Multiple distinct small RNAs originate from the same microRNA precursors.
Identifieur interne : 003187 ( Main/Exploration ); précédent : 003186; suivant : 003188Multiple distinct small RNAs originate from the same microRNA precursors.
Auteurs : Weixiong Zhang [États-Unis] ; Shang Gao ; Xuefeng Zhou ; Jing Xia ; Padmanabhan Chellappan ; Xiang Zhou ; Xiaoming Zhang ; Hailing JinSource :
- Genome biology [ 1474-760X ] ; 2010.
Descripteurs français
- KwdFr :
- MESH :
- biosynthèse : microARN.
- génétique : Arabidopsis.
- métabolisme : ARN messager.
- ARN des plantes, Animaux, Humains, Hydrolyse, Régulation de l'expression des gènes, Séquence nucléotidique.
English descriptors
- KwdEn :
- MESH :
- chemical , biosynthesis : MicroRNAs.
- genetics : Arabidopsis.
- chemical , metabolism : RNA, Messenger.
- Animals, Base Sequence, Gene Expression Regulation, Humans, Hydrolysis, RNA, Plant.
Abstract
BACKGROUND
MicroRNAs (miRNAs), which originate from precursor transcripts with stem-loop structures, are essential gene expression regulators in eukaryotes.
RESULTS
We report 19 miRNA precursors in Arabidopsis that can yield multiple distinct miRNA-like RNAs in addition to miRNAs and miRNA*s. These miRNA precursor-derived miRNA-like RNAs are often arranged in phase and form duplexes with an approximately two-nucleotide 3'-end overhang. Their production depends on the same biogenesis pathway as their sibling miRNAs and does not require RNA-dependent RNA polymerases or RNA polymerase IV. These miRNA-like RNAs are methylated, and many of them are associated with Argonaute proteins. Some of the miRNA-like RNAs are differentially expressed in response to bacterial challenges, and some are more abundant than the cognate miRNAs. Computational and expression analyses demonstrate that some of these miRNA-like RNAs are potentially functional and they target protein-coding genes for silencing. The function of some of these miRNA-like RNAs was further supported by their target cleavage products from the published small RNA degradome data. Our systematic examination of public small-RNA deep sequencing data from four additional plant species (Oryza sativa, Physcomitrella patens, Medicago truncatula and Populus trichocarpa) and four animals (Homo sapiens, Mus musculus, Caenorhabditis elegans and Drosophila) shows that such miRNA-like RNAs exist broadly in eukaryotes.
CONCLUSIONS
We demonstrate that multiple miRNAs could derive from miRNA precursors by sequential processing of Dicer or Dicer-like proteins. Our results suggest that the pool of miRNAs is larger than was previously recognized, and miRNA-mediated gene regulation may be broader and more complex than previously thought.
DOI: 10.1186/gb-2010-11-8-r81
PubMed: 20696037
PubMed Central: PMC2945783
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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first="Xuefeng" last="Zhou">Xuefeng Zhou</name></author><author><name sortKey="Xia, Jing" sort="Xia, Jing" uniqKey="Xia J" first="Jing" last="Xia">Jing Xia</name></author><author><name sortKey="Chellappan, Padmanabhan" sort="Chellappan, Padmanabhan" uniqKey="Chellappan P" first="Padmanabhan" last="Chellappan">Padmanabhan Chellappan</name></author><author><name sortKey="Zhou, Xiang" sort="Zhou, Xiang" uniqKey="Zhou X" first="Xiang" last="Zhou">Xiang Zhou</name></author><author><name sortKey="Zhang, Xiaoming" sort="Zhang, Xiaoming" uniqKey="Zhang X" first="Xiaoming" last="Zhang">Xiaoming Zhang</name></author><author><name sortKey="Jin, Hailing" sort="Jin, Hailing" uniqKey="Jin H" first="Hailing" last="Jin">Hailing Jin</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2010">2010</date><idno type="RBID">pubmed:20696037</idno><idno type="pmid">20696037</idno><idno type="doi">10.1186/gb-2010-11-8-r81</idno><idno type="pmc">PMC2945783</idno><idno 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1045, Saint Louis, MO 63130</wicri:regionArea><placeName><region type="state">Missouri (État)</region></placeName></affiliation></author><author><name sortKey="Gao, Shang" sort="Gao, Shang" uniqKey="Gao S" first="Shang" last="Gao">Shang Gao</name></author><author><name sortKey="Zhou, Xuefeng" sort="Zhou, Xuefeng" uniqKey="Zhou X" first="Xuefeng" last="Zhou">Xuefeng Zhou</name></author><author><name sortKey="Xia, Jing" sort="Xia, Jing" uniqKey="Xia J" first="Jing" last="Xia">Jing Xia</name></author><author><name sortKey="Chellappan, Padmanabhan" sort="Chellappan, Padmanabhan" uniqKey="Chellappan P" first="Padmanabhan" last="Chellappan">Padmanabhan Chellappan</name></author><author><name sortKey="Zhou, Xiang" sort="Zhou, Xiang" uniqKey="Zhou X" first="Xiang" last="Zhou">Xiang Zhou</name></author><author><name sortKey="Zhang, Xiaoming" sort="Zhang, Xiaoming" uniqKey="Zhang