Identification and characterization of salt-responsive microRNAs in Populus tomentosa by high-throughput sequencing.
Identifieur interne : 002642 ( Main/Exploration ); précédent : 002641; suivant : 002643Identification and characterization of salt-responsive microRNAs in Populus tomentosa by high-throughput sequencing.
Auteurs : Yuanyuan Ren [République populaire de Chine] ; Lei Chen ; Yiyun Zhang ; Xiangyang Kang ; Zhiyi Zhang ; Yanwei WangSource :
- Biochimie [ 1638-6183 ] ; 2013.
Descripteurs français
- KwdFr :
- Analyse de séquence d'ARN (MeSH), Populus (effets des médicaments et des substances chimiques), Populus (génétique), Populus (physiologie), Reproductibilité des résultats (MeSH), Régulation de l'expression des gènes végétaux (effets des médicaments et des substances chimiques), Sels (pharmacologie), Stress physiologique (effets des médicaments et des substances chimiques), Stress physiologique (génétique), Séquence conservée (MeSH), Séquençage nucléotidique à haut débit (MeSH), microARN (génétique).
- MESH :
- effets des médicaments et des substances chimiques : Populus, Régulation de l'expression des gènes végétaux, Stress physiologique.
- génétique : Populus, Stress physiologique, microARN.
- pharmacologie : Sels.
- physiologie : Populus.
- Analyse de séquence d'ARN, Reproductibilité des résultats, Séquence conservée, Séquençage nucléotidique à haut débit.
English descriptors
- KwdEn :
- Conserved Sequence (MeSH), Gene Expression Regulation, Plant (drug effects), High-Throughput Nucleotide Sequencing (MeSH), MicroRNAs (genetics), Populus (drug effects), Populus (genetics), Populus (physiology), Reproducibility of Results (MeSH), Salts (pharmacology), Sequence Analysis, RNA (MeSH), Stress, Physiological (drug effects), Stress, Physiological (genetics).
- MESH :
- chemical , genetics : MicroRNAs.
- drug effects : Gene Expression Regulation, Plant, Populus, Stress, Physiological.
- genetics : Populus, Stress, Physiological.
- chemical , pharmacology : Salts.
- physiology : Populus.
- Conserved Sequence, High-Throughput Nucleotide Sequencing, Reproducibility of Results, Sequence Analysis, RNA.
Abstract
Salt is one of the main environmental factors limiting plant growth and a better understanding of mechanisms of salt stress would aid efforts to bolster plant salt tolerance. MicroRNAs are well known for their important regulatory roles in response to abiotic stress in plants. In this study, high-throughput sequencing was employed to identify miRNAs in Populus tomentosa plantlets treated or not with salt (200 mM for 10 h). We found 141 conserved miRNAs belonging to 31 families, 29 non-conserved but previously-known miRNAs belonging to 26 families, and 17 novel miRNAs. Under salt stress, 19 miRNAs belonging to seven conserved miRNA families were significantly downregulated, and two miRNAs belonging to two conserved miRNA families were upregulated. Of seven non-conserved miRNAs with significantly altered expression, five were downregulated and two were upregulated. Furthermore, eight miRNAs were validated by qRT-PCR and their dynamic differential expressions were analyzed. In addition, 269 target genes of identified miRNAs were predicted and categorized by function. These results provide new insights into salt-responsive miRNAs in Populus.
DOI: 10.1016/j.biochi.2012.10.025
PubMed: 23142627
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Identification and characterization of salt-responsive microRNAs in Populus tomentosa by high-throughput sequencing.</title><author><name sortKey="Ren, Yuanyuan" sort="Ren, Yuanyuan" uniqKey="Ren Y" first="Yuanyuan" last="Ren">Yuanyuan Ren</name><affiliation wicri:level="1"><nlm:affiliation>National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Biotechnology, Beijing Forestry University, 100083 Beijing, People's Republic of China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Biotechnology, Beijing Forestry University, 100083 Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Chen, Lei" sort="Chen, Lei" uniqKey="Chen L" first="Lei" last="Chen">Lei Chen</name></author><author><name sortKey="Zhang, Yiyun" sort="Zhang, Yiyun" uniqKey="Zhang Y" first="Yiyun" last="Zhang">Yiyun Zhang</name></author><author><name sortKey="Kang, Xiangyang" sort="Kang, Xiangyang" uniqKey="Kang X" first="Xiangyang" last="Kang">Xiangyang Kang</name></author><author><name sortKey="Zhang, Zhiyi" sort="Zhang, Zhiyi" uniqKey="Zhang Z" first="Zhiyi" last="Zhang">Zhiyi Zhang</name></author><author><name sortKey="Wang, Yanwei" sort="Wang, Yanwei" uniqKey="Wang Y" first="Yanwei" last="Wang">Yanwei Wang</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2013">2013</date><idno type="RBID">pubmed:23142627</idno><idno type="pmid">23142627</idno><idno type="doi">10.1016/j.biochi.2012.10.025</idno><idno type="wicri:Area/Main/Corpus">002811</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">002811</idno><idno type="wicri:Area/Main/Curation">002811</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">002811</idno><idno type="wicri:Area/Main/Exploration">002811</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Identification and characterization of salt-responsive microRNAs in Populus tomentosa by high-throughput sequencing.