RLP/K enrichment sequencing; a novel method to identify receptor-like protein (RLP) and receptor-like kinase (RLK) genes.
Identifieur interne : 000078 ( Main/Exploration ); précédent : 000077; suivant : 000079RLP/K enrichment sequencing; a novel method to identify receptor-like protein (RLP) and receptor-like kinase (RLK) genes.
Auteurs : Xiao Lin [Pays-Bas] ; Miles Armstrong [Royaume-Uni] ; Katie Baker [Royaume-Uni] ; Doret Wouters [Pays-Bas] ; Richard G F. Visser [Pays-Bas] ; Pieter J. Wolters [Pays-Bas] ; Ingo Hein [Royaume-Uni] ; Vivianne G A A. Vleeshouwers [Pays-Bas]Source :
- The New phytologist [ 1469-8137 ] ; 2020.
Abstract
The identification of immune receptors in crop plants is time-consuming but important for disease control. Previously, resistance gene enrichment sequencing (RenSeq) was developed to accelerate mapping of nucleotide-binding domain and leucine-rich repeat containing (NLR) genes. However, resistances mediated by pattern recognition receptors (PRRs) remain less utilized. Here, our pipeline shows accelerated mapping of PRRs. Effectoromics leads to precise identification of plants with target PRRs, and subsequent RLP/K enrichment sequencing (RLP/KSeq) leads to detection of informative single nucleotide polymorphisms that are linked to the trait. Using Phytophthora infestans as a model, we identified Solanum microdontum plants that recognize the apoplastic effectors INF1 or SCR74. RLP/KSeq in a segregating Solanum population confirmed the localization of the INF1 receptor on chromosome 12, and led to the rapid mapping of the response to SCR74 to chromosome 9. By using markers obtained from RLP/KSeq in conjunction with additional markers, we fine-mapped the SCR74 receptor to a 43-kbp G-LecRK locus. Our findings show that RLP/KSeq enables rapid mapping of PRRs and is especially beneficial for crop plants with large and complex genomes. This work will enable the elucidation and characterization of the nonNLR plant immune receptors and ultimately facilitate informed resistance breeding.
DOI: 10.1111/nph.16608
PubMed: 32285454
PubMed Central: PMC7383770
Affiliations:
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Visser</name><affiliation wicri:level="1"><nlm:affiliation>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen, the Netherlands.</nlm:affiliation><country xml:lang="fr" wicri:curation="lc">Pays-Bas</country><wicri:regionArea>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen</wicri:regionArea><wicri:noRegion>Wageningen</wicri:noRegion></affiliation></author><author><name sortKey="Wolters, Pieter J" sort="Wolters, Pieter J" uniqKey="Wolters P" first="Pieter J" last="Wolters">Pieter J. Wolters</name><affiliation wicri:level="1"><nlm:affiliation>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen, the Netherlands.</nlm:affiliation><country xml:lang="fr" wicri:curation="lc">Pays-Bas</country><wicri:regionArea>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen</wicri:regionArea><wicri:noRegion>Wageningen</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, DD2 5DA, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Cell and Molecular Sciences, The James Hutton Institute, Dundee, DD2 5DA</wicri:regionArea><wicri:noRegion>DD2 5DA</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Division of Plant Sciences, School of Life Sciences, University of Dundee at the James Hutton Institute, Dundee, DD2 5DA, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Division of Plant Sciences, School of Life Sciences, University of Dundee at the James Hutton Institute, Dundee, DD2 5DA</wicri:regionArea><wicri:noRegion>DD2 5DA</wicri:noRegion></affiliation></author><author><name sortKey="Vleeshouwers, Vivianne G A A" sort="Vleeshouwers, Vivianne G A A" uniqKey="Vleeshouwers V" first="Vivianne G A A" last="Vleeshouwers">Vivianne G A A. Vleeshouwers</name><affiliation wicri:level="1"><nlm:affiliation>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen, the Netherlands.</nlm:affiliation><country xml:lang="fr" wicri:curation="lc">Pays-Bas</country><wicri:regionArea>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen</wicri:regionArea><wicri:noRegion>Wageningen</wicri:noRegion></affiliation></author></analytic><series><title level="j">The New phytologist</title><idno type="eISSN">1469-8137</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The identification of immune receptors in crop plants is time-consuming but important for disease control. Previously, resistance gene enrichment sequencing (RenSeq) was developed to accelerate mapping of nucleotide-binding domain and leucine-rich repeat containing (NLR) genes. However, resistances mediated by pattern recognition receptors (PRRs) remain less utilized. Here, our pipeline shows accelerated mapping of PRRs. Effectoromics leads to precise identification of plants with target PRRs, and subsequent RLP/K enrichment sequencing (RLP/KSeq) leads to detection of informative single nucleotide polymorphisms that are linked to the trait. Using Phytophthora infestans as a model, we identified Solanum microdontum plants that recognize the apoplastic effectors INF1 or SCR74. RLP/KSeq in a segregating Solanum population confirmed the localization of the INF1 receptor on chromosome 12, and led to the rapid mapping of the response to SCR74 to chromosome 9. By using markers obtained from RLP/KSeq in conjunction with additional markers, we fine-mapped the SCR74 receptor to a 43-kbp G-LecRK locus. Our findings show that RLP/KSeq enables rapid mapping of PRRs and is especially beneficial for crop plants with large and complex genomes. This work will enable the elucidation and characterization of the nonNLR plant immune receptors and ultimately facilitate informed resistance breeding.</div></front></TEI><pubmed><MedlineCitation Status="In-Process" Owner="NLM"><PMID Version="1">32285454</PMID><DateRevised><Year>2020</Year><Month>10</Month><Day>30</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1469-8137</ISSN><JournalIssue CitedMedium="Internet"><Volume>227</Volume><Issue>4</Issue><PubDate><Year>2020</Year><Month>08</Month></PubDate></JournalIssue><Title>The New phytologist</Title><ISOAbbreviation>New Phytol</ISOAbbreviation></Journal><ArticleTitle>RLP/K enrichment sequencing; a novel method to identify receptor-like protein (RLP) and receptor-like kinase (RLK) genes.</ArticleTitle><Pagination><MedlinePgn>1264-1276</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/nph.16608</ELocationID><Abstract><AbstractText>The identification of immune receptors in crop plants is time-consuming but important for disease control. Previously, resistance gene enrichment sequencing (RenSeq) was developed to accelerate mapping of nucleotide-binding domain and leucine-rich repeat containing (NLR) genes. However, resistances mediated by pattern recognition receptors (PRRs) remain less utilized. Here, our pipeline shows accelerated mapping of PRRs. Effectoromics leads to precise identification of plants with target PRRs, and subsequent RLP/K enrichment sequencing (RLP/KSeq) leads to detection of informative single nucleotide polymorphisms that are linked to the trait. Using Phytophthora infestans as a model, we identified Solanum microdontum plants that recognize the apoplastic effectors INF1 or SCR74. RLP/KSeq in a segregating Solanum population confirmed the localization of the INF1 receptor on chromosome 12, and led to the rapid mapping of the response to SCR74 to chromosome 9. By using markers obtained from RLP/KSeq in conjunction with additional markers, we fine-mapped the SCR74 receptor to a 43-kbp G-LecRK locus. Our findings show that RLP/KSeq enables rapid mapping of PRRs and is especially beneficial for crop plants with large and complex genomes. This work will enable the elucidation and characterization of the nonNLR plant immune receptors and ultimately facilitate informed resistance breeding.</AbstractText><CopyrightInformation>© 2020 The Authors. New Phytologist © 2020 New Phytologist Trust.