PoplarV1, Main, Exploration, bibRecord, 000B71

A comprehensive genomic scan reveals gene dosage balance impacts on quantitative traits in Populus trees.

Identifieur interne : 000B71 ( Main/Exploration ); précédent : 000B70; suivant : 000B72

A comprehensive genomic scan reveals gene dosage balance impacts on quantitative traits in Populus trees.

Auteurs : Héloïse Bastiaanse [États-Unis] ; Matthew Zinkgraf [États-Unis] ; Courtney Canning [États-Unis] ; Helen Tsai [États-Unis] ; Meric Lieberman [États-Unis] ; Luca Comai [États-Unis] ; Isabelle Henry [États-Unis] ; Andrew Groover [États-Unis]

Source :

Proceedings of the National Academy of Sciences of the United States of America [ 1091-6490 ] ; 2019.

RBID : pubmed:31213538

Descripteurs français

English descriptors

KwdEn :
- Chromosomes, Plant (genetics), Gene Dosage (genetics), Genetic Association Studies (MeSH), Genetic Variation (genetics), Genome, Plant (genetics), Populus (genetics), Quantitative Trait Loci (genetics), Quantitative Trait, Heritable (MeSH), Synteny (genetics).
MESH :
- genetics : Chromosomes, Plant, Gene Dosage, Genetic Variation, Genome, Plant, Populus, Quantitative Trait Loci, Synteny.
- Genetic Association Studies, Quantitative Trait, Heritable.

Abstract

Gene dosage variation and the associated changes in gene expression influence a wide variety of traits, ranging from cancer in humans to yield in plants. It is also expected to affect important traits of ecological and agronomic importance in forest trees, but this variation has not been systematically characterized or exploited. Here we performed a comprehensive scan of the Populus genome for dosage-sensitive loci affecting quantitative trait variation for spring and fall phenology and biomass production. The study population was a large collection of clonally propagated F1 hybrid lines of Populus that saturate the genome 10-fold with deletions and insertions (indels) of known sizes and positions. As a group, the phenotypic means of the indel lines consistently differed from control nonindel lines, with an overall negative effect of both insertions and deletions on all biomass-related traits but more diverse effects and an overall wider phenotypic distribution of the indel lines for the phenology-related traits. We also investigated the correlation between gene dosage at specific chromosomal locations and phenotype, to identify dosage quantitative trait loci (dQTL). Such dQTL were detected for most phenotypes examined, but stronger effect dQTL were identified for the phenology-related traits than for the biomass traits. Our genome-wide screen for dosage sensitivity in a higher eukaryote demonstrates the importance of global genomic balance and the impact of dosage on life history traits.

DOI: 10.1073/pnas.1903229116
PubMed: 31213538
PubMed Central: PMC6613180

Affiliations:

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Le document en format XML

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<sourceDesc><biblStruct><analytic><title xml:lang="en">A comprehensive genomic scan reveals gene dosage balance impacts on quantitative traits in <i>Populus</i>
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<term>Gene Dosage (genetics)</term>
<term>Genetic Association Studies (MeSH)</term>
<term>Genetic Variation (genetics)</term>
<term>Genome, Plant (genetics)</term>
<term>Populus (genetics)</term>
<term>Quantitative Trait Loci (genetics)</term>
<term>Quantitative Trait, Heritable (MeSH)</term>
<term>Synteny (genetics)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Caractère quantitatif héréditaire (MeSH)</term>
<term>Chromosomes de plante (génétique)</term>
<term>Dosage génique (génétique)</term>
<term>Génome végétal (génétique)</term>
<term>Locus de caractère quantitatif (génétique)</term>
<term>Populus (génétique)</term>
<term>Synténie (génétique)</term>
<term>Variation génétique (génétique)</term>
<term>Études d'associations génétiques (MeSH)</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Chromosomes, Plant</term>
<term>Gene Dosage</term>
<term>Genetic Variation</term>
<term>Genome, Plant</term>
<term>Populus</term>
<term>Quantitative Trait Loci</term>
<term>Synteny</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Chromosomes de plante</term>
<term>Dosage génique</term>
<term>Génome végétal</term>
<term>Locus de caractère quantitatif</term>
<term>Populus</term>
<term>Synténie</term>
<term>Variation génétique</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Genetic Association Studies</term>
<term>Quantitative Trait, Heritable</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Caractère quantitatif héréditaire</term>
<term>Études d'associations génétiques</term>
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<front><div type="abstract" xml:lang="en">Gene dosage variation and the associated changes in gene expression influence a wide variety of traits, ranging from cancer in humans to yield in plants. It is also expected to affect important traits of ecological and agronomic importance in forest trees, but this variation has not been systematically characterized or exploited. Here we performed a comprehensive scan of the <i>Populus</i>
 genome for dosage-sensitive loci affecting quantitative trait variation for spring and fall phenology and biomass production. The study population was a large collection of clonally propagated F1 hybrid lines of <i>Populus</i>
 that saturate the genome 10-fold with deletions and insertions (indels) of known sizes and positions. As a group, the phenotypic means of the indel lines consistently differed from control nonindel lines, with an overall negative effect of both insertions and deletions on all biomass-related traits but more diverse effects and an overall wider phenotypic distribution of the indel lines for the phenology-related traits. We also investigated the correlation between gene dosage at specific chromosomal locations and phenotype, to identify dosage quantitative trait loci (dQTL). Such dQTL were detected for most phenotypes examined, but stronger effect dQTL were identified for the phenology-related traits than for the biomass traits. Our genome-wide screen for dosage sensitivity in a higher eukaryote demonstrates the importance of global genomic balance and the impact of dosage on life history traits.</div>
</front>
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 trees.</ArticleTitle>
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<Abstract><AbstractText>Gene dosage variation and the associated changes in gene expression influence a wide variety of traits, ranging from cancer in humans to yield in plants. It is also expected to affect important traits of ecological and agronomic importance in forest trees, but this variation has not been systematically characterized or exploited. Here we performed a comprehensive scan of the <i>Populus</i>
 genome for dosage-sensitive loci affecting quantitative trait variation for spring and fall phenology and biomass production. The study population was a large collection of clonally propagated F1 hybrid lines of <i>Populus</i>
 that saturate the genome 10-fold with deletions and insertions (indels) of known sizes and positions. As a group, the phenotypic means of the indel lines consistently differed from control nonindel lines, with an overall negative effect of both insertions and deletions on all biomass-related traits but more diverse effects and an overall wider phenotypic distribution of the indel lines for the phenology-related traits. We also investigated the correlation between gene dosage at specific chromosomal locations and phenotype, to identify dosage quantitative trait loci (dQTL). Such dQTL were detected for most phenotypes examined, but stronger effect dQTL were identified for the phenology-related traits than for the biomass traits. Our genome-wide screen for dosage sensitivity in a higher eukaryote demonstrates the importance of global genomic balance and the impact of dosage on life history traits.</AbstractText>
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<AffiliationInfo><Affiliation>Pacific Southwest Research Station, US Department of Agriculture Forest Service, Davis, CA 95618.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Department of Plant Biology, University of California, Davis, CA 95616.</Affiliation>
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<AffiliationInfo><Affiliation>Department of Plant Biology, University of California, Davis, CA 95616.</Affiliation>
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<AffiliationInfo><Affiliation>Genome Center, University of California, Davis, CA 95616.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Henry</LastName>
<ForeName>Isabelle</ForeName>
<Initials>I</Initials>
<AffiliationInfo><Affiliation>Department of Plant Biology, University of California, Davis, CA 95616.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Genome Center, University of California, Davis, CA 95616.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Groover</LastName>
<ForeName>Andrew</ForeName>
<Initials>A</Initials>
<AffiliationInfo><Affiliation>Pacific Southwest Research Station, US Department of Agriculture Forest Service, Davis, CA 95618; andrew.t.groover@usda.gov.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Department of Plant Biology, University of California, Davis, CA 95616.</Affiliation>
</AffiliationInfo>
</Author>
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<Language>eng</Language>
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<Month>06</Month>
<Day>18</Day>
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A comprehensive genomic scan reveals gene dosage balance impacts on quantitative traits in Populus trees.

A comprehensive genomic scan reveals gene dosage balance impacts on quantitative traits in Populus trees.

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