X" first="Xiaoming" last="Zhang">Xiaoming Zhang</name></author><author><name sortKey="Jin, Hailing" sort="Jin, Hailing" uniqKey="Jin H" first="Hailing" last="Jin">Hailing Jin</name></author></analytic><series><title level="j">Genome biology</title><idno type="eISSN">1474-760X</idno><imprint><date when="2010" type="published">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals (MeSH)</term><term>Arabidopsis (genetics)</term><term>Base Sequence (MeSH)</term><term>Gene Expression Regulation (MeSH)</term><term>Humans (MeSH)</term><term>Hydrolysis (MeSH)</term><term>MicroRNAs (biosynthesis)</term><term>RNA, Messenger (metabolism)</term><term>RNA, Plant (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN des plantes (MeSH)</term><term>ARN messager (métabolisme)</term><term>Animaux (MeSH)</term><term>Arabidopsis (génétique)</term><term>Humains (MeSH)</term><term>Hydrolyse (MeSH)</term><term>Régulation de l'expression des gènes (MeSH)</term><term>Séquence nucléotidique (MeSH)</term><term>microARN (biosynthèse)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="biosynthesis" xml:lang="en"><term>MicroRNAs</term></keywords><keywords scheme="MESH" qualifier="biosynthèse" xml:lang="fr"><term>microARN</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Arabidopsis</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Arabidopsis</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>RNA, Messenger</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>ARN messager</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Base Sequence</term><term>Gene Expression Regulation</term><term>Humans</term><term>Hydrolysis</term><term>RNA, Plant</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>ARN des plantes</term><term>Animaux</term><term>Humains</term><term>Hydrolyse</term><term>Régulation de l'expression des gènes</term><term>Séquence nucléotidique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b></p><p>MicroRNAs (miRNAs), which originate from precursor transcripts with stem-loop structures, are essential gene expression regulators in eukaryotes.</p></div><div type="abstract" xml:lang="en"><p><b>RESULTS</b></p><p>We report 19 miRNA precursors in Arabidopsis that can yield multiple distinct miRNA-like RNAs in addition to miRNAs and miRNA*s. These miRNA precursor-derived miRNA-like RNAs are often arranged in phase and form duplexes with an approximately two-nucleotide 3'-end overhang. Their production depends on the same biogenesis pathway as their sibling miRNAs and does not require RNA-dependent RNA polymerases or RNA polymerase IV. These miRNA-like RNAs are methylated, and many of them are associated with Argonaute proteins. Some of the miRNA-like RNAs are differentially expressed in response to bacterial challenges, and some are more abundant than the cognate miRNAs. Computational and expression analyses demonstrate that some of these miRNA-like RNAs are potentially functional and they target protein-coding genes for silencing. The function of some of these miRNA-like RNAs was further supported by their target cleavage products from the published small RNA degradome data. Our systematic examination of public small-RNA deep sequencing data from four additional plant species (Oryza sativa, Physcomitrella patens, Medicago truncatula and Populus trichocarpa) and four animals (Homo sapiens, Mus musculus, Caenorhabditis elegans and Drosophila) shows that such miRNA-like RNAs exist broadly in eukaryotes.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSIONS</b></p><p>We demonstrate that multiple miRNAs could derive from miRNA precursors by sequential processing of Dicer or Dicer-like proteins. Our results suggest that the pool of miRNAs is larger than was previously recognized, and miRNA-mediated gene regulation may be broader and more complex than previously thought.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">20696037</PMID><DateCompleted><Year>2011</Year><Month>01</Month><Day>25</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1474-760X</ISSN><JournalIssue CitedMedium="Internet"><Volume>11</Volume><Issue>8</Issue><PubDate><Year>2010</Year></PubDate></JournalIssue><Title>Genome biology</Title><ISOAbbreviation>Genome Biol</ISOAbbreviation></Journal><ArticleTitle>Multiple distinct small RNAs originate from the same microRNA precursors.</ArticleTitle><Pagination><MedlinePgn>R81</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/gb-2010-11-8-r81</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">MicroRNAs (miRNAs), which originate from precursor transcripts with stem-loop structures, are essential gene expression regulators in eukaryotes.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">We report 19 miRNA precursors in Arabidopsis that can yield multiple distinct miRNA-like RNAs in addition to miRNAs and miRNA*s. These miRNA precursor-derived miRNA-like RNAs are often arranged in phase and form duplexes with an approximately two-nucleotide 3'-end overhang. Their production depends on the same biogenesis pathway as their sibling miRNAs and does not require RNA-dependent RNA polymerases or RNA polymerase IV. These miRNA-like RNAs are methylated, and many of them are associated with Argonaute proteins. Some of the miRNA-like RNAs are differentially expressed in response to bacterial challenges, and some are more abundant than the cognate miRNAs. Computational and expression analyses demonstrate that some of these miRNA-like RNAs are potentially functional and they target protein-coding genes for silencing. The function of some of these miRNA-like RNAs was further supported by their target cleavage products from the published small RNA degradome data. Our systematic examination of public small-RNA deep sequencing data from four additional plant species (Oryza sativa, Physcomitrella patens, Medicago truncatula and Populus trichocarpa) and four animals (Homo sapiens, Mus musculus, Caenorhabditis elegans and Drosophila) shows that such miRNA-like RNAs exist broadly in eukaryotes.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">We demonstrate that multiple miRNAs could derive from miRNA precursors by sequential processing of Dicer or Dicer-like proteins. Our results suggest that the pool of miRNAs is larger than was previously recognized, and miRNA-mediated gene regulation may be broader and more complex than previously thought.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Weixiong</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>Department of Computer Science and Engineering, Washington University in Saint Louis, Campus Box 1045, Saint Louis, MO 63130, USA. weixiong.zhang@wustl.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Gao</LastName><ForeName>Shang</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Xuefeng</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Xia</LastName><ForeName>Jing</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Chellappan</LastName><ForeName>Padmanabhan</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Xiang</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Xiaoming</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Jin</LastName><ForeName>Hailing</ForeName><Initials>H</Initials></Author></AuthorList><Language>eng</Language><GrantList CompleteYN="Y"><Grant><GrantID>R01 GM093008</GrantID><Acronym>GM</Acronym><Agency>NIGMS NIH HHS</Agency><Country>United States</Country></Grant><Grant><GrantID>R01GM093008-01</GrantID><Acronym>GM</Acronym><Agency>NIGMS NIH HHS</Agency><Country>United States</Country></Grant><Grant><GrantID>RC1AR058681-01</GrantID><Acronym>AR</Acronym><Agency>NIAMS NIH HHS</Agency><Country>United States</Country></Grant><Grant><GrantID>U54AI057160-07</GrantID><Acronym>AI</Acronym><Agency>NIAID NIH HHS</Agency><Country>United States</Country></Grant></GrantList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType 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MajorTopicYN="N">Animals</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017360" MajorTopicYN="N">Arabidopsis</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D001483" MajorTopicYN="N">Base Sequence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005786" MajorTopicYN="N">Gene Expression Regulation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006801" MajorTopicYN="N">Humans</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006868" MajorTopicYN="N">Hydrolysis</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D035683" MajorTopicYN="N">MicroRNAs</DescriptorName><QualifierName UI="Q000096" MajorTopicYN="Y">biosynthesis</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012333" MajorTopicYN="N">RNA, Messenger</DescriptorName><QualifierName UI="Q000378" 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uniqKey="Jin H" first="Hailing" last="Jin">Hailing Jin</name><name sortKey="Xia, Jing" sort="Xia, Jing" uniqKey="Xia J" first="Jing" last="Xia">Jing Xia</name><name sortKey="Zhang, Xiaoming" sort="Zhang, Xiaoming" uniqKey="Zhang X" first="Xiaoming" last="Zhang">Xiaoming Zhang</name><name sortKey="Zhou, Xiang" sort="Zhou, Xiang" uniqKey="Zhou X" first="Xiang" last="Zhou">Xiang Zhou</name><name sortKey="Zhou, Xuefeng" sort="Zhou, Xuefeng" uniqKey="Zhou X" first="Xuefeng" last="Zhou">Xuefeng Zhou</name></noCountry><country name="États-Unis"><region name="Missouri (État)"><name sortKey="Zhang, Weixiong" sort="Zhang, Weixiong" uniqKey="Zhang W" first="Weixiong" last="Zhang">Weixiong Zhang</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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