identification of quantitative trait loci (QTLs) that control stem height-diameter allometry during development. Functional mapping integrates the biological principles underlying trait formation and development into the association analysis of DNA genotype and endpoint phenotype, thus providing an incentive for understanding the mechanistic interplay between genes and development. Built on the basic tenet of functional mapping, we explore two core ecological scenarios of how stem height and stem diameter covary in response to environmental stimuli: (i) trees pioneer sunlit space by allocating more growth to stem height than diameter and (ii) trees maintain their competitive advantage through an inverse pattern. The model is equipped to characterize 'pioneering' QTLs (piQTLs) and 'maintaining' QTLs (miQTLs) which modulate these two ecological scenarios, respectively. In a practical application to a mapping population of full-sib hybrids derived from two Populus species, the model has well proven its versatility by identifying several piQTLs that promote height growth at a cost of diameter growth and several miQTLs that benefit radial growth at a cost of height growth. Judicious application of functional mapping may lead to improved strategies for studying the genetic control of the formation mechanisms underlying trade-offs among quantities of assimilates allocated to different growth parts.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">27155207</PMID><DateCompleted><Year>2017</Year><Month>09</Month><Day>01</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1467-7652</ISSN><JournalIssue CitedMedium="Internet"><Volume>14</Volume><Issue>12</Issue><PubDate><Year>2016</Year><Month>12</Month></PubDate></JournalIssue><Title>Plant biotechnology journal</Title><ISOAbbreviation>Plant Biotechnol J</ISOAbbreviation></Journal><ArticleTitle>Computational identification of genes modulating stem height-diameter allometry.</ArticleTitle><Pagination><MedlinePgn>2254-2264</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/pbi.12579</ELocationID><Abstract><AbstractText>The developmental variation in stem height with respect to stem diameter is related to a broad range of ecological and evolutionary phenomena in trees, but the underlying genetic basis of this variation remains elusive. We implement a dynamic statistical model, functional mapping, to formulate a general procedure for the computational identification of quantitative trait loci (QTLs) that control stem height-diameter allometry during development. Functional mapping integrates the biological principles underlying trait formation and development into the association analysis of DNA genotype and endpoint phenotype, thus providing an incentive for understanding the mechanistic interplay between genes and development. Built on the basic tenet of functional mapping, we explore two core ecological scenarios of how stem height and stem diameter covary in response to environmental stimuli: (i) trees pioneer sunlit space by allocating more growth to stem height than diameter and (ii) trees maintain their competitive advantage through an inverse pattern. The model is equipped to characterize 'pioneering' QTLs (piQTLs) and 'maintaining' QTLs (miQTLs) which modulate these two ecological scenarios, respectively. In a practical application to a mapping population of full-sib hybrids derived from two Populus species, the model has well proven its versatility by identifying several piQTLs that promote height growth at a cost of diameter growth and several miQTLs that benefit radial growth at a cost of height growth. Judicious application of functional mapping may lead to improved strategies for studying the genetic control of the formation mechanisms underlying trade-offs among quantities of assimilates allocated to different growth parts.</AbstractText><CopyrightInformation>© 2016 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Jiang</LastName><ForeName>Libo</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ye</LastName><ForeName>Meixia</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhu</LastName><ForeName>Sheng</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhai</LastName><ForeName>Yi</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Meng</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Huang</LastName><ForeName>Minren</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wu</LastName><ForeName>Rongling</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Center for Statistical Genetics, The Pennsylvania State University, Hershey, PA, USA.</Affiliation></AffiliationInfo></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>2016</Year><Month>06</Month><Day>15</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Plant Biotechnol J</MedlineTA><NlmUniqueID>101201889</NlmUniqueID><ISSNLinking>1467-7644</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D005838" MajorTopicYN="N">Genotype</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008962" MajorTopicYN="Y">Models, Theoretical</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010641" MajorTopicYN="N">Phenotype</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D040641" MajorTopicYN="N">Quantitative Trait Loci</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="Y">functional mapping</Keyword><Keyword MajorTopicYN="Y">height-diameter allometry</Keyword><Keyword MajorTopicYN="Y">mathematical equation</Keyword><Keyword MajorTopicYN="Y">quantitative trait loci</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate 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Chine</li><li>États-Unis</li></country><region><li>Pennsylvanie</li></region><settlement><li>Pékin</li><li>University Park (Pennsylvanie)</li></settlement><orgName><li>Université d'État de Pennsylvanie</li></orgName></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Jiang, Libo" sort="Jiang, Libo" uniqKey="Jiang L" first="Libo" last="Jiang">Libo Jiang</name></noRegion><name sortKey="Huang, Minren" sort="Huang, Minren" uniqKey="Huang M" first="Minren" last="Huang">Minren Huang</name><name sortKey="Wu, Rongling" sort="Wu, Rongling" uniqKey="Wu R" first="Rongling" last="Wu">Rongling Wu</name><name sortKey="Xu, Meng" sort="Xu, Meng" uniqKey="Xu M" first="Meng" last="Xu">Meng Xu</name><name sortKey="Ye, Meixia" sort="Ye, Meixia" uniqKey="Ye M" first="Meixia" last="Ye">Meixia Ye</name><name sortKey="Zhai, Yi" sort="Zhai, Yi" uniqKey="Zhai Y" first="Yi" last="Zhai">Yi Zhai</name><name sortKey="Zhu, Sheng" sort="Zhu, Sheng" uniqKey="Zhu S" first="Sheng" last="Zhu">Sheng Zhu</name></country><country name="États-Unis"><region name="Pennsylvanie"><name sortKey="Wu, Rongling" sort="Wu, Rongling" uniqKey="Wu R" first="Rongling" last="Wu">Rongling Wu</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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