Genome-wide identification and characterization of microRNA genes and their targets in flax (Linum usitatissimum)

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DOIResolve DOI: http://doi.org/10.1007/s00425-012-1833-5
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TypeArticle
Journal titlePlanta
ISSN0032-0935
1432-2048
Volume237
Issue4
Pages11491161; # of pages: 13
SubjectLinseed; MiRNA; promoter analysis; digital expression analysis; gene cluster; MiRNA target transcript
AbstractMicroRNAs (miRNAs) are small (20–24 nucleotide long) endogenous regulatory RNAs that play important roles in plant growth and development. They regulate gene expression at the post-transcriptional level by translational repression or target degradation and gene silencing. In this study, we identified 116 conserved miRNAs belonging to 23 families from the flax (Linumusitatissimum L.) genome using a computational approach. The precursor miRNAs varied in length; while most of the mature miRNAs were 21 nucleotide long, intergenic and showed conserved signatures of RNA polymerase II transcripts in their upstream regions. Promoter region analysis of the flax miRNA genes indicated prevalence of MYB transcription factor binding sites. Four miRNA gene clusters containing members of three phylogenetic groups were identified. Further, 142 target genes were predicted for these miRNAs and most of these represent transcriptional regulators. The miRNA encoding genes were expressed in diverse tissues as determined by digital expression analysis as well as real-time PCR. The expression of fourteen miRNAs and nine target genes was independently validated using the quantitative reverse transcription PCR (qRTPCR). This study suggests that a large number of conserved plant miRNAs are also found in flax and these may play important roles in growth and development of flax.
Publication date
PublisherSpringer
LanguageEnglish
AffiliationNational Research Council Canada; Aquatic and Crop Resource Development
Peer reviewedYes
NRC number55472
NPARC number21268592
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Record identifier18c2abe4-821d-4649-9eec-19fe01d22738
Record created2013-10-25
Record modified2016-05-09
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