Genome-wide identification and functional prediction of novel and fungi-responsive lincRNAs in Triticum aestivum.
Identifieur interne : 000389 ( Main/Exploration ); précédent : 000388; suivant : 000390Genome-wide identification and functional prediction of novel and fungi-responsive lincRNAs in Triticum aestivum.
Auteurs : Hong Zhang [République populaire de Chine] ; Weiguo Hu [République populaire de Chine] ; Jilei Hao [République populaire de Chine] ; Shikai Lv [République populaire de Chine] ; Changyou Wang [République populaire de Chine] ; Wei Tong [République populaire de Chine] ; Yajuan Wang [République populaire de Chine] ; Yanzhen Wang [République populaire de Chine] ; Xinlun Liu [République populaire de Chine] ; Wanquan Ji [République populaire de Chine]Source :
- BMC genomics [ 1471-2164 ] ; 2016.
Descripteurs français
- KwdFr :
- ARN des plantes (génétique), ARN long non codant (génétique), Ascomycota (MeSH), Basidiomycota (MeSH), Cartographie chromosomique (MeSH), Interactions hôte-pathogène (MeSH), Maladies des plantes (génétique), Maladies des plantes (microbiologie), Transcriptome (MeSH), Triticum (génétique), Triticum (microbiologie), microARN (génétique).
- MESH :
- génétique : ARN des plantes, ARN long non codant, Maladies des plantes, Triticum, microARN.
- microbiologie : Maladies des plantes, Triticum.
- Ascomycota, Basidiomycota, Cartographie chromosomique, Interactions hôte-pathogène, Transcriptome.
English descriptors
- KwdEn :
- Ascomycota (MeSH), Basidiomycota (MeSH), Chromosome Mapping (MeSH), Host-Pathogen Interactions (MeSH), MicroRNAs (genetics), Plant Diseases (genetics), Plant Diseases (microbiology), RNA, Long Noncoding (genetics), RNA, Plant (genetics), Transcriptome (MeSH), Triticum (genetics), Triticum (microbiology).
- MESH :
- chemical , genetics : MicroRNAs, RNA, Long Noncoding, RNA, Plant.
- genetics : Plant Diseases, Triticum.
- microbiology : Plant Diseases, Triticum.
- Ascomycota, Basidiomycota, Chromosome Mapping, Host-Pathogen Interactions, Transcriptome.
Abstract
BACKGROUND
Stripe rust (Puccinia striiformis f. sp. tritici; Pst) and powdery mildew (Blumeria graminis f. sp. tritici; Bgt) are important diseases of wheat (Triticum aestivum) worldwide. Increasingly evidences suggest that long intergenic ncRNAs (lincRNAs) are developmentally regulated and play important roles in development and stress responses of plants. However, identification of lincRNAs in wheat is still limited comparing with functional gene expression.
RESULTS
The transcriptome of the hexaploid wheat line N9134 inoculated with the Chinese Pst race CYR31 and Bgt race E09 at 1, 2, and 3 days post-inoculation was recapitulated to detect the lincRNAs. Here, 283 differential expressed lincRNAs were identified from 58218 putative lincRNAs, which account for 31.2% of transcriptome. Of which, 254 DE-LincRNAs responded to the Bgt stress, and 52 lincRNAs in Pst. Among them, 1328 SnRNP motifs (sm sites) were detected and showed RRU4-11RR sm site element and consensus RRU1-9VU1-7RR SnRNP motifs, where the total number of uridine was more than 3 but less than 11. Additionally, 101 DE-lincRNAs were predicted as targets of miRNA by psRNATarget, while 5 target mimics were identified using target mimicry search in TAPIR.
CONCLUSIONS
Taken together, our findings indicate that the lincRNA of wheat responded to Bgt and Pst stress and played important roles in splicesome and inter-regulating with miRNA. The sm site of wheat showed a more complex construction than that in mammal and model plant. The mass sequence data generated in this study provide a cue for future functional and molecular research on wheat-fungus interactions.
DOI: 10.1186/s12864-016-2570-0
PubMed: 26980266
PubMed Central: PMC4791882
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Yajuan" sort="Wang, Yajuan" uniqKey="Wang Y" first="Yajuan" last="Wang">Yajuan Wang</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Yanzhen" sort="Wang, Yanzhen" uniqKey="Wang Y" first="Yanzhen" last="Wang">Yanzhen Wang</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Xinlun" sort="Liu, Xinlun" uniqKey="Liu X" first="Xinlun" last="Liu">Xinlun Liu</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Ji, Wanquan" sort="Ji, Wanquan" uniqKey="Ji W" first="Wanquan" last="Ji">Wanquan Ji</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China. jiwanquan2008@126.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, 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Zhang</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China. zhangh1129@nwafu.edu.cn.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Hu, Weiguo" sort="Hu, Weiguo" uniqKey="Hu W" first="Weiguo" last="Hu">Weiguo Hu</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>National Laboratory of Wheat Engineering, Institute of Wheat, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, Henan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Laboratory of Wheat Engineering, Institute of Wheat, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, Henan</wicri:regionArea><wicri:noRegion>Henan</wicri:noRegion></affiliation></author><author><name sortKey="Hao, Jilei" sort="Hao, Jilei" uniqKey="Hao J" first="Jilei" last="Hao">Jilei Hao</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Lv, Shikai" sort="Lv, Shikai" uniqKey="Lv S" first="Shikai" last="Lv">Shikai Lv</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Changyou" sort="Wang, Changyou" uniqKey="Wang C" first="Changyou" last="Wang">Changyou Wang</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Tong, Wei" sort="Tong, Wei" uniqKey="Tong W" first="Wei" last="Tong">Wei Tong</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Yajuan" sort="Wang, Yajuan" uniqKey="Wang Y" first="Yajuan" last="Wang">Yajuan Wang</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Yanzhen" sort="Wang, Yanzhen" uniqKey="Wang Y" first="Yanzhen" last="Wang">Yanzhen Wang</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Xinlun" sort="Liu, Xinlun" uniqKey="Liu X" first="Xinlun" last="Liu">Xinlun Liu</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author><author><name sortKey="Ji, Wanquan" sort="Ji, Wanquan" uniqKey="Ji W" first="Wanquan" last="Ji">Wanquan Ji</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China. jiwanquan2008@126.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi</wicri:regionArea><wicri:noRegion>Shaanxi</wicri:noRegion></affiliation></author></analytic><series><title level="j">BMC genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Ascomycota (MeSH)</term><term>Basidiomycota (MeSH)</term><term>Chromosome Mapping (MeSH)</term><term>Host-Pathogen Interactions (MeSH)</term><term>MicroRNAs (genetics)</term><term>Plant Diseases (genetics)</term><term>Plant Diseases (microbiology)</term><term>RNA, Long Noncoding (genetics)</term><term>RNA, Plant (genetics)</term><term>Transcriptome (MeSH)</term><term>Triticum (genetics)</term><term>Triticum (microbiology)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN des plantes (génétique)</term><term>ARN long non codant (génétique)</term><term>Ascomycota (MeSH)</term><term>Basidiomycota (MeSH)</term><term>Cartographie chromosomique (MeSH)</term><term>Interactions hôte-pathogène (MeSH)</term><term>Maladies des plantes (génétique)</term><term>Maladies des plantes (microbiologie)</term><term>Transcriptome (MeSH)</term><term>Triticum (génétique)</term><term>Triticum (microbiologie)</term><term>microARN (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>MicroRNAs</term><term>RNA, Long Noncoding</term><term>RNA, Plant</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plant Diseases</term><term>Triticum</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN des plantes</term><term>ARN long non codant</term><term>Maladies des plantes</term><term>Triticum</term><term>microARN</term></keywords><keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Maladies des plantes</term><term>Triticum</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Plant Diseases</term><term>Triticum</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Ascomycota</term><term>Basidiomycota</term><term>Chromosome Mapping</term><term>Host-Pathogen Interactions</term><term>Transcriptome</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Ascomycota</term><term>Basidiomycota</term><term>Cartographie chromosomique</term><term>Interactions hôte-pathogène</term><term>Transcriptome</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b></p><p>Stripe rust (Puccinia striiformis f. sp. tritici; Pst) and powdery mildew (Blumeria graminis f. sp. tritici; Bgt) are important diseases of wheat (Triticum aestivum) worldwide. Increasingly evidences suggest that long intergenic ncRNAs (lincRNAs) are developmentally regulated and play important roles in development and stress responses of plants. However, identification of lincRNAs in wheat is still limited comparing with functional gene expression.</p></div><div type="abstract" xml:lang="en"><p><b>RESULTS</b></p><p>The transcriptome of the hexaploid wheat line N9134 inoculated with the Chinese Pst race CYR31 and Bgt race E09 at 1, 2, and 3 days post-inoculation was recapitulated to detect the lincRNAs. Here, 283 differential expressed lincRNAs were identified from 58218 putative lincRNAs, which account for 31.2% of transcriptome. Of which, 254 DE-LincRNAs responded to the Bgt stress, and 52 lincRNAs in Pst. Among them, 1328 SnRNP motifs (sm sites) were detected and showed RRU4-11RR sm site element and consensus RRU1-9VU1-7RR SnRNP motifs, where the total number of uridine was more than 3 but less than 11. Additionally, 101 DE-lincRNAs were predicted as targets of miRNA by psRNATarget, while 5 target mimics were identified using target mimicry search in TAPIR.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSIONS</b></p><p>Taken together, our findings indicate that the lincRNA of wheat responded to Bgt and Pst stress and played important roles in splicesome and inter-regulating with miRNA. The sm site of wheat showed a more complex construction than that in mammal and model plant. The mass sequence data generated in this study provide a cue for future functional and molecular research on wheat-fungus interactions.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">26980266</PMID><DateCompleted><Year>2016</Year><Month>11</Month><Day>03</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2164</ISSN><JournalIssue CitedMedium="Internet"><Volume>17</Volume><PubDate><Year>2016</Year><Month>Mar</Month><Day>15</Day></PubDate></JournalIssue><Title>BMC genomics</Title><ISOAbbreviation>BMC Genomics</ISOAbbreviation></Journal><ArticleTitle>Genome-wide identification and functional prediction of novel and fungi-responsive lincRNAs in Triticum aestivum.</ArticleTitle><Pagination><MedlinePgn>238</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/s12864-016-2570-0</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Stripe rust (Puccinia striiformis f. sp. tritici; Pst) and powdery mildew (Blumeria graminis f. sp. tritici; Bgt) are important diseases of wheat (Triticum aestivum) worldwide. Increasingly evidences suggest that long intergenic ncRNAs (lincRNAs) are developmentally regulated and play important roles in development and stress responses of plants. However, identification of lincRNAs in wheat is still limited comparing with functional gene expression.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">The transcriptome of the hexaploid wheat line N9134 inoculated with the Chinese Pst race CYR31 and Bgt race E09 at 1, 2, and 3 days post-inoculation was recapitulated to detect the lincRNAs. Here, 283 differential expressed lincRNAs were identified from 58218 putative lincRNAs, which account for 31.2% of transcriptome. Of which, 254 DE-LincRNAs responded to the Bgt stress, and 52 lincRNAs in Pst. Among them, 1328 SnRNP motifs (sm sites) were detected and showed RRU4-11RR sm site element and consensus RRU1-9VU1-7RR SnRNP motifs, where the total number of uridine was more than 3 but less than 11. Additionally, 101 DE-lincRNAs were predicted as targets of miRNA by psRNATarget, while 5 target mimics were identified using target mimicry search in TAPIR.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">Taken together, our findings indicate that the lincRNA of wheat responded to Bgt and Pst stress and played important roles in splicesome and inter-regulating with miRNA. The sm site of wheat showed a more complex construction than that in mammal and model plant. The mass sequence data generated in this study provide a cue for future functional and molecular research on wheat-fungus interactions.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Hong</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China. zhangh1129@nwafu.edu.cn.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hu</LastName><ForeName>Weiguo</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>National Laboratory of Wheat Engineering, Institute of Wheat, Henan Academy of Agricultural Sciences, Zhengzhou, 450002, Henan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hao</LastName><ForeName>Jilei</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lv</LastName><ForeName>Shikai</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Changyou</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tong</LastName><ForeName>Wei</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Yajuan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Yanzhen</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Xinlun</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ji</LastName><ForeName>Wanquan</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, PR China. jiwanquan2008@126.com.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>03</Month><Day>15</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>BMC Genomics</MedlineTA><NlmUniqueID>100965258</NlmUniqueID><ISSNLinking>1471-2164</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D035683">MicroRNAs</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D062085">RNA, Long Noncoding</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D018749">RNA, Plant</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001203" MajorTopicYN="N">Ascomycota</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001487" MajorTopicYN="N">Basidiomycota</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D002874" MajorTopicYN="N">Chromosome Mapping</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D054884" MajorTopicYN="Y">Host-Pathogen Interactions</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D035683" MajorTopicYN="N">MicroRNAs</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D062085" MajorTopicYN="N">RNA, Long Noncoding</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018749" MajorTopicYN="N">RNA, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059467" MajorTopicYN="N">Transcriptome</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014908" MajorTopicYN="N">Triticum</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Powdery mildew</Keyword><Keyword MajorTopicYN="N">RNA-Seq</Keyword><Keyword MajorTopicYN="N">Sm-site</Keyword><Keyword MajorTopicYN="N">Stripe rust</Keyword><Keyword MajorTopicYN="N">Wheat</Keyword><Keyword MajorTopicYN="N">lincRNA</Keyword><Keyword MajorTopicYN="N">miRNA target</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2015</Year><Month>11</Month><Day>04</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2016</Year><Month>03</Month><Day>07</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2016</Year><Month>3</Month><Day>17</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2016</Year><Month>3</Month><Day>17</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2016</Year><Month>11</Month><Day>4</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">26980266</ArticleId><ArticleId IdType="doi">10.1186/s12864-016-2570-0</ArticleId><ArticleId IdType="pii">10.1186/s12864-016-2570-0</ArticleId><ArticleId IdType="pmc">PMC4791882</ArticleId></ArticleIdList><ReferenceList><Reference><Citation>Mol Plant. 2010 Jul;3(4):729-39</Citation><ArticleIdList><ArticleId IdType="pubmed">20603381</ArticleId></ArticleIdList></Reference><Reference><Citation>Trends Genet. 2005 May;21(5):289-97</Citation><ArticleIdList><ArticleId IdType="pubmed">15851066</ArticleId></ArticleIdList></Reference><Reference><Citation>Genome Res. 2014 Mar;24(3):444-53</Citation><ArticleIdList><ArticleId IdType="pubmed">24402519</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Biol. 2013;11:59</Citation><ArticleIdList><ArticleId IdType="pubmed">23721193</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Cell. 2011 Sep 16;43(6):904-14</Citation><ArticleIdList><ArticleId IdType="pubmed">21925379</ArticleId></ArticleIdList></Reference><Reference><Citation>Genes Dev. 2009 Jul 1;23(13):1494-504</Citation><ArticleIdList><ArticleId IdType="pubmed">19571179</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Plant Biol. 2010;10:123</Citation><ArticleIdList><ArticleId IdType="pubmed">20573268</ArticleId></ArticleIdList></Reference><Reference><Citation>Nucleic Acids Res. 2003 Jul 1;31(13):3441-5</Citation><ArticleIdList><ArticleId IdType="pubmed">12824342</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Plant Biol. 2010;10:9</Citation><ArticleIdList><ArticleId IdType="pubmed">20067621</ArticleId></ArticleIdList></Reference><Reference><Citation>Nature. 2013 Mar 21;495(7441):333-8</Citation><ArticleIdList><ArticleId IdType="pubmed">23446348</ArticleId></ArticleIdList></Reference><Reference><Citation>Genome Biol. 2010;11(10):R106</Citation><ArticleIdList><ArticleId IdType="pubmed">20979621</ArticleId></ArticleIdList></Reference><Reference><Citation>Plant Physiol. 2013 Apr;161(4):1875-84</Citation><ArticleIdList><ArticleId IdType="pubmed">23429259</ArticleId></ArticleIdList></Reference><Reference><Citation>Plant Cell. 2002 Jul;14(7):1605-19</Citation><ArticleIdList><ArticleId IdType="pubmed">12119378</ArticleId></ArticleIdList></Reference><Reference><Citation>Trends Plant Sci. 2015 Jun;20(6):362-71</Citation><ArticleIdList><ArticleId IdType="pubmed">25850611</ArticleId></ArticleIdList></Reference><Reference><Citation>Trends Genet. 2015 May;31(5):239-51</Citation><ArticleIdList><ArticleId IdType="pubmed">25869999</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Rev Genet. 2011 Feb;12(2):87-98</Citation><ArticleIdList><ArticleId IdType="pubmed">21191423</ArticleId></ArticleIdList></Reference><Reference><Citation>Semin Cell Dev Biol. 2012 Apr;23(2):200-5</Citation><ArticleIdList><ArticleId IdType="pubmed">22202731</ArticleId></ArticleIdList></Reference><Reference><Citation>Proc Natl Acad Sci U S A. 2005 Apr 5;102(14):4927-8</Citation><ArticleIdList><ArticleId IdType="pubmed">15795368</ArticleId></ArticleIdList></Reference><Reference><Citation>Curr Opin Plant Biol. 2011 Apr;14(2):168-73</Citation><ArticleIdList><ArticleId IdType="pubmed">21168359</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Biol Rep. 2013 Nov;40(11):6245-53</Citation><ArticleIdList><ArticleId IdType="pubmed">24065539</ArticleId></ArticleIdList></Reference><Reference><Citation>Nature. 2006 Nov 16;444(7117):323-9</Citation><ArticleIdList><ArticleId IdType="pubmed">17108957</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Struct Mol Biol. 2015 Mar;22(3):256-64</Citation><ArticleIdList><ArticleId IdType="pubmed">25664725</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Protoc. 2013 Aug;8(8):1494-512</Citation><ArticleIdList><ArticleId IdType="pubmed">23845962</ArticleId></ArticleIdList></Reference><Reference><Citation>Trends Plant Sci. 2012 Jan;17(1):16-21</Citation><ArticleIdList><ArticleId IdType="pubmed">22104407</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Genet. 2007 Aug;39(8):1033-7</Citation><ArticleIdList><ArticleId IdType="pubmed">17643101</ArticleId></ArticleIdList></Reference><Reference><Citation>Funct Integr Genomics. 2010 May;10(2):227-39</Citation><ArticleIdList><ArticleId IdType="pubmed">20186453</ArticleId></ArticleIdList></Reference><Reference><Citation>Front Plant Sci. 2015 Jun 30;6:469</Citation><ArticleIdList><ArticleId IdType="pubmed">26175740</ArticleId></ArticleIdList></Reference><Reference><Citation>Nucleic Acids Res. 2011 Jul;39(Web Server issue):W155-9</Citation><ArticleIdList><ArticleId IdType="pubmed">21622958</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Cell. 2008 Oct 24;32(2):232-46</Citation><ArticleIdList><ArticleId IdType="pubmed">18951091</ArticleId></ArticleIdList></Reference><Reference><Citation>Curr Opin Cell Biol. 2009 Jun;21(3):416-25</Citation><ArticleIdList><ArticleId IdType="pubmed">19447594</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Med Genomics. 2013;6 Suppl 1:S7</Citation><ArticleIdList><ArticleId IdType="pubmed">23369519</ArticleId></ArticleIdList></Reference><Reference><Citation>EMBO J. 2006 Oct 4;25(19):4513-23</Citation><ArticleIdList><ArticleId IdType="pubmed">16977313</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2012;7(8):e43047</Citation><ArticleIdList><ArticleId IdType="pubmed">22916204</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Plant Biol. 2011;11:61</Citation><ArticleIdList><ArticleId IdType="pubmed">21473757</ArticleId></ArticleIdList></Reference><Reference><Citation>Science. 2007 Jun 8;316(5830):1484-8</Citation><ArticleIdList><ArticleId IdType="pubmed">17510325</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Genomics. 2009;10:253</Citation><ArticleIdList><ArticleId IdType="pubmed">19480707</ArticleId></ArticleIdList></Reference><Reference><Citation>J Exp Bot. 2009;60(2):509-21</Citation><ArticleIdList><ArticleId IdType="pubmed">19039100</ArticleId></ArticleIdList></Reference><Reference><Citation>EMBO J. 2001 Jan 15;20(1-2):187-96</Citation><ArticleIdList><ArticleId IdType="pubmed">11226169</ArticleId></ArticleIdList></Reference><Reference><Citation>Nature. 1987 Feb 19-25;325(6106):673-8</Citation><ArticleIdList><ArticleId IdType="pubmed">2950324</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Plant Pathol. 2014 Jun;15(5):433-46</Citation><ArticleIdList><ArticleId IdType="pubmed">24373199</ArticleId></ArticleIdList></Reference><Reference><Citation>J Exp Bot. 2014 Sep;65(17):4975-83</Citation><ArticleIdList><ArticleId IdType="pubmed">24948679</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2007;2(3):e294</Citation><ArticleIdList><ArticleId IdType="pubmed">17372628</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Struct Mol Biol. 2009 Nov;16(11):1154-9</Citation><ArticleIdList><ArticleId IdType="pubmed">19881500</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Rev Mol Cell Biol. 2007 Mar;8(3):209-20</Citation><ArticleIdList><ArticleId IdType="pubmed">17318225</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Genomics. 2014;15:898</Citation><ArticleIdList><ArticleId IdType="pubmed">25318379</ArticleId></ArticleIdList></Reference><Reference><Citation>Plant Cell. 2012 Nov;24(11):4333-45</Citation><ArticleIdList><ArticleId IdType="pubmed">23136377</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Rev Genet. 2006 Jun;7(6):475-82</Citation><ArticleIdList><ArticleId IdType="pubmed">16622413</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Zhang, Hong" sort="Zhang, Hong" uniqKey="Zhang H" first="Hong" last="Zhang">Hong Zhang</name></noRegion><name sortKey="Hao, Jilei" sort="Hao, Jilei" uniqKey="Hao J" first="Jilei" last="Hao">Jilei Hao</name><name sortKey="Hu, Weiguo" sort="Hu, Weiguo" uniqKey="Hu W" first="Weiguo" last="Hu">Weiguo Hu</name><name sortKey="Hu, Weiguo" sort="Hu, Weiguo" uniqKey="Hu W" first="Weiguo" last="Hu">Weiguo Hu</name><name sortKey="Ji, Wanquan" sort="Ji, Wanquan" uniqKey="Ji W" first="Wanquan" last="Ji">Wanquan Ji</name><name sortKey="Liu, Xinlun" sort="Liu, Xinlun" uniqKey="Liu X" first="Xinlun" last="Liu">Xinlun Liu</name><name sortKey="Lv, Shikai" sort="Lv, Shikai" uniqKey="Lv S" first="Shikai" last="Lv">Shikai Lv</name><name sortKey="Tong, Wei" sort="Tong, Wei" uniqKey="Tong W" first="Wei" last="Tong">Wei Tong</name><name sortKey="Wang, Changyou" sort="Wang, Changyou" uniqKey="Wang C" first="Changyou" last="Wang">Changyou Wang</name><name sortKey="Wang, Yajuan" sort="Wang, Yajuan" uniqKey="Wang Y" first="Yajuan" last="Wang">Yajuan Wang</name><name sortKey="Wang, Yanzhen" sort="Wang, Yanzhen" uniqKey="Wang Y" first="Yanzhen" last="Wang">Yanzhen Wang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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