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Lin</LastName><ForeName>Xiao</ForeName><Initials>X</Initials><Identifier Source="ORCID">0000-0002-3848-0244</Identifier><AffiliationInfo><Affiliation>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen, the Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Armstrong</LastName><ForeName>Miles</ForeName><Initials>M</Initials><Identifier Source="ORCID">0000-0002-9441-476X</Identifier><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute, Dundee, DD2 5DA, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Baker</LastName><ForeName>Katie</ForeName><Initials>K</Initials><Identifier Source="ORCID">0000-0002-6265-9252</Identifier><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute, Dundee, DD2 5DA, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wouters</LastName><ForeName>Doret</ForeName><Initials>D</Initials><AffiliationInfo><Affiliation>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen, the Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Visser</LastName><ForeName>Richard G F</ForeName><Initials>RGF</Initials><Identifier Source="ORCID">0000-0002-0213-4016</Identifier><AffiliationInfo><Affiliation>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen, the Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wolters</LastName><ForeName>Pieter J</ForeName><Initials>PJ</Initials><Identifier Source="ORCID">0000-0001-5941-9189</Identifier><AffiliationInfo><Affiliation>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen, the Netherlands.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hein</LastName><ForeName>Ingo</ForeName><Initials>I</Initials><Identifier Source="ORCID">0000-0002-0128-2084</Identifier><AffiliationInfo><Affiliation>Cell and Molecular Sciences, The James Hutton Institute, Dundee, DD2 5DA, UK.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Division of Plant Sciences, School of Life Sciences, University of Dundee at the James Hutton Institute, Dundee, DD2 5DA, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Vleeshouwers</LastName><ForeName>Vivianne G A A</ForeName><Initials>VGAA</Initials><Identifier Source="ORCID">0000-0002-8160-4556</Identifier><AffiliationInfo><Affiliation>Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, 6708, PB, Wageningen, the Netherlands.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><DataBankList CompleteYN="Y"><DataBank><DataBankName>GENBANK</DataBankName><AccessionNumberList><AccessionNumber>MK388409.1</AccessionNumber><AccessionNumber>MT270812</AccessionNumber></AccessionNumberList></DataBank></DataBankList><GrantList CompleteYN="Y"><Grant><GrantID>BB/K018299/1</GrantID><Acronym>BB_</Acronym><Agency>Biotechnology and Biological Sciences Research Council</Agency><Country>United Kingdom</Country></Grant><Grant><GrantID>BB/L008025/1</GrantID><Acronym>BB_</Acronym><Agency>Biotechnology and Biological Sciences Research Council</Agency><Country>United Kingdom</Country></Grant><Grant><GrantID>BB/S015663/1</GrantID><Acronym>BB_</Acronym><Agency>Biotechnology and Biological Sciences Research Council</Agency><Country>United Kingdom</Country></Grant></GrantList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>05</Month><Day>22</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>New Phytol</MedlineTA><NlmUniqueID>9882884</NlmUniqueID><ISSNLinking>0028-646X</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="Y">Phytophthora infestans
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IdType="pubmed">21851635</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>Pays-Bas</li><li>Royaume-Uni</li></country></list><tree><country name="Pays-Bas"><noRegion><name sortKey="Lin, Xiao" sort="Lin, Xiao" uniqKey="Lin X" first="Xiao" last="Lin">Xiao Lin</name></noRegion><name sortKey="Visser, Richard G F" sort="Visser, Richard G F" uniqKey="Visser R" first="Richard G F" last="Visser">Richard G F. Visser</name><name sortKey="Vleeshouwers, Vivianne G A A" sort="Vleeshouwers, Vivianne G A A" uniqKey="Vleeshouwers V" first="Vivianne G A A" last="Vleeshouwers">Vivianne G A A. Vleeshouwers</name><name sortKey="Wolters, Pieter J" sort="Wolters, Pieter J" uniqKey="Wolters P" first="Pieter J" last="Wolters">Pieter J. Wolters</name><name sortKey="Wouters, Doret" sort="Wouters, Doret" uniqKey="Wouters D" first="Doret" last="Wouters">Doret Wouters</name></country><country name="Royaume-Uni"><noRegion><name sortKey="Armstrong, Miles" sort="Armstrong, Miles" uniqKey="Armstrong M" first="Miles" last="Armstrong">Miles Armstrong</name></noRegion><name sortKey="Baker, Katie" sort="Baker, Katie" uniqKey="Baker K" first="Katie" last="Baker">Katie Baker</name><name sortKey="Hein, Ingo" sort="Hein, Ingo" uniqKey="Hein I" first="Ingo" last="Hein">Ingo Hein</name><name sortKey="Hein, Ingo" sort="Hein, Ingo" uniqKey="Hein I" first="Ingo" last="Hein">Ingo Hein</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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