Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)

Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)

The terminal loop region of primary miRNA transcripts is an important determinant controlling miRNA function in human, animals and plants. However, the effects of polymorphisms in loop region of miRNA precusors on phenotypic variation have not been reported, especially on agronomic traits in rice. F...

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Main Authors: Wang, Chunming, Ye, Jian, Tang, Weijie, Liu, Zhiyi, Zhu, Chengsong, Wang, Maoqing, Wan, Jianmin
Format: Online
Language:English
Published: Ivyspring International Publisher 2013
Online Access:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3708038/
id pubmed-3708038
recordtype oai_dc
spelling pubmed-37080382013-07-11 Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.) Wang, Chunming Ye, Jian Tang, Weijie Liu, Zhiyi Zhu, Chengsong Wang, Maoqing Wan, Jianmin Research Paper The terminal loop region of primary miRNA transcripts is an important determinant controlling miRNA function in human, animals and plants. However, the effects of polymorphisms in loop region of miRNA precusors on phenotypic variation have not been reported, especially on agronomic traits in rice. From rice japonica variety Koshihikari and indica Guichao2, we isolated a precursor of putative miRNA osa-MIR2923a. We detected a GG/AA polymorphism in the loop structure from japonica and indica rice varieties, which was corresponding to japonica/indica rice differentiation. By using high-resolution melting (HRM) analysis, we measured the polymorphisms in a RIL (recombinant inbred lines) population derived from japonica variety Koshihikari and indica Guichao2. We found that the GG/AA polymorphism in the osa-MIR2923a loop was correlated to grain length and length-width ratio. We further found the significant association between seed length and GG/AA polymorphism in a population consisting of 72 rice landraces. Three targets were predicted, whose expressions showed significant differences between the two varieties. Our results suggested that the putative miRNA precursor and the three target genes could play functional roles for indica/japonica seed differentiation. Ivyspring International Publisher 2013-06-16 /pmc/articles/PMC3708038/ /pubmed/23847440 http://dx.doi.org/10.7150/ijbs.6357 Text en © Ivyspring International Publisher. This is an open-access article distributed under the terms of the Creative Commons License (http://creativecommons.org/licenses/by-nc-nd/3.0/). Reproduction is permitted for personal, noncommercial use, provided that the article is in whole, unmodified, and properly cited.
repository_type Open Access Journal
institution_category Foreign Institution
institution US National Center for Biotechnology Information
building NCBI PubMed
collection Online Access
language English
format Online
author Wang, Chunming
Ye, Jian
Tang, Weijie
Liu, Zhiyi
Zhu, Chengsong
Wang, Maoqing
Wan, Jianmin
spellingShingle Wang, Chunming
Ye, Jian
Tang, Weijie
Liu, Zhiyi
Zhu, Chengsong
Wang, Maoqing
Wan, Jianmin
Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)
author_facet Wang, Chunming
Ye, Jian
Tang, Weijie
Liu, Zhiyi
Zhu, Chengsong
Wang, Maoqing
Wan, Jianmin
author_sort Wang, Chunming
title Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)
title_short Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)
title_full Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)
title_fullStr Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)
title_full_unstemmed Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)
title_sort loop nucleotide polymorphism in a putative mirna precursor associated with seed length in rice (oryza sativa l.)
description The terminal loop region of primary miRNA transcripts is an important determinant controlling miRNA function in human, animals and plants. However, the effects of polymorphisms in loop region of miRNA precusors on phenotypic variation have not been reported, especially on agronomic traits in rice. From rice japonica variety Koshihikari and indica Guichao2, we isolated a precursor of putative miRNA osa-MIR2923a. We detected a GG/AA polymorphism in the loop structure from japonica and indica rice varieties, which was corresponding to japonica/indica rice differentiation. By using high-resolution melting (HRM) analysis, we measured the polymorphisms in a RIL (recombinant inbred lines) population derived from japonica variety Koshihikari and indica Guichao2. We found that the GG/AA polymorphism in the osa-MIR2923a loop was correlated to grain length and length-width ratio. We further found the significant association between seed length and GG/AA polymorphism in a population consisting of 72 rice landraces. Three targets were predicted, whose expressions showed significant differences between the two varieties. Our results suggested that the putative miRNA precursor and the three target genes could play functional roles for indica/japonica seed differentiation.
publisher Ivyspring International Publisher
publishDate 2013
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3708038/
_version_ 1611993922560589824

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