Utilizing "Omic" Technologies to Identify and Prioritize Novel Sources of Resistance to the Oomycete Pathogen Phytophthora infestans in Potato Germplasm Collections.
Identifieur interne : 000A94 ( Main/Exploration ); précédent : 000A93; suivant : 000A95Utilizing "Omic" Technologies to Identify and Prioritize Novel Sources of Resistance to the Oomycete Pathogen Phytophthora infestans in Potato Germplasm Collections.
Auteurs : Pauline S M. Van Weymers [Royaume-Uni] ; Katie Baker [Royaume-Uni] ; Xinwei Chen [Royaume-Uni] ; Brian Harrower [Royaume-Uni] ; David E L. Cooke [Royaume-Uni] ; Eleanor M. Gilroy [Royaume-Uni] ; Paul R J. Birch [Royaume-Uni] ; Gaëtan J A. Thilliez [Royaume-Uni] ; Alison K. Lees [Royaume-Uni] ; James S. Lynott [Royaume-Uni] ; Miles R. Armstrong [Royaume-Uni] ; Gaynor Mckenzie [Royaume-Uni] ; Glenn J. Bryan [Royaume-Uni] ; Ingo Hein [Royaume-Uni]Source :
- Frontiers in plant science [ 1664-462X ] ; 2016.
Abstract
The greatest threat to potato production world-wide is late blight, caused by the oomycete pathogen Phytophthora infestans. A screen of 126 wild diploid Solanum accessions from the Commonwealth Potato Collection (CPC) with P. infestans isolates belonging to the genotype 13-A2 identified resistances in the species S. bulbocastanum, S. capsicibaccatum, S. microdontum, S. mochiquense, S. okadae, S. pinnatisectum, S. polyadenium, S. tarijense, and S. verrucosum. Effector-omics, allele mining, and diagnostic RenSeq (dRenSeq) were utilized to investigate the nature of resistances in S. okadae accessions. dRenSeq in resistant S. okadae accessions 7129, 7625, 3762, and a bulk of 20 resistant progeny confirmed the presence of full-length Rpi-vnt1.1 under stringent mapping conditions and corroborated allele mining results in the accessions 7129 and 7625 as well as Avr-vnt1 recognition in transient expression assays. In contrast, susceptible S. okadae accession 3761 and a bulk of 20 susceptible progeny lacked sequence homology in the 5' end compared to the functional Rpi-vnt1.1 gene. Further evaluation of S. okadae accessions with P. infestans isolates that have a broad spectrum of virulence demonstrated that, although S. okadae accessions 7129, 7625, and 7629 contain functional Rpi-vnt1.1, they also carry a novel resistance gene. We provide evidence that existing germplasm collections are important sources of novel resistances and that "omic" technologies such as dRenSeq-based genomics and effector-omics are efficacious tools to rapidly explore the diversity within these collections.
DOI: 10.3389/fpls.2016.00672
PubMed: 27303410
PubMed Central: PMC4882398
Affiliations:
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Van Weymers</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Baker, Katie" sort="Baker, Katie" uniqKey="Baker K" first="Katie" last="Baker">Katie Baker</name><affiliation wicri:level="1"><nlm:affiliation>Information and Computational Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Information and Computational Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Chen, Xinwei" sort="Chen, Xinwei" uniqKey="Chen X" first="Xinwei" last="Chen">Xinwei Chen</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Harrower, Brian" sort="Harrower, Brian" uniqKey="Harrower B" first="Brian" last="Harrower">Brian Harrower</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Cooke, David E L" sort="Cooke, David E L" uniqKey="Cooke D" first="David E L" last="Cooke">David E L. Cooke</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Gilroy, Eleanor M" sort="Gilroy, Eleanor M" uniqKey="Gilroy E" first="Eleanor M" last="Gilroy">Eleanor M. Gilroy</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Birch, Paul R J" sort="Birch, Paul R J" uniqKey="Birch P" first="Paul R J" last="Birch">Paul R J. Birch</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Thilliez, Gaetan J A" sort="Thilliez, Gaetan J A" uniqKey="Thilliez G" first="Gaëtan J A" last="Thilliez">Gaëtan J A. Thilliez</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Lees, Alison K" sort="Lees, Alison K" uniqKey="Lees A" first="Alison K" last="Lees">Alison K. Lees</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Lynott, James S" sort="Lynott, James S" uniqKey="Lynott J" first="James S" last="Lynott">James S. Lynott</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Armstrong, Miles R" sort="Armstrong, Miles R" uniqKey="Armstrong M" first="Miles R" last="Armstrong">Miles R. Armstrong</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Mckenzie, Gaynor" sort="Mckenzie, Gaynor" uniqKey="Mckenzie G" first="Gaynor" last="Mckenzie">Gaynor Mckenzie</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Bryan, Glenn J" sort="Bryan, Glenn J" uniqKey="Bryan G" first="Glenn J" last="Bryan">Glenn J. Bryan</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author><author><name sortKey="Hein, Ingo" sort="Hein, Ingo" uniqKey="Hein I" first="Ingo" last="Hein">Ingo Hein</name><affiliation wicri:level="1"><nlm:affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute Dundee</wicri:regionArea><wicri:noRegion>The James Hutton Institute Dundee</wicri:noRegion></affiliation></author></analytic><series><title level="j">Frontiers in plant science</title><idno type="ISSN">1664-462X</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The greatest threat to potato production world-wide is late blight, caused by the oomycete pathogen Phytophthora infestans. A screen of 126 wild diploid Solanum accessions from the Commonwealth Potato Collection (CPC) with P. infestans isolates belonging to the genotype 13-A2 identified resistances in the species S. bulbocastanum, S. capsicibaccatum, S. microdontum, S. mochiquense, S. okadae, S. pinnatisectum, S. polyadenium, S. tarijense, and S. verrucosum. Effector-omics, allele mining, and diagnostic RenSeq (dRenSeq) were utilized to investigate the nature of resistances in S. okadae accessions. dRenSeq in resistant S. okadae accessions 7129, 7625, 3762, and a bulk of 20 resistant progeny confirmed the presence of full-length Rpi-vnt1.1 under stringent mapping conditions and corroborated allele mining results in the accessions 7129 and 7625 as well as Avr-vnt1 recognition in transient expression assays. In contrast, susceptible S. okadae accession 3761 and a bulk of 20 susceptible progeny lacked sequence homology in the 5' end compared to the functional Rpi-vnt1.1 gene. Further evaluation of S. okadae accessions with P. infestans isolates that have a broad spectrum of virulence demonstrated that, although S. okadae accessions 7129, 7625, and 7629 contain functional Rpi-vnt1.1, they also carry a novel resistance gene. We provide evidence that existing germplasm collections are important sources of novel resistances and that "omic" technologies such as dRenSeq-based genomics and effector-omics are efficacious tools to rapidly explore the diversity within these collections. </div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">27303410</PMID><DateCompleted><Year>2016</Year><Month>06</Month><Day>15</Day></DateCompleted><DateRevised><Year>2020</Year><Month>10</Month><Day>01</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">1664-462X</ISSN><JournalIssue CitedMedium="Print"><Volume>7</Volume><PubDate><Year>2016</Year></PubDate></JournalIssue><Title>Frontiers in plant science</Title><ISOAbbreviation>Front Plant Sci</ISOAbbreviation></Journal><ArticleTitle>Utilizing "Omic" Technologies to Identify and Prioritize Novel Sources of Resistance to the Oomycete Pathogen Phytophthora infestans in Potato Germplasm Collections.</ArticleTitle><Pagination><MedlinePgn>672</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.3389/fpls.2016.00672</ELocationID><Abstract><AbstractText>The greatest threat to potato production world-wide is late blight, caused by the oomycete pathogen Phytophthora infestans. A screen of 126 wild diploid Solanum accessions from the Commonwealth Potato Collection (CPC) with P. infestans isolates belonging to the genotype 13-A2 identified resistances in the species S. bulbocastanum, S. capsicibaccatum, S. microdontum, S. mochiquense, S. okadae, S. pinnatisectum, S. polyadenium, S. tarijense, and S. verrucosum. Effector-omics, allele mining, and diagnostic RenSeq (dRenSeq) were utilized to investigate the nature of resistances in S. okadae accessions. dRenSeq in resistant S. okadae accessions 7129, 7625, 3762, and a bulk of 20 resistant progeny confirmed the presence of full-length Rpi-vnt1.1 under stringent mapping conditions and corroborated allele mining results in the accessions 7129 and 7625 as well as Avr-vnt1 recognition in transient expression assays. In contrast, susceptible S. okadae accession 3761 and a bulk of 20 susceptible progeny lacked sequence homology in the 5' end compared to the functional Rpi-vnt1.1 gene. Further evaluation of S. okadae accessions with P. infestans isolates that have a broad spectrum of virulence demonstrated that, although S. okadae accessions 7129, 7625, and 7629 contain functional Rpi-vnt1.1, they also carry a novel resistance gene. We provide evidence that existing germplasm collections are important sources of novel resistances and that "omic" technologies such as dRenSeq-based genomics and effector-omics are efficacious tools to rapidly explore the diversity within these collections. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Van Weymers</LastName><ForeName>Pauline S M</ForeName><Initials>PS</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Baker</LastName><ForeName>Katie</ForeName><Initials>K</Initials><AffiliationInfo><Affiliation>Information and Computational Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Xinwei</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Harrower</LastName><ForeName>Brian</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cooke</LastName><ForeName>David E L</ForeName><Initials>DE</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Gilroy</LastName><ForeName>Eleanor M</ForeName><Initials>EM</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Birch</LastName><ForeName>Paul R J</ForeName><Initials>PR</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Thilliez</LastName><ForeName>Gaëtan J A</ForeName><Initials>GJ</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lees</LastName><ForeName>Alison K</ForeName><Initials>AK</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lynott</LastName><ForeName>James S</ForeName><Initials>JS</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Armstrong</LastName><ForeName>Miles R</ForeName><Initials>MR</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>McKenzie</LastName><ForeName>Gaynor</ForeName><Initials>G</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bryan</LastName><ForeName>Glenn J</ForeName><Initials>GJ</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hein</LastName><ForeName>Ingo</ForeName><Initials>I</Initials><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute Dundee, UK.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>05</Month><Day>27</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Front Plant Sci</MedlineTA><NlmUniqueID>101568200</NlmUniqueID><ISSNLinking>1664-462X</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Commonwealth potato collection</Keyword><Keyword MajorTopicYN="N">Phytophthora infestans</Keyword><Keyword MajorTopicYN="N">RXLR effectors</Keyword><Keyword MajorTopicYN="N">RenSeq</Keyword><Keyword MajorTopicYN="N">diagnostic</Keyword><Keyword MajorTopicYN="N">germplasm collection</Keyword><Keyword MajorTopicYN="N">oomycete</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2016</Year><Month>02</Month><Day>29</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2016</Year><Month>05</Month><Day>02</Day></PubMedPubDate><PubMedPubDate 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06;3(11):2031-47</Citation><ArticleIdList><ArticleId IdType="pubmed">24062527</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>Royaume-Uni</li></country></list><tree><country name="Royaume-Uni"><noRegion><name sortKey="Van Weymers, Pauline S M" sort="Van Weymers, Pauline S M" uniqKey="Van Weymers P" first="Pauline S M" last="Van Weymers">Pauline S M. Van Weymers</name></noRegion><name sortKey="Armstrong, Miles R" sort="Armstrong, Miles R" uniqKey="Armstrong M" first="Miles R" last="Armstrong">Miles R. Armstrong</name><name sortKey="Baker, Katie" sort="Baker, Katie" uniqKey="Baker K" first="Katie" last="Baker">Katie Baker</name><name sortKey="Birch, Paul R J" sort="Birch, Paul R J" uniqKey="Birch P" first="Paul R J" last="Birch">Paul R J. Birch</name><name sortKey="Bryan, Glenn J" sort="Bryan, Glenn J" uniqKey="Bryan G" first="Glenn J" last="Bryan">Glenn J. Bryan</name><name sortKey="Chen, Xinwei" sort="Chen, Xinwei" uniqKey="Chen X" first="Xinwei" last="Chen">Xinwei Chen</name><name sortKey="Cooke, David E L" sort="Cooke, David E L" uniqKey="Cooke D" first="David E L" last="Cooke">David E L. Cooke</name><name sortKey="Gilroy, Eleanor M" sort="Gilroy, Eleanor M" uniqKey="Gilroy E" first="Eleanor M" last="Gilroy">Eleanor M. Gilroy</name><name sortKey="Harrower, Brian" sort="Harrower, Brian" uniqKey="Harrower B" first="Brian" last="Harrower">Brian Harrower</name><name sortKey="Hein, Ingo" sort="Hein, Ingo" uniqKey="Hein I" first="Ingo" last="Hein">Ingo Hein</name><name sortKey="Lees, Alison K" sort="Lees, Alison K" uniqKey="Lees A" first="Alison K" last="Lees">Alison K. Lees</name><name sortKey="Lynott, James S" sort="Lynott, James S" uniqKey="Lynott J" first="James S" last="Lynott">James S. Lynott</name><name sortKey="Mckenzie, Gaynor" sort="Mckenzie, Gaynor" uniqKey="Mckenzie G" first="Gaynor" last="Mckenzie">Gaynor Mckenzie</name><name sortKey="Thilliez, Gaetan J A" sort="Thilliez, Gaetan J A" uniqKey="Thilliez G" first="Gaëtan J A" last="Thilliez">Gaëtan J A. Thilliez</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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