Identification of Genes Underlying the Resistance to Melampsora larici-populina in an R Gene Supercluster of the Populus deltoides Genome.
Identifieur interne : 000334 ( Main/Exploration ); précédent : 000333; suivant : 000335Identification of Genes Underlying the Resistance to Melampsora larici-populina in an R Gene Supercluster of the Populus deltoides Genome.
Auteurs : Suyun Wei [République populaire de Chine] ; Huaitong Wu [République populaire de Chine] ; Xiaoping Li [République populaire de Chine] ; Yingnan Chen [République populaire de Chine] ; Yonghua Yang [République populaire de Chine] ; Meili Dai [République populaire de Chine] ; Tongming Yin [République populaire de Chine]Source :
- Plant disease [ 0191-2917 ] ; 2020.
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Abstract
Identification of the particular genes in an R genes supercluster underlying resistance to the rust fungus Melampsora larici-populina in poplar genome remains challenging. Based on the de novo assembly of the Populus deltoides genome, all of the detected major genetic loci conferring resistance to M. larici-populina were confined to a 3.5-Mb region on chromosome 19. The transcriptomes of the resistant and susceptible genotypes were sequenced for a timespan from 0 to 168 hours postinoculation. By mapping the differentially expressed genes to the target genomic region, we identified two constitutive expression R genes and one inducible expression R gene that might confer resistance to M. larici-populina. Nucleotide variations were predicted based on the reconstructed haplotypes for each allele of the candidate genes. We also confirmed that salicylic acid was the phytohormone mediating signal transduction pathways, and PR-1 was identified as a key gene inhibiting rust reproduction. Finally, quantitative reverse transcription PCR assay revealed consistent expressions with the RNA-sequencing data for the detected key genes. This study presents an efficient approach for the identification of particular genes underlying phenotype of interest by the combination of genetic mapping, transcriptome profiling, and candidate gene sequences dissection. The identified key genes would be useful for host resistance diagnosis and for molecular breeding of elite poplar cultivars exhibiting resistance to M. larici-populina infection. The detected R genes are also valuable for testing whether the combination of individual R genes can induce durable quantitative resistance.
DOI: 10.1094/PDIS-08-19-1699-RE
PubMed: 32049587
Affiliations:
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Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037</wicri:regionArea><wicri:noRegion>Nanjing 210037</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>College of Information Science and Technology, Nanjing Forestry University, Nanjing 210037, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Information Science and Technology, Nanjing Forestry University, Nanjing 210037</wicri:regionArea><wicri:noRegion>Nanjing 210037</wicri:noRegion></affiliation></author><author><name sortKey="Wu, Huaitong" sort="Wu, Huaitong" uniqKey="Wu H" first="Huaitong" last="Wu">Huaitong Wu</name><affiliation wicri:level="1"><nlm:affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037</wicri:regionArea><wicri:noRegion>Nanjing 210037</wicri:noRegion></affiliation></author><author><name sortKey="Li, Xiaoping" sort="Li, Xiaoping" uniqKey="Li X" first="Xiaoping" last="Li">Xiaoping Li</name><affiliation wicri:level="1"><nlm:affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037</wicri:regionArea><wicri:noRegion>Nanjing 210037</wicri:noRegion></affiliation></author><author><name sortKey="Chen, Yingnan" sort="Chen, Yingnan" uniqKey="Chen Y" first="Yingnan" last="Chen">Yingnan Chen</name><affiliation wicri:level="1"><nlm:affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037</wicri:regionArea><wicri:noRegion>Nanjing 210037</wicri:noRegion></affiliation></author><author><name sortKey="Yang, Yonghua" sort="Yang, Yonghua" uniqKey="Yang Y" first="Yonghua" last="Yang">Yonghua Yang</name><affiliation wicri:level="1"><nlm:affiliation>College of Life Sciences, Nanjing University, Nanjing 210093, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life Sciences, Nanjing University, Nanjing 210093</wicri:regionArea><wicri:noRegion>Nanjing 210093</wicri:noRegion></affiliation></author><author><name sortKey="Dai, Meili" sort="Dai, Meili" uniqKey="Dai M" first="Meili" last="Dai">Meili Dai</name><affiliation wicri:level="1"><nlm:affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037</wicri:regionArea><wicri:noRegion>Nanjing 