The Effector Repertoire of the Hop Downy Mildew Pathogen Pseudoperonospora humuli.
Identifieur interne : 000033 ( Main/Exploration ); précédent : 000032; suivant : 000034The Effector Repertoire of the Hop Downy Mildew Pathogen Pseudoperonospora humuli.
Auteurs : Savithri Purayannur [États-Unis] ; Liliana M. Cano [États-Unis] ; Megan J. Bowman [États-Unis] ; Kevin L. Childs [États-Unis] ; David H. Gent [États-Unis] ; Lina M. Quesada-Ocampo [États-Unis]Source :
- Frontiers in genetics [ 1664-8021 ] ; 2020.
Abstract
Pseudoperonospora humuli is an obligate biotrophic oomycete that causes downy mildew (DM), one of the most destructive diseases of cultivated hop that can lead to 100% crop loss in susceptible cultivars. We used the published genome of P. humuli to predict the secretome and effectorome and analyze the transcriptome variation among diverse isolates and during infection of hop leaves. Mining the predicted coding genes of the sequenced isolate OR502AA of P. humuli revealed a secretome of 1,250 genes. We identified 296 RXLR and RXLR-like effector-encoding genes in the secretome. Among the predicted RXLRs, there were several WY-motif-containing effectors that lacked canonical RXLR domains. Transcriptome analysis of sporangia from 12 different isolates collected from various hop cultivars revealed 754 secreted proteins and 201 RXLR effectors that showed transcript evidence across all isolates with reads per kilobase million (RPKM) values > 0. RNA-seq analysis of OR502AA-infected hop leaf samples at different time points after infection revealed highly expressed effectors that may play a relevant role in pathogenicity. Quantitative RT-PCR analysis confirmed the differential expression of selected effectors. We identified a set of P. humuli core effectors that showed transcript evidence in all tested isolates and elevated expression during infection. These effectors are ideal candidates for functional analysis and effector-assisted breeding to develop DM resistant hop cultivars.
DOI: 10.3389/fgene.2020.00910
PubMed: 32849854
PubMed Central: PMC7432248
Affiliations:
- États-Unis
- Caroline du Nord, Floride, Illinois, Michigan, Oregon
- East Lansing
- Université d'État du Michigan
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Cano</name><affiliation wicri:level="2"><nlm:affiliation>Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, United States.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC</wicri:regionArea><placeName><region type="state">Caroline du Nord</region></placeName></affiliation><affiliation wicri:level="2"><nlm:affiliation>Indian River Research and Education Center, Department of Plant Pathology, Institute of Food and Agricultural Sciences, University of Florida, Fort Pierce, FL, United States.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Indian River Research and Education Center, Department of Plant Pathology, Institute of Food and Agricultural Sciences, University of Florida, Fort Pierce, FL</wicri:regionArea><placeName><region type="state">Floride</region></placeName></affiliation></author><author><name sortKey="Bowman, Megan J" sort="Bowman, Megan J" uniqKey="Bowman M" first="Megan J" last="Bowman">Megan J. Bowman</name><affiliation wicri:level="4"><nlm:affiliation>Department of Plant Biology, Michigan State University, East Lansing, MI, United States.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Biology, Michigan State University, East Lansing, MI</wicri:regionArea><placeName><region type="state">Michigan</region><settlement type="city">East Lansing</settlement></placeName><orgName type="university">Université d'État du Michigan</orgName></affiliation><affiliation wicri:level="2"><nlm:affiliation>Ball Horticultural Company, West Chicago, IL, United States.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Ball Horticultural Company, West Chicago, IL</wicri:regionArea><placeName><region type="state">Illinois</region></placeName></affiliation></author><author><name sortKey="Childs, Kevin L" sort="Childs, Kevin L" uniqKey="Childs K" first="Kevin L" last="Childs">Kevin L. Childs</name><affiliation wicri:level="4"><nlm:affiliation>Department of Plant Biology, Michigan State University, East Lansing, MI, United States.