Identification, evolution, and expression partitioning of miRNAs in allopolyploid Brassica napus.
Identifieur interne : 002675 ( PubMed/Corpus ); précédent : 002674; suivant : 002676Identification, evolution, and expression partitioning of miRNAs in allopolyploid Brassica napus.
Auteurs : Enhui Shen ; Jun Zou ; Falk Hubertus Behrens ; Li Chen ; Chuyu Ye ; Shutao Dai ; Ruiyan Li ; Meng Ni ; Xiaoxue Jiang ; Jie Qiu ; Yang Liu ; Weidi Wang ; Qian-Hao Zhu ; Boulos Chalhoub ; Ian Bancroft ; Jinling Meng ; Daguang Cai ; Longjiang FanSource :
- Journal of experimental botany [ 1460-2431 ] ; 2015.
English descriptors
- KwdEn :
- MESH :
- chemical , biosynthesis : MicroRNAs, RNA, Plant.
- genetics : Brassica napus, Brassica rapa.
- Chromosome Mapping, Evolution, Molecular, Genome, Plant, Species Specificity.
Abstract
The recently published genome of Brassica napus offers for the first time the opportunity to gain insights into the genomic organization and the evolution of miRNAs in oilseed rape. In this study, 12 small RNA libraries from two B. napus cultivars (Tapidor and Ningyou7) and their four double-haploid lines were sequenced, employing the newly sequenced B. napus genome, together with genomes of its progenitors Brassica rapa and Brassica oleracea. A total of 645 miRNAs including 280 conserved and 365 novel miRNAs were identified. Comparative analysis revealed a high level of genomic conservation of MIRNAs (75.9%) between the subgenomes of B. napus and its two progenitors' genomes, and MIRNA lost/gain events (133) occurred in B. napus after its speciation. Furthermore, significant partitioning of miRNA expressions between the two subgenomes in B. napus was detected. The data of degradome sequencing, miRNA-mediated cleavage, and expression analyses support specific interactions between miRNAs and their targets in the modulation of diverse physiological processes in roots and leaves, as well as in biosynthesis of, for example, glucosinolates and lipids in oilseed rape. These data provide a first genome-wide view on the origin, evolution, and genomic organization of B. napus MIRNAs.
DOI: 10.1093/jxb/erv420
PubMed: 26357884
Links to Exploration step
pubmed:26357884Le document en format XML
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<term>Evolution, Molecular</term>
<term>Genome, Plant</term>
<term>MicroRNAs (biosynthesis)</term>
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<term>Species Specificity</term>
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<front><div type="abstract" xml:lang="en">The recently published genome of Brassica napus offers for the first time the opportunity to gain insights into the genomic organization and the evolution of miRNAs in oilseed rape. In this study, 12 small RNA libraries from two B. napus cultivars (Tapidor and Ningyou7) and their four double-haploid lines were sequenced, employing the newly sequenced B. napus genome, together with genomes of its progenitors Brassica rapa and Brassica oleracea. A total of 645 miRNAs including 280 conserved and 365 novel miRNAs were identified. Comparative analysis revealed a high level of genomic conservation of MIRNAs (75.9%) between the subgenomes of B. napus and its two progenitors' genomes, and MIRNA lost/gain events (133) occurred in B. napus after its speciation. Furthermore, significant partitioning of miRNA expressions between the two subgenomes in B. napus was detected. The data of degradome sequencing, miRNA-mediated cleavage, and expression analyses support specific interactions between miRNAs and their targets in the modulation of diverse physiological processes in roots and leaves, as well as in biosynthesis of, for example, glucosinolates and lipids in oilseed rape. These data provide a first genome-wide view on the origin, evolution, and genomic organization of B. napus MIRNAs.</div>
</front>
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<Abstract><AbstractText>The recently published genome of Brassica napus offers for the first time the opportunity to gain insights into the genomic organization and the evolution of miRNAs in oilseed rape. In this study, 12 small RNA libraries from two B. napus cultivars (Tapidor and Ningyou7) and their four double-haploid lines were sequenced, employing the newly sequenced B. napus genome, together with genomes of its progenitors Brassica rapa and Brassica oleracea. A total of 645 miRNAs including 280 conserved and 365 novel miRNAs were identified. Comparative analysis revealed a high level of genomic conservation of MIRNAs (75.9%) between the subgenomes of B. napus and its two progenitors' genomes, and MIRNA lost/gain events (133) occurred in B. napus after its speciation. Furthermore, significant partitioning of miRNA expressions between the two subgenomes in B. napus was detected. The data of degradome sequencing, miRNA-mediated cleavage, and expression analyses support specific interactions between miRNAs and their targets in the modulation of diverse physiological processes in roots and leaves, as well as in biosynthesis of, for example, glucosinolates and lipids in oilseed rape. These data provide a first genome-wide view on the origin, evolution, and genomic organization of B. napus MIRNAs.</AbstractText>
<CopyrightInformation>© The Author 2015. Published by Oxford University Press on behalf of the Society for Experimental Biology.</CopyrightInformation>
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<ForeName>Enhui</ForeName>
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<MeshHeadingList><MeshHeading><DescriptorName UI="D029688" MajorTopicYN="N">Brassica napus</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D029741" MajorTopicYN="N">Brassica rapa</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D002874" MajorTopicYN="N">Chromosome Mapping</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D019143" MajorTopicYN="N">Evolution, Molecular</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D035683" MajorTopicYN="N">MicroRNAs</DescriptorName>
<QualifierName UI="Q000096" MajorTopicYN="Y">biosynthesis</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018749" MajorTopicYN="N">RNA, Plant</DescriptorName>
<QualifierName UI="Q000096" MajorTopicYN="Y">biosynthesis</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D013045" MajorTopicYN="N">Species Specificity</DescriptorName>
</MeshHeading>
</MeshHeadingList>
<OtherID Source="NLM">PMC4765792</OtherID>
<KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Brassica napus</Keyword>
<Keyword MajorTopicYN="N">allopolyploid evolution</Keyword>
<Keyword MajorTopicYN="N">expression partitioning</Keyword>
<Keyword MajorTopicYN="N">microRNA.</Keyword>
</KeywordList>
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