PhytophthoraV1, Main, Exploration, bibRecord, 000989

Genome-wide association mapping of resistance to Phytophthora sojae in a soybean [Glycine max (L.) Merr.] germplasm panel from maturity groups IV and V.

Identifieur interne : 000989 ( Main/Exploration ); précédent : 000988; suivant : 000990

Genome-wide association mapping of resistance to Phytophthora sojae in a soybean [Glycine max (L.) Merr.] germplasm panel from maturity groups IV and V.

Auteurs : Jun Qin [États-Unis, République populaire de Chine] ; Qijian Song [États-Unis] ; Ainong Shi [États-Unis] ; Song Li [États-Unis] ; Mengchen Zhang [République populaire de Chine] ; Bo Zhang [États-Unis]

Source :

PloS one [ 1932-6203 ] ; 2017.

RBID : pubmed:28910339

Descripteurs français

English descriptors

KwdEn :
- Chromosome Mapping (methods), Disease Resistance (MeSH), Gene Expression Profiling (methods), Gene Expression Regulation, Plant (MeSH), Genome-Wide Association Study (MeSH), Phytophthora (physiology), Plant Diseases (parasitology), Plant Proteins (genetics), Plant Roots (genetics), Plant Roots (parasitology), Plant Stems (genetics), Plant Stems (parasitology), Polymorphism, Single Nucleotide (MeSH), Quantitative Trait Loci (MeSH), Seeds (genetics), Seeds (parasitology), Sequence Analysis, RNA (methods), Soybeans (genetics), Soybeans (parasitology).
MESH :
- chemical , genetics : Plant Proteins.
- genetics : Plant Roots, Plant Stems, Seeds, Soybeans.
- methods : Chromosome Mapping, Gene Expression Profiling, Sequence Analysis, RNA.
- parasitology : Plant Diseases, Plant Roots, Plant Stems, Seeds, Soybeans.
- physiology : Phytophthora.
- Disease Resistance, Gene Expression Regulation, Plant, Genome-Wide Association Study, Polymorphism, Single Nucleotide, Quantitative Trait Loci.

Abstract

Phytophthora sojae, an oomycete pathogen of soybean, causes stem and root rot, resulting in annual economic loss up to $2 billion worldwide. Varieties with P. sojae resistance are environmental friendly to effectively reduce disease damages. In order to improve the resistance of P. sojae and broaden the genetic diversity in Southern soybean cultivars and germplasm in the U.S., we established a P. sojae resistance gene pool that has high genetic diversity, and explored genomic regions underlying the host resistance to P. sojae races 1, 3, 7, 17 and 25. A soybean germplasm panel from maturity groups (MGs) IV and V including 189 accessions originated from 10 countries were used in this study. The panel had a high genetic diversity compared to the 6,749 accessions from MGs IV and V in USDA Soybean Germplasm Collection. Based on disease evaluation dataset of these accessions inoculated with P. sojae races 1, 3, 7, 17 and 25, which are publically available, five accessions in this panel were resistant to all races. Genome-wide association analysis identified a total of 32 significant SNPs, which were clustered in resistance-associated genomic regions, among those, ss715619920 was only 3kb away from the gene Glyma.14g087500, a subtilisin protease. Gene expression analysis showed that the gene was down-regulated more than 4 fold (log2 fold > 2.2) in response to P. sojae infection. The identified molecular markers and genomic regions that are associated with the disease resistance in this gene pool will greatly assist the U.S. Southern soybean breeders in developing elite varieties with broad genetic background and P. sojae resistance.

DOI: 10.1371/journal.pone.0184613
PubMed: 28910339
PubMed Central: PMC5599008

Affiliations:

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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Chromosome Mapping (methods)</term>
<term>Disease Resistance (MeSH)</term>
<term>Gene Expression Profiling (methods)</term>
<term>Gene Expression Regulation, Plant (MeSH)</term>
<term>Genome-Wide Association Study (MeSH)</term>
<term>Phytophthora (physiology)</term>
<term>Plant Diseases (parasitology)</term>
<term>Plant Proteins (genetics)</term>
<term>Plant Roots (genetics)</term>
<term>Plant Roots (parasitology)</term>
<term>Plant Stems (genetics)</term>
<term>Plant Stems (parasitology)</term>
<term>Polymorphism, Single Nucleotide (MeSH)</term>
<term>Quantitative Trait Loci (MeSH)</term>
<term>Seeds (genetics)</term>
<term>Seeds (parasitology)</term>
<term>Sequence Analysis, RNA (methods)</term>
<term>Soybeans (genetics)</term>
<term>Soybeans (parasitology)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de profil d'expression de gènes (méthodes)</term>
<term>Analyse de séquence d'ARN (méthodes)</term>
<term>Cartographie chromosomique (méthodes)</term>
<term>Graines (génétique)</term>
<term>Graines (parasitologie)</term>
<term>Locus de caractère quantitatif (MeSH)</term>
<term>Maladies des plantes (parasitologie)</term>
<term>Phytophthora (physiologie)</term>
<term>Polymorphisme de nucléotide simple (MeSH)</term>
<term>Protéines végétales (génétique)</term>
<term>Racines de plante (génétique)</term>
<term>Racines de plante (parasitologie)</term>
<term>Régulation de l'expression des gènes végétaux (MeSH)</term>
<term>Résistance à la maladie (MeSH)</term>
<term>Soja (génétique)</term>
<term>Soja (parasitologie)</term>
<term>Tiges de plante (génétique)</term>
<term>Tiges de plante (parasitologie)</term>
<term>Étude d'association pangénomique (MeSH)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Plant Proteins</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plant Roots</term>
<term>Plant Stems</term>
<term>Seeds</term>
<term>Soybeans</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Graines</term>
<term>Protéines végétales</term>
<term>Racines de plante</term>
<term>Soja</term>
<term>Tiges de plante</term>
</keywords>
<keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Chromosome Mapping</term>
<term>Gene Expression Profiling</term>
<term>Sequence Analysis, RNA</term>
</keywords>
<keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Analyse de profil d'expression de gènes</term>
<term>Analyse de séquence d'ARN</term>
<term>Cartographie chromosomique</term>
</keywords>
<keywords scheme="MESH" qualifier="parasitologie" xml:lang="fr"><term>Graines</term>
<term>Maladies des plantes</term>
<term>Racines de plante</term>
<term>Soja</term>
<term>Tiges de plante</term>
</keywords>
<keywords scheme="MESH" qualifier="parasitology" xml:lang="en"><term>Plant Diseases</term>
<term>Plant Roots</term>
<term>Plant Stems</term>
<term>Seeds</term>
<term>Soybeans</term>
</keywords>
<keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Phytophthora</term>
</keywords>
<keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Phytophthora</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Disease Resistance</term>
<term>Gene Expression Regulation, Plant</term>
<term>Genome-Wide Association Study</term>
<term>Polymorphism, Single Nucleotide</term>
<term>Quantitative Trait Loci</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Locus de caractère quantitatif</term>
<term>Polymorphisme de nucléotide simple</term>
<term>Régulation de l'expression des gènes végétaux</term>
<term>Résistance à la maladie</term>
<term>Étude d'association pangénomique</term>
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<front><div type="abstract" xml:lang="en">Phytophthora sojae, an oomycete pathogen of soybean, causes stem and root rot, resulting in annual economic loss up to $2 billion worldwide. Varieties with P. sojae resistance are environmental friendly to effectively reduce disease damages. In order to improve the resistance of P. sojae and broaden the genetic diversity in Southern soybean cultivars and germplasm in the U.S., we established a P. sojae resistance gene pool that has high genetic diversity, and explored genomic regions underlying the host resistance to P. sojae races 1, 3, 7, 17 and 25. A soybean germplasm panel from maturity groups (MGs) IV and V including 189 accessions originated from 10 countries were used in this study. The panel had a high genetic diversity compared to the 6,749 accessions from MGs IV and V in USDA Soybean Germplasm Collection. Based on disease evaluation dataset of these accessions inoculated with P. sojae races 1, 3, 7, 17 and 25, which are publically available, five accessions in this panel were resistant to all races. Genome-wide association analysis identified a total of 32 significant SNPs, which were clustered in resistance-associated genomic regions, among those, ss715619920 was only 3kb away from the gene Glyma.14g087500, a subtilisin protease. Gene expression analysis showed that the gene was down-regulated more than 4 fold (log2 fold > 2.2) in response to P. sojae infection. The identified molecular markers and genomic regions that are associated with the disease resistance in this gene pool will greatly assist the U.S. Southern soybean breeders in developing elite varieties with broad genetic background and P. sojae resistance.</div>
</front>
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<ArticleTitle>Genome-wide association mapping of resistance to Phytophthora sojae in a soybean [Glycine max (L.) Merr.] germplasm panel from maturity groups IV and V.</ArticleTitle>
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<Abstract><AbstractText>Phytophthora sojae, an oomycete pathogen of soybean, causes stem and root rot, resulting in annual economic loss up to $2 billion worldwide. Varieties with P. sojae resistance are environmental friendly to effectively reduce disease damages. In order to improve the resistance of P. sojae and broaden the genetic diversity in Southern soybean cultivars and germplasm in the U.S., we established a P. sojae resistance gene pool that has high genetic diversity, and explored genomic regions underlying the host resistance to P. sojae races 1, 3, 7, 17 and 25. A soybean germplasm panel from maturity groups (MGs) IV and V including 189 accessions originated from 10 countries were used in this study. The panel had a high genetic diversity compared to the 6,749 accessions from MGs IV and V in USDA Soybean Germplasm Collection. Based on disease evaluation dataset of these accessions inoculated with P. sojae races 1, 3, 7, 17 and 25, which are publically available, five accessions in this panel were resistant to all races. Genome-wide association analysis identified a total of 32 significant SNPs, which were clustered in resistance-associated genomic regions, among those, ss715619920 was only 3kb away from the gene Glyma.14g087500, a subtilisin protease. Gene expression analysis showed that the gene was down-regulated more than 4 fold (log2 fold > 2.2) in response to P. sojae infection. The identified molecular markers and genomic regions that are associated with the disease resistance in this gene pool will greatly assist the U.S. Southern soybean breeders in developing elite varieties with broad genetic background and P. sojae resistance.</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Qin</LastName>
<ForeName>Jun</ForeName>
<Initials>J</Initials>
<AffiliationInfo><Affiliation>Department of Crop and Soil Environmental Sciences, Virginia Tech, Blacksburg, VA, United States of America.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>National Soybean Improvement Center Shijiazhuang Sub-Center. North China Key Laboratory of Biology and Genetic Improvement of Soybean Ministry of Agriculture. Cereal & Oil Crop Institute, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, P.R. China.</Affiliation>
</AffiliationInfo>
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<Author ValidYN="Y"><LastName>Song</LastName>
<ForeName>Qijian</ForeName>
<Initials>Q</Initials>
<AffiliationInfo><Affiliation>USDA, Agricultural Research Service, Soybean Genomics and Improvement Lab, Beltsville, MD, United States of America.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Shi</LastName>
<ForeName>Ainong</ForeName>
<Initials>A</Initials>
<AffiliationInfo><Affiliation>Department of Horticulture, University of Arkansas, Fayetteville, AR, United States of America.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Li</LastName>
<ForeName>Song</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Department of Crop and Soil Environmental Sciences, Virginia Tech, Blacksburg, VA, United States of America.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Zhang</LastName>
<ForeName>Mengchen</ForeName>
<Initials>M</Initials>
<AffiliationInfo><Affiliation>National Soybean Improvement Center Shijiazhuang Sub-Center. North China Key Laboratory of Biology and Genetic Improvement of Soybean Ministry of Agriculture. Cereal & Oil Crop Institute, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, P.R. China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Zhang</LastName>
<ForeName>Bo</ForeName>
<Initials>B</Initials>
<Identifier Source="ORCID">http://orcid.org/0000-0002-0155-385X</Identifier>
<AffiliationInfo><Affiliation>Department of Crop and Soil Environmental Sciences, Virginia Tech, Blacksburg, VA, United States of America.</Affiliation>
</AffiliationInfo>
</Author>
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<Language>eng</Language>
<PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType>
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<ArticleDate DateType="Electronic"><Year>2017</Year>
<Month>09</Month>
<Day>14</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo><Country>United States</Country>
<MedlineTA>PLoS One</MedlineTA>
<NlmUniqueID>101285081</NlmUniqueID>
<ISSNLinking>1932-6203</ISSNLinking>
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<ChemicalList><Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance>
</Chemical>
</ChemicalList>
<CitationSubset>IM</CitationSubset>
<MeshHeadingList><MeshHeading><DescriptorName UI="D002874" MajorTopicYN="N">Chromosome Mapping</DescriptorName>
<QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D060467" MajorTopicYN="Y">Disease Resistance</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D020869" MajorTopicYN="N">Gene Expression Profiling</DescriptorName>
<QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018506" MajorTopicYN="Y">Gene Expression Regulation, Plant</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D055106" MajorTopicYN="N">Genome-Wide Association Study</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D010838" MajorTopicYN="N">Phytophthora</DescriptorName>
<QualifierName UI="Q000502" MajorTopicYN="Y">physiology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName>
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Genome-wide association mapping of resistance to Phytophthora sojae in a soybean [Glycine max (L.) Merr.] germplasm panel from maturity groups IV and V.

Genome-wide association mapping of resistance to Phytophthora sojae in a soybean [Glycine max (L.) Merr.] germplasm panel from maturity groups IV and V.

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