210037</wicri:noRegion></affiliation></author><author><name sortKey="Yin, Tongming" sort="Yin, Tongming" uniqKey="Yin T" first="Tongming" last="Yin">Tongming Yin</name><affiliation wicri:level="1"><nlm:affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037</wicri:regionArea><wicri:noRegion>Nanjing 210037</wicri:noRegion></affiliation></author></analytic><series><title level="j">Plant disease</title><idno type="ISSN">0191-2917</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Basidiomycota (MeSH)</term><term>Gene Expression Profiling (MeSH)</term><term>Genes, vpr (MeSH)</term><term>Plant Diseases (MeSH)</term><term>Populus (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de profil d'expression de gènes (MeSH)</term><term>Basidiomycota (MeSH)</term><term>Gènes vpr (MeSH)</term><term>Maladies des plantes (MeSH)</term><term>Populus (MeSH)</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Basidiomycota</term><term>Gene Expression Profiling</term><term>Genes, vpr</term><term>Plant Diseases</term><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de profil d'expression de gènes</term><term>Basidiomycota</term><term>Gènes vpr</term><term>Maladies des plantes</term><term>Populus</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Identification of the particular genes in an <i>R</i> genes supercluster underlying resistance to the rust fungus <i>Melampsora larici-populina</i> in poplar genome remains challenging. Based on the de novo assembly of the <i>Populus deltoides</i> genome, all of the detected major genetic loci conferring resistance to <i>M. larici-populina</i> were confined to a 3.5-Mb region on chromosome 19. The transcriptomes of the resistant and susceptible genotypes were sequenced for a timespan from 0 to 168 hours postinoculation. By mapping the differentially expressed genes to the target genomic region, we identified two constitutive expression <i>R</i> genes and one inducible expression <i>R</i> gene that might confer resistance to <i>M. larici-populina</i>. Nucleotide variations were predicted based on the reconstructed haplotypes for each allele of the candidate genes. We also confirmed that salicylic acid was the phytohormone mediating signal transduction pathways, and <i>PR-1</i> was identified as a key gene inhibiting rust reproduction. Finally, quantitative reverse transcription PCR assay revealed consistent expressions with the RNA-sequencing data for the detected key genes. This study presents an efficient approach for the identification of particular genes underlying phenotype of interest by the combination of genetic mapping, transcriptome profiling, and candidate gene sequences dissection. The identified key genes would be useful for host resistance diagnosis and for molecular breeding of elite poplar cultivars exhibiting resistance to <i>M. larici-populina</i> infection. The detected <i>R</i> genes are also valuable for testing whether the combination of individual <i>R</i> genes can induce durable quantitative resistance.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Automated" Owner="NLM"><PMID Version="1">32049587</PMID><DateCompleted><Year>2020</Year><Month>04</Month><Day>07</Day></DateCompleted><DateRevised><Year>2020</Year><Month>04</Month><Day>08</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Print">0191-2917</ISSN><JournalIssue CitedMedium="Print"><Volume>104</Volume><Issue>4</Issue><PubDate><Year>2020</Year><Month>Apr</Month></PubDate></JournalIssue><Title>Plant disease</Title><ISOAbbreviation>Plant Dis</ISOAbbreviation></Journal><ArticleTitle>Identification of Genes Underlying the Resistance to <i>Melampsora larici-populina</i> in an <i>R</i> Gene Supercluster of the <i>Populus deltoides</i> Genome.</ArticleTitle><Pagination><MedlinePgn>1133-1143</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1094/PDIS-08-19-1699-RE</ELocationID><Abstract><AbstractText>Identification of the particular genes in an <i>R</i> genes supercluster underlying resistance to the rust fungus <i>Melampsora larici-populina</i> in poplar genome remains challenging. Based on the de novo assembly of the <i>Populus deltoides</i> genome, all of the detected major genetic loci conferring resistance to <i>M. larici-populina</i> were confined to a 3.5-Mb region on chromosome 19. The transcriptomes of the resistant and susceptible genotypes were sequenced for a timespan from 0 to 168 hours postinoculation. By mapping the differentially expressed genes to the target genomic region, we identified two constitutive expression <i>R</i> genes and one inducible expression <i>R</i> gene