Genome-wide analysis for discovery of rice microRNAs reveals natural antisense microRNAs (nat-miRNