Genome-Wide Analysis of the miRNA-mRNAs Network Involved in Cold Tolerance in Populus simonii × P. nigra.
Identifieur interne : 000940 ( Main/Exploration ); précédent : 000939; suivant : 000941Genome-Wide Analysis of the miRNA-mRNAs Network Involved in Cold Tolerance in Populus simonii × P. nigra.
Auteurs : Bo Zhou [République populaire de Chine] ; Yutong Kang [République populaire de Chine] ; Jingtong Leng [République populaire de Chine] ; Qijiang Xu [République populaire de Chine]Source :
- Genes [ 2073-4425 ] ; 2019.
Descripteurs français
- KwdFr :
- ARN messager (génétique), Populus (croissance et développement), Populus (génétique), Protéines végétales (génétique), Régulation de l'expression des gènes végétaux (MeSH), Réponse au choc froid (génétique), Séquençage nucléotidique à haut débit (MeSH), Transcriptome (génétique), microARN (génétique).
- MESH :
- croissance et développement : Populus.
- génétique : ARN messager, Populus, Protéines végétales, Réponse au choc froid, Transcriptome, microARN.
- Régulation de l'expression des gènes végétaux, Séquençage nucléotidique à haut débit.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : MicroRNAs, Plant Proteins, RNA, Messenger.
- genetics : Cold-Shock Response, Populus, Transcriptome.
- growth & development : Populus.
- Gene Expression Regulation, Plant, High-Throughput Nucleotide Sequencing.
Abstract
BACKGROUND
Cold tolerance is important for plants' geographical distribution and survival in extreme seasonal variations of climate. However,
RESULTS
Through high-throughput sequencing and differential expression analysis, 61 miRNAs and 1229 DEGs were identified under cold induction condition in
CONCLUSIONS
Integrated analysis of miRNAs and transcriptome uncovered the complicated regulation of the tolerance of cold in
DOI: 10.3390/genes10060430
PubMed: 31195761
PubMed Central: PMC6627750
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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xml:lang="en">Genome-Wide Analysis of the miRNA-mRNAs Network Involved in Cold Tolerance in <i>Populus simonii</i> × <i>P. nigra</i>.</title><author><name sortKey="Zhou, Bo" sort="Zhou, Bo" uniqKey="Zhou B" first="Bo" last="Zhou">Bo Zhou</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. zhoubo@nefu.edu.cn.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, 26 Hexing Road, Harbin 150040</wicri:regionArea><wicri:noRegion>Harbin 150040</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. zhoubo@nefu.edu.cn.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040</wicri:regionArea><wicri:noRegion>Harbin 150040</wicri:noRegion></affiliation></author><author><name sortKey="Kang, Yutong" sort="Kang, Yutong" uniqKey="Kang Y" first="Yutong" last="Kang">Yutong Kang</name><affiliation wicri:level="1"><nlm:affiliation>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. amazingkk@sina.cn.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040</wicri:regionArea><wicri:noRegion>Harbin 150040</wicri:noRegion></affiliation></author><author><name sortKey="Leng, Jingtong" sort="Leng, Jingtong" uniqKey="Leng J" first="Jingtong" last="Leng">Jingtong Leng</name><affiliation wicri:level="1"><nlm:affiliation>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. lengjt558@163.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040</wicri:regionArea><wicri:noRegion>Harbin 150040</wicri:noRegion></affiliation></author><author><name sortKey="Xu, Qijiang" sort="Xu, Qijiang" uniqKey="Xu Q" first="Qijiang" last="Xu">Qijiang Xu</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. qijiangxu@126.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, 26 Hexing Road, Harbin 150040</wicri:regionArea><wicri:noRegion>Harbin 150040</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. qijiangxu@126.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040</wicri:regionArea><wicri:noRegion>Harbin 150040</wicri:noRegion></affiliation></author></analytic><series><title level="j">Genes</title><idno type="ISSN">2073-4425</idno><imprint><date when="2019" type="published">2019</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Cold-Shock Response (genetics)</term><term>Gene Expression Regulation, Plant (MeSH)</term><term>High-Throughput Nucleotide Sequencing (MeSH)</term><term>MicroRNAs (genetics)</term><term>Plant Proteins (genetics)</term><term>Populus (genetics)</term><term>Populus (growth & development)</term><term>RNA, Messenger (genetics)</term><term>Transcriptome (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN messager (génétique)</term><term>Populus (croissance et développement)</term><term>Populus (génétique)</term><term>Protéines végétales (génétique)</term><term>Régulation de l'expression des gènes végétaux (MeSH)</term><term>Réponse au choc froid (génétique)</term><term>Séquençage nucléotidique à haut débit (MeSH)</term><term>Transcriptome (génétique)</term><term>microARN (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>MicroRNAs</term><term>Plant Proteins</term><term>RNA, Messenger</term></keywords><keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Cold-Shock Response</term><term>Populus</term><term>Transcriptome</term></keywords><keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN messager</term><term>Populus</term><term>Protéines végétales</term><term>Réponse au choc froid</term><term>Transcriptome</term><term>microARN</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Gene Expression Regulation, Plant</term><term>High-Throughput Nucleotide Sequencing</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Régulation de l'expression des gènes végétaux</term><term>Séquençage nucléotidique à haut débit</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b></p><p>Cold tolerance is important for plants' geographical distribution and survival in extreme seasonal variations of climate. However, </p></div><div type="abstract" xml:lang="en"><p><b>RESULTS</b></p><p>Through high-throughput sequencing and differential expression analysis, 61 miRNAs and 1229 DEGs were identified under cold induction condition in </p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSIONS</b></p><p>Integrated analysis of miRNAs and transcriptome uncovered the complicated regulation of the tolerance of cold in </p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">31195761</PMID><DateCompleted><Year>2019</Year><Month>12</Month><Day>26</Day></DateCompleted><DateRevised><Year>2020</Year><Month>03</Month><Day>09</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Print">2073-4425</ISSN><JournalIssue CitedMedium="Print"><Volume>10</Volume><Issue>6</Issue><PubDate><Year>2019</Year><Month>06</Month><Day>05</Day></PubDate></JournalIssue><Title>Genes</Title><ISOAbbreviation>Genes (Basel)</ISOAbbreviation></Journal><ArticleTitle>Genome-Wide Analysis of the miRNA-mRNAs Network Involved in Cold Tolerance in <i>Populus simonii</i> × <i>P. nigra</i>.</ArticleTitle><ELocationID EIdType="pii" ValidYN="Y">E430</ELocationID><ELocationID EIdType="doi" ValidYN="Y">10.3390/genes10060430</ELocationID><Abstract><AbstractText Label="BACKGROUND">Cold tolerance is important for plants' geographical distribution and survival in extreme seasonal variations of climate. However, <i>Populus simonii</i> × <i>P. nigra</i> shows wide adaptability and strong cold resistance. Transcriptional and post-transcriptional regulation of cold-responsive genes is crucial for cold tolerance in plants. To understand the roles of regulatory RNAs under cold induction in <i>Populus simonii</i> × <i>P. nigra</i>, we constructed cDNA and small RNA libraries from leaf buds treated or not with -4 °C for 8 h for analysis.</AbstractText><AbstractText Label="RESULTS">Through high-throughput sequencing and differential expression analysis, 61 miRNAs and 1229 DEGs were identified under cold induction condition in <i>Populus simonii</i> × <i>P. nigra.</i> The result showed that miR167a, miR1450, miR319a, miR395b, miR393a-5p, miR408-5p, and miR168a-5p were downregulated, whereas transcription level of miR172a increased under the cold treatment. Thirty-one phased-siRNA were also obtained (reads ≥ 4) and some of them proceeded from TAS3 loci. Analysis of the differentially expressed genes (DEGs) showed that transcription factor genes such as Cluster-15451.2 (putative MYB), Cluster-16493.29872 (putative bZIP), Cluster-16493.29175 (putative SBP), and Cluster-1378.1 (putative ARF) were differentially expressed in cold treated and untreated plantlets of <i>Populus simonii</i> × <i>P. nigra.</i> Integrated analysis of miRNAs and transcriptome showed miR319, miR159, miR167, miR395, miR390, and miR172 and their target genes, including MYB, SBP, bZIP, ARF, LHW, and ATL, were predicted to be involved in ARF pathway, SPL pathway, DnaJ related photosystem II, and LRR receptor kinase, and many of them are known to resist chilling injury. Particularly, a sophisticated regulatory model including miRNAs, phasiRNAs, and targets of them was set up.</AbstractText><AbstractText Label="CONCLUSIONS">Integrated analysis of miRNAs and transcriptome uncovered the complicated regulation of the tolerance of cold in <i>Populus simonii</i> × <i>P. nigra.</i> MiRNAs, phasiRNAs, and gene-encoded transcription factors were characterized at a whole genome level and their expression patterns were proved to be complementary. This work lays a foundation for further research of the pathway of sRNAs and regulatory factors involved in cold tolerance.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Bo</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. zhoubo@nefu.edu.cn.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. zhoubo@nefu.edu.cn.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kang</LastName><ForeName>Yutong</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. amazingkk@sina.cn.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Leng</LastName><ForeName>Jingtong</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. lengjt558@163.com.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Qijiang</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. qijiangxu@126.com.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Life Science, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China. qijiangxu@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>2019</Year><Month>06</Month><Day>05</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Genes (Basel)</MedlineTA><NlmUniqueID>101551097</NlmUniqueID><ISSNLinking>2073-4425</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D035683">MicroRNAs</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012333">RNA, Messenger</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D058639" MajorTopicYN="N">Cold-Shock Response</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D059014" MajorTopicYN="N">High-Throughput Nucleotide Sequencing</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D035683" MajorTopicYN="N">MicroRNAs</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="N">growth & development</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012333" MajorTopicYN="N">RNA, Messenger</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059467" MajorTopicYN="N">Transcriptome</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="Y">Populus simonii × P. nigra</Keyword><Keyword MajorTopicYN="Y">cold induction</Keyword><Keyword MajorTopicYN="Y">microRNAs</Keyword><Keyword MajorTopicYN="Y">transcriptome</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2019</Year><Month>04</Month><Day>09</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2019</Year><Month>05</Month><Day>21</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2019</Year><Month>05</Month><Day>31</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2019</Year><Month>6</Month><Day>15</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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Jingtong" uniqKey="Leng J" first="Jingtong" last="Leng">Jingtong Leng</name><name sortKey="Xu, Qijiang" sort="Xu, Qijiang" uniqKey="Xu Q" first="Qijiang" last="Xu">Qijiang Xu</name><name sortKey="Xu, Qijiang" sort="Xu, Qijiang" uniqKey="Xu Q" first="Qijiang" last="Xu">Qijiang Xu</name><name sortKey="Zhou, Bo" sort="Zhou, Bo" uniqKey="Zhou B" first="Bo" last="Zhou">Bo Zhou</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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