that might confer resistance to <i>M. larici-populina</i>. Nucleotide variations were predicted based on the reconstructed haplotypes for each allele of the candidate genes. We also confirmed that salicylic acid was the phytohormone mediating signal transduction pathways, and <i>PR-1</i> was identified as a key gene inhibiting rust reproduction. Finally, quantitative reverse transcription PCR assay revealed consistent expressions with the RNA-sequencing data for the detected key genes. This study presents an efficient approach for the identification of particular genes underlying phenotype of interest by the combination of genetic mapping, transcriptome profiling, and candidate gene sequences dissection. The identified key genes would be useful for host resistance diagnosis and for molecular breeding of elite poplar cultivars exhibiting resistance to <i>M. larici-populina</i> infection. The detected <i>R</i> genes are also valuable for testing whether the combination of individual <i>R</i> genes can induce durable quantitative resistance.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Wei</LastName><ForeName>Suyun</ForeName><Initials>S</Initials><Identifier Source="ORCID">http://orcid.org/0000-0003-3262-2771</Identifier><AffiliationInfo><Affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Information Science and Technology, Nanjing Forestry University, Nanjing 210037, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wu</LastName><ForeName>Huaitong</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Xiaoping</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Yingnan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Yonghua</ForeName><Initials>Y</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-8647-1158</Identifier><AffiliationInfo><Affiliation>College of Life Sciences, Nanjing University, Nanjing 210093, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Dai</LastName><ForeName>Meili</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yin</LastName><ForeName>Tongming</ForeName><Initials>T</Initials><AffiliationInfo><Affiliation>The Key Laboratory for Poplar Breeding and Germplasm Improvement, The Southern Modern Forestry Collaborative Innovation Center, College of Forestry, Nanjing Forestry University, Nanjing 210037, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>02</Month><Day>12</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Plant Dis</MedlineTA><NlmUniqueID>9882809</NlmUniqueID><ISSNLinking>0191-2917</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001487" MajorTopicYN="Y">Basidiomycota</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020869" MajorTopicYN="N">Gene Expression Profiling</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D016334" MajorTopicYN="N">Genes, vpr</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="Y">Populus</DescriptorName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">disease resistant gene</Keyword><Keyword MajorTopicYN="N">forest</Keyword><Keyword MajorTopicYN="N">fungi</Keyword><Keyword MajorTopicYN="N">genetic mapping signal transduction</Keyword><Keyword MajorTopicYN="N">salicylic acid</Keyword><Keyword MajorTopicYN="N">techniques</Keyword><Keyword MajorTopicYN="N">transcriptome sequencing</Keyword><Keyword MajorTopicYN="N">trees</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>2</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>4</Month><Day>9</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>2</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">32049587</ArticleId><ArticleId IdType="doi">10.1094/PDIS-08-19-1699-RE</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Wei, Suyun" sort="Wei, Suyun" uniqKey="Wei S" first="Suyun" last="Wei">Suyun Wei</name></noRegion><name sortKey="Chen, Yingnan" sort="Chen, Yingnan" uniqKey="Chen Y" first="Yingnan" last="Chen">Yingnan Chen</name><name sortKey="Dai, Meili" sort="Dai, Meili" uniqKey="Dai M" first="Meili" last="Dai">Meili Dai</name><name sortKey="Li, Xiaoping" sort="Li, Xiaoping" uniqKey="Li X" first="Xiaoping" last="Li">Xiaoping Li</name><name sortKey="Wei, Suyun" sort="Wei, Suyun" uniqKey="Wei S" first="Suyun" last="Wei">Suyun Wei</name><name sortKey="Wu, Huaitong" sort="Wu, Huaitong" uniqKey="Wu H" first="Huaitong" last="Wu">Huaitong Wu</name><name sortKey="Yang, Yonghua" sort="Yang, Yonghua" uniqKey="Yang Y" first="Yonghua" last="Yang">Yonghua Yang</name><name sortKey="Yin, Tongming" sort="Yin, Tongming" uniqKey="Yin T" first="Tongming" last="Yin">Tongming Yin</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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