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Biology, Michigan State University, East Lansing, MI</wicri:regionArea><placeName><region type="state">Michigan</region><settlement type="city">East Lansing</settlement></placeName><orgName type="university">Université d'État du Michigan</orgName></affiliation></author><author><name sortKey="Gent, David H" sort="Gent, David H" uniqKey="Gent D" first="David H" last="Gent">David H. Gent</name><affiliation wicri:level="2"><nlm:affiliation>United States Department of Agriculture-Agricultural Research Service, Forage Seed and Cereal Research Unit, Oregon State University, Corvallis, OR, United States.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>United States Department of Agriculture-Agricultural Research Service, Forage Seed and Cereal Research Unit, Oregon State University, Corvallis, OR</wicri:regionArea><placeName><region type="state">Oregon</region></placeName></affiliation></author><author><name sortKey="Quesada Ocampo, Lina M" sort="Quesada Ocampo, Lina M" uniqKey="Quesada Ocampo L" first="Lina M" last="Quesada-Ocampo">Lina M. Quesada-Ocampo</name><affiliation wicri:level="2"><nlm:affiliation>Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, United States.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC</wicri:regionArea><placeName><region type="state">Caroline du Nord</region></placeName></affiliation></author></analytic><series><title level="j">Frontiers in genetics</title><idno type="ISSN">1664-8021</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"><i>Pseudoperonospora humuli</i> is an obligate biotrophic oomycete that causes downy mildew (DM), one of the most destructive diseases of cultivated hop that can lead to 100% crop loss in susceptible cultivars. We used the published genome of <i>P. humuli</i> to predict the secretome and effectorome and analyze the transcriptome variation among diverse isolates and during infection of hop leaves. Mining the predicted coding genes of the sequenced isolate OR502AA of <i>P</i>. <i>humuli</i> revealed a secretome of 1,250 genes. We identified 296 RXLR and RXLR-like effector-encoding genes in the secretome. Among the predicted RXLRs, there were several WY-motif-containing effectors that lacked canonical RXLR domains. Transcriptome analysis of sporangia from 12 different isolates collected from various hop cultivars revealed 754 secreted proteins and 201 RXLR effectors that showed transcript evidence across all isolates with reads per kilobase million (RPKM) values > 0. RNA-seq analysis of OR502AA-infected hop leaf samples at different time points after infection revealed highly expressed effectors that may play a relevant role in pathogenicity. Quantitative RT-PCR analysis confirmed the differential expression of selected effectors. We identified a set of <i>P. humuli</i> core effectors that showed transcript evidence in all tested isolates and elevated expression during infection. These effectors are ideal candidates for functional analysis and effector-assisted breeding to develop DM resistant hop cultivars.</div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">32849854</PMID><DateRevised><Year>2020</Year><Month>09</Month><Day>28</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">1664-8021</ISSN><JournalIssue CitedMedium="Print"><Volume>11</Volume><PubDate><Year>2020</Year></PubDate></JournalIssue><Title>Frontiers in genetics</Title><ISOAbbreviation>Front Genet</ISOAbbreviation></Journal><ArticleTitle>The Effector Repertoire of the Hop Downy Mildew Pathogen <i>Pseudoperonospora humuli</i>.</ArticleTitle><Pagination><MedlinePgn>910</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.3389/fgene.2020.00910</ELocationID><Abstract><AbstractText><i>Pseudoperonospora humuli</i> is an obligate biotrophic oomycete that causes downy mildew (DM), one of the most destructive diseases of cultivated hop that can lead to 100% crop loss in susceptible cultivars. We used the published genome of <i>P. humuli</i> to predict the secretome and effectorome and analyze the transcriptome variation among diverse isolates and during infection of hop leaves. Mining the predicted coding genes of the sequenced isolate OR502AA of <i>P</i>. <i>humuli</i> revealed a secretome of 1,250 genes. We identified 296 RXLR and RXLR-like effector-encoding genes in the secretome. Among the predicted RXLRs, there were several WY-motif-containing effectors that lacked canonical RXLR domains. Transcriptome analysis of sporangia from 12 different isolates collected from various hop cultivars revealed 754 secreted proteins and 201 RXLR effectors that showed transcript evidence across all isolates with reads per kilobase million (RPKM) values > 0. RNA-seq analysis of OR502AA-infected hop leaf samples at different time points after infection revealed highly expressed effectors that may play a relevant role in pathogenicity. Quantitative RT-PCR analysis confirmed the differential expression of selected effectors. We identified a set of <i>P. humuli</i> core effectors that showed transcript evidence in all tested isolates and elevated expression during infection. These effectors are ideal candidates for functional analysis and effector-assisted breeding to develop DM resistant hop cultivars.