</title><author><name sortKey="Ren, Yuanyuan" sort="Ren, Yuanyuan" uniqKey="Ren Y" first="Yuanyuan" last="Ren">Yuanyuan Ren</name><affiliation wicri:level="1"><nlm:affiliation>National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Biotechnology, Beijing Forestry University, 100083 Beijing, People's Republic of China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Biotechnology, Beijing Forestry University, 100083 Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Chen, Lei" sort="Chen, Lei" uniqKey="Chen L" first="Lei" last="Chen">Lei Chen</name></author><author><name sortKey="Zhang, Yiyun" sort="Zhang, Yiyun" uniqKey="Zhang Y" first="Yiyun" last="Zhang">Yiyun Zhang</name></author><author><name sortKey="Kang, Xiangyang" sort="Kang, Xiangyang" uniqKey="Kang X" first="Xiangyang" last="Kang">Xiangyang Kang</name></author><author><name sortKey="Zhang, Zhiyi" sort="Zhang, Zhiyi" uniqKey="Zhang Z" first="Zhiyi" last="Zhang">Zhiyi Zhang</name></author><author><name sortKey="Wang, Yanwei" sort="Wang, Yanwei" uniqKey="Wang Y" first="Yanwei" last="Wang">Yanwei Wang</name></author></analytic><series><title level="j">Biochimie</title><idno type="eISSN">1638-6183</idno><imprint><date when="2013" type="published">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Conserved Sequence (MeSH)</term><term>Gene Expression Regulation, Plant (drug effects)</term><term>High-Throughput Nucleotide Sequencing (MeSH)</term><term>MicroRNAs (genetics)</term><term>Populus (drug effects)</term><term>Populus (genetics)</term><term>Populus (physiology)</term><term>Reproducibility of Results (MeSH)</term><term>Salts (pharmacology)</term><term>Sequence Analysis, RNA (MeSH)</term><term>Stress, Physiological (drug effects)</term><term>Stress, Physiological (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de séquence d'ARN (MeSH)</term><term>Populus (effets des médicaments et des substances chimiques)</term><term>Populus (génétique)</term><term>Populus (physiologie)</term><term>Reproductibilité des résultats (MeSH)</term><term>Régulation de l'expression des gènes végétaux (effets des médicaments et des substances chimiques)</term><term>Sels (pharmacologie)</term><term>Stress physiologique (effets des médicaments et des substances chimiques)</term><term>Stress physiologique (génétique)</term><term>Séquence conservée (MeSH)</term><term>Séquençage nucléotidique à haut débit (MeSH)</term><term>microARN (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>MicroRNAs</term></keywords><keywords scheme="MESH" qualifier="drug effects" xml:lang="en"><term>Gene Expression Regulation, Plant</term><term>Populus</term><term>Stress, Physiological</term></keywords><keywords scheme="MESH" qualifier="effets des médicaments et des substances chimiques" xml:lang="fr"><term>Populus</term><term>Régulation de l'expression des gènes végétaux</term><term>Stress physiologique</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Populus</term><term>Stress, Physiological</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Populus</term><term>Stress physiologique</term><term>microARN</term></keywords><keywords scheme="MESH" qualifier="pharmacologie" xml:lang="fr"><term>Sels</term></keywords><keywords scheme="MESH" type="chemical" qualifier="pharmacology" xml:lang="en"><term>Salts</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Conserved Sequence</term><term>High-Throughput Nucleotide Sequencing</term><term>Reproducibility of Results</term><term>Sequence Analysis, RNA</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de séquence d'ARN</term><term>Reproductibilité des résultats</term><term>Séquence conservée</term><term>Séquençage nucléotidique à haut débit</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Salt is one of the main environmental factors limiting plant growth and a better understanding of mechanisms of salt stress would aid efforts to bolster plant salt tolerance. MicroRNAs are well known for their important regulatory roles in response to abiotic stress in plants. In this study, high-throughput sequencing was employed to identify miRNAs in Populus tomentosa plantlets treated or not with salt (200 mM for 10 h). We found 141 conserved miRNAs belonging to 31 families, 29 non-conserved but previously-known miRNAs belonging to 26 families, and 17 novel miRNAs. Under salt stress, 19 miRNAs belonging to seven conserved miRNA families were significantly downregulated, and two miRNAs belonging to two conserved miRNA families were upregulated. Of seven non-conserved miRNAs with significantly altered expression, five were downregulated and two were upregulated. Furthermore, eight miRNAs were validated by qRT-PCR and their dynamic differential expressions were analyzed. In addition, 269 target genes of identified miRNAs were predicted and categorized by function. These results provide new insights into salt-responsive miRNAs in Populus.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">23142627</PMID><DateCompleted><Year>2013</Year><Month>08</Month><Day>29</Day></DateCompleted><DateRevised><Year>2013</Year><Month>03</Month><Day>07</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1638-6183</ISSN><JournalIssue CitedMedium="Internet"><Volume>95</Volume><Issue>4</Issue><PubDate><Year>2013</Year><Month>Apr</Month></PubDate></JournalIssue><Title>Biochimie</Title><ISOAbbreviation>Biochimie</ISOAbbreviation></Journal><ArticleTitle>Identification and characterization of salt-responsive microRNAs in Populus tomentosa by high-throughput sequencing.