Genome-wide analysis of salt-responsive and novel microRNAs in Populus euphratica by deep sequencing.
Identifieur interne : 002211 ( Main/Exploration ); précédent : 002210; suivant : 002212Genome-wide analysis of salt-responsive and novel microRNAs in Populus euphratica by deep sequencing.
Auteurs : Jingna Si ; Tao Zhou ; Wenhao Bo ; Fang Xu ; Rongling WuSource :
- BMC genetics [ 1471-2156 ] ; 2014.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : MicroRNAs, RNA, Plant.
- genetics : Plant Leaves, Plant Roots, Populus, Stress, Physiological.
- Gene Library, High-Throughput Nucleotide Sequencing, Sodium Chloride.
Abstract
BACKGROUND
Populus euphratica is a representative model woody plant species for studying resistance to abiotic stresses such as drought and salt. Salt stress is one of the most common environmental factors that affect plant growth and development. MicroRNAs (miRNAs) are small, noncoding RNAs that have important regulatory functions in plant growth, development, and response to abiotic stress.
RESULTS
To investigate the miRNAs involved in the salt-stress response, we constructed four small cDNA libraries from P. euphratica plantlets treated with or without salt (300 mM NaCl, 3 days) in either the root or leaf. Using high-throughput sequencing to identify miRNAs, we found 164 conserved miRNAs belonging to 44 families. Of these, 136 novel miRNAs were from the leaf, and 128 novel miRNAs were from the root. In response to salt stress, 95 miRNAs belonging to 46 conserved miRNAs families changed significantly, with 56 miRNAs upregulated and 39 miRNAs downregulated in the leaf. A comparison of the leaf and root tissues revealed 155 miRNAs belonging to 63 families with significantly altered expression, including 84 upregulated and 71 downregulated miRNAs. Furthermore, 479 target genes in the root and 541 targets of novel miRNAs in the leaf were predicted, and functional information was annotated using the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes databases.
CONCLUSIONS
This study provides a novel visual field for understanding the regulatory roles of miRNAs in response to salt stress in Populus.
DOI: 10.1186/1471-2156-15-S1-S6
PubMed: 25079824
PubMed Central: PMC4118626
Affiliations:
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Salt stress is one of the most common environmental factors that affect plant growth and development. MicroRNAs (miRNAs) are small, noncoding RNAs that have important regulatory functions in plant growth, development, and response to abiotic stress.</p></div><div type="abstract" xml:lang="en"><p><b>RESULTS</b></p><p>To investigate the miRNAs involved in the salt-stress response, we constructed four small cDNA libraries from P. euphratica plantlets treated with or without salt (300 mM NaCl, 3 days) in either the root or leaf. Using high-throughput sequencing to identify miRNAs, we found 164 conserved miRNAs belonging to 44 families. Of these, 136 novel miRNAs were from the leaf, and 128 novel miRNAs were from the root. In response to salt stress, 95 miRNAs belonging to 46 conserved miRNAs families changed significantly, with 56 miRNAs upregulated and 39 miRNAs downregulated in the leaf. A comparison of the leaf and root tissues revealed 155 miRNAs belonging to 63 families with significantly altered expression, including 84 upregulated and 71 downregulated miRNAs. Furthermore, 479 target genes in the root and 541 targets of novel miRNAs in the leaf were predicted, and functional information was annotated using the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes databases.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSIONS</b></p><p>This study provides a novel visual field for understanding the regulatory roles of miRNAs in response to salt stress in Populus.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">25079824</PMID><DateCompleted><Year>2014</Year><Month>10</Month><Day>16</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1471-2156</ISSN><JournalIssue CitedMedium="Internet"><Volume>15 Suppl 1</Volume><PubDate><Year>2014</Year></PubDate></JournalIssue><Title>BMC genetics</Title><ISOAbbreviation>BMC Genet</ISOAbbreviation></Journal><ArticleTitle>Genome-wide analysis of salt-responsive and novel microRNAs in Populus euphratica by deep sequencing.</ArticleTitle><Pagination><MedlinePgn>S6</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/1471-2156-15-S1-S6</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Populus euphratica is a representative model woody plant species for studying resistance to abiotic stresses such as drought and salt. Salt stress is one of the most common environmental factors that affect plant growth and development. MicroRNAs (miRNAs) are small, noncoding RNAs that have important regulatory functions in plant growth, development, and response to abiotic stress.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">To investigate the miRNAs involved in the salt-stress response, we constructed four small cDNA libraries from P. euphratica plantlets treated with or without salt (300 mM NaCl, 3 days) in either the root or leaf. Using high-throughput sequencing to identify miRNAs, we found 164 conserved miRNAs belonging to 44 families. Of these, 136 novel miRNAs were from the leaf, and 128 novel miRNAs were from the root. In response to salt stress, 95 miRNAs belonging to 46 conserved miRNAs families changed significantly, with 56 miRNAs upregulated and 39 miRNAs downregulated in the leaf. A comparison of the leaf and root tissues revealed 155 miRNAs belonging to 63 families with significantly altered expression, including 84 upregulated and 71 downregulated miRNAs. Furthermore, 479 target genes in the root and 541 targets of novel miRNAs in the leaf were predicted, and functional information was annotated using the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes databases.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">This study provides a novel visual field for understanding the regulatory roles of miRNAs in response to salt stress in Populus.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Si</LastName><ForeName>Jingna</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Tao</ForeName><Initials>T</Initials></Author><Author ValidYN="Y"><LastName>Bo</LastName><ForeName>Wenhao</ForeName><Initials>W</Initials></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Fang</ForeName><Initials>F</Initials></Author><Author 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IdType="pubmed">15012199</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list></list><tree><noCountry><name sortKey="Bo, Wenhao" sort="Bo, Wenhao" uniqKey="Bo W" first="Wenhao" last="Bo">Wenhao Bo</name><name sortKey="Si, Jingna" sort="Si, Jingna" uniqKey="Si J" first="Jingna" last="Si">Jingna Si</name><name sortKey="Wu, Rongling" sort="Wu, Rongling" uniqKey="Wu R" first="Rongling" last="Wu">Rongling Wu</name><name sortKey="Xu, Fang" sort="Xu, Fang" uniqKey="Xu F" first="Fang" last="Xu">Fang Xu</name><name sortKey="Zhou, Tao" sort="Zhou, Tao" uniqKey="Zhou T" first="Tao" last="Zhou">Tao Zhou</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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