Document Detail


A diverse set of microRNAs and microRNA-like small RNAs in developing rice grains.
MedLine Citation:
PMID:  18687877     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Endogenous small RNAs, including microRNAs (miRNAs) and short-interfering RNAs (siRNAs), function as post-transcriptional or transcriptional regulators in plants. miRNA function is essential for normal plant development and therefore is likely to be important in the growth of the rice grain. To investigate the roles of miRNAs in rice grain development, we carried out deep sequencing of the small RNA populations of rice grains at two developmental stages. In a data set of approximately 5.5 million sequences, we found representatives of all 20 conserved plant miRNA families. We used an approach based on the presence of miRNA and miRNA* sequences to identify 39 novel, nonconserved rice miRNA families expressed in grains. Cleavage of predicted target mRNAs was confirmed for a number of the new miRNAs. We identified a putative mirtron, indicating that plants may also use spliced introns as a source of miRNAs. We also identified a miRNA-like long hairpin that generates phased 21 nt small RNAs, strongly expressed in developing grains, and show that these small RNAs act in trans to cleave target mRNAs. Comparison of the population of miRNAs and miRNA-like siRNAs in grains to those in other parts of the rice plant reveals that many are expressed in an organ-specific manner.
Authors:
Qian-Hao Zhu; Andrew Spriggs; Louisa Matthew; Longjiang Fan; Gavin Kennedy; Frank Gubler; Chris Helliwell
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2008-08-07
Journal Detail:
Title:  Genome research     Volume:  18     ISSN:  1088-9051     ISO Abbreviation:  Genome Res.     Publication Date:  2008 Sep 
Date Detail:
Created Date:  2008-08-29     Completed Date:  2008-10-31     Revised Date:  2009-11-18    
Medline Journal Info:
Nlm Unique ID:  9518021     Medline TA:  Genome Res     Country:  United States    
Other Details:
Languages:  eng     Pagination:  1456-65     Citation Subset:  IM    
Affiliation:
CSIRO Plant Industry, Canberra, ACT 2601, Australia.
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MeSH Terms
Descriptor/Qualifier:
Base Sequence
Gene Expression Regulation, Plant
Genome, Plant
MicroRNAs / genetics*,  metabolism
Molecular Sequence Data
Nucleic Acid Conformation
Oryza sativa / genetics*,  metabolism
RNA, Plant / genetics*,  metabolism
RNA, Small Interfering / genetics,  metabolism
Sequence Analysis, RNA
Chemical
Reg. No./Substance:
0/MicroRNAs; 0/RNA, Plant; 0/RNA, Small Interfering
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