</ArticleTitle><Pagination><MedlinePgn>743-50</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1016/j.biochi.2012.10.025</ELocationID><ELocationID EIdType="pii" ValidYN="Y">S0300-9084(12)00441-5</ELocationID><Abstract><AbstractText>Salt is one of the main environmental factors limiting plant growth and a better understanding of mechanisms of salt stress would aid efforts to bolster plant salt tolerance. MicroRNAs are well known for their important regulatory roles in response to abiotic stress in plants. In this study, high-throughput sequencing was employed to identify miRNAs in Populus tomentosa plantlets treated or not with salt (200 mM for 10 h). We found 141 conserved miRNAs belonging to 31 families, 29 non-conserved but previously-known miRNAs belonging to 26 families, and 17 novel miRNAs. Under salt stress, 19 miRNAs belonging to seven conserved miRNA families were significantly downregulated, and two miRNAs belonging to two conserved miRNA families were upregulated. Of seven non-conserved miRNAs with significantly altered expression, five were downregulated and two were upregulated. Furthermore, eight miRNAs were validated by qRT-PCR and their dynamic differential expressions were analyzed. In addition, 269 target genes of identified miRNAs were predicted and categorized by function. These results provide new insights into salt-responsive miRNAs in Populus.</AbstractText><CopyrightInformation>Copyright © 2012 Elsevier Masson SAS. All rights reserved.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Ren</LastName><ForeName>Yuanyuan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and Biotechnology, Beijing Forestry University, 100083 Beijing, People's Republic of China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Lei</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Yiyun</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Kang</LastName><ForeName>Xiangyang</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Zhiyi</ForeName><Initials>Z</Initials></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Yanwei</ForeName><Initials>Y</Initials></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>2012</Year><Month>11</Month><Day>06</Day></ArticleDate></Article><MedlineJournalInfo><Country>France</Country><MedlineTA>Biochimie</MedlineTA><NlmUniqueID>1264604</NlmUniqueID><ISSNLinking>0300-9084</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D035683">MicroRNAs</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012492">Salts</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D017124" MajorTopicYN="N">Conserved Sequence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName><QualifierName UI="Q000187" MajorTopicYN="N">drug effects</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059014" MajorTopicYN="Y">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="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000187" MajorTopicYN="Y">drug effects</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000502" MajorTopicYN="N">physiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D015203" MajorTopicYN="N">Reproducibility of Results</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012492" MajorTopicYN="N">Salts</DescriptorName><QualifierName UI="Q000494" MajorTopicYN="Y">pharmacology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017423" MajorTopicYN="Y">Sequence Analysis, RNA</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D013312" MajorTopicYN="N">Stress, Physiological</DescriptorName><QualifierName UI="Q000187" MajorTopicYN="N">drug effects</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2012</Year><Month>07</Month><Day>17</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2012</Year><Month>10</Month><Day>30</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2012</Year><Month>11</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2012</Year><Month>11</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2013</Year><Month>8</Month><Day>30</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">23142627</ArticleId><ArticleId IdType="pii">S0300-9084(12)00441-5</ArticleId><ArticleId IdType="doi">10.1016/j.biochi.2012.10.025</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country><settlement><li>Pékin</li></settlement></list><tree><noCountry><name sortKey="Chen, Lei" sort="Chen, Lei" uniqKey="Chen L" first="Lei" last="Chen">Lei Chen</name><name sortKey="Kang, Xiangyang" sort="Kang, Xiangyang" uniqKey="Kang X" first="Xiangyang" last="Kang">Xiangyang Kang</name><name sortKey="Wang, Yanwei" sort="Wang, Yanwei" uniqKey="Wang Y" first="Yanwei" last="Wang">Yanwei Wang</name><name sortKey="Zhang, Yiyun" sort="Zhang, Yiyun" uniqKey="Zhang Y" first="Yiyun" last="Zhang">Yiyun Zhang</name><name sortKey="Zhang, Zhiyi" sort="Zhang, Zhiyi" uniqKey="Zhang Z" first="Zhiyi" last="Zhang">Zhiyi Zhang</name></noCountry><country name="République populaire de Chine"><noRegion><name sortKey="Ren, Yuanyuan" sort="Ren, Yuanyuan" uniqKey="Ren Y" first="Yuanyuan" last="Ren">Yuanyuan Ren</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PoplarV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 002642 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 002642 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= PoplarV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:23142627
|texte= Identification and characterization of salt-responsive microRNAs in Populus tomentosa by high-throughput sequencing.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:23142627" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PoplarV1
| This area was generated with Dilib version V0.6.37. |  |