</AbstractText><CopyrightInformation>Copyright © 2020 Purayannur, Cano, Bowman, Childs, Gent and Quesada-Ocampo.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Purayannur</LastName><ForeName>Savithri</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, United States.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cano</LastName><ForeName>Liliana M</ForeName><Initials>LM</Initials><AffiliationInfo><Affiliation>Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, United States.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Indian River Research and Education Center, Department of Plant Pathology, Institute of Food and Agricultural Sciences, University of Florida, Fort Pierce, FL, United States.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bowman</LastName><ForeName>Megan J</ForeName><Initials>MJ</Initials><AffiliationInfo><Affiliation>Department of Plant Biology, Michigan State University, East Lansing, MI, United States.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Ball Horticultural Company, West Chicago, IL, United States.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Childs</LastName><ForeName>Kevin L</ForeName><Initials>KL</Initials><AffiliationInfo><Affiliation>Department of Plant Biology, Michigan State University, East Lansing, MI, United States.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Gent</LastName><ForeName>David H</ForeName><Initials>DH</Initials><AffiliationInfo><Affiliation>United States Department of Agriculture-Agricultural Research Service, Forage Seed and Cereal Research Unit, Oregon State University, Corvallis, OR, United States.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Quesada-Ocampo</LastName><ForeName>Lina M</ForeName><Initials>LM</Initials><AffiliationInfo><Affiliation>Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, United States.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>08</Month><Day>11</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Front Genet</MedlineTA><NlmUniqueID>101560621</NlmUniqueID><ISSNLinking>1664-8021</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Pseudoperonospora</Keyword><Keyword MajorTopicYN="N">RXLR</Keyword><Keyword MajorTopicYN="N">downy mildew</Keyword><Keyword MajorTopicYN="N">effectors</Keyword><Keyword 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IdType="pubmed">16448329</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country><region><li>Caroline du Nord</li><li>Floride</li><li>Illinois</li><li>Michigan</li><li>Oregon</li></region><settlement><li>East Lansing</li></settlement><orgName><li>Université d'État du Michigan</li></orgName></list><tree><country name="États-Unis"><region name="Caroline du Nord"><name sortKey="Purayannur, Savithri" sort="Purayannur, Savithri" uniqKey="Purayannur S" first="Savithri" last="Purayannur">Savithri Purayannur</name></region><name sortKey="Bowman, Megan J" sort="Bowman, Megan J" uniqKey="Bowman M" first="Megan J" last="Bowman">Megan J. Bowman</name><name sortKey="Bowman, Megan J" sort="Bowman, Megan J" uniqKey="Bowman M" first="Megan J" last="Bowman">Megan J. Bowman</name><name sortKey="Cano, Liliana M" sort="Cano, Liliana M" uniqKey="Cano L" first="Liliana M" last="Cano">Liliana M. Cano</name><name sortKey="Cano, Liliana M" sort="Cano, Liliana M" uniqKey="Cano L" first="Liliana M" last="Cano">Liliana M. Cano</name><name sortKey="Childs, Kevin L" sort="Childs, Kevin L" uniqKey="Childs K" first="Kevin L" last="Childs">Kevin L. Childs</name><name sortKey="Gent, David H" sort="Gent, David H" uniqKey="Gent D" first="David H" last="Gent">David H. Gent</name><name sortKey="Quesada Ocampo, Lina M" sort="Quesada Ocampo, Lina M" uniqKey="Quesada Ocampo L" first="Lina M" last="Quesada-Ocampo">Lina M. Quesada-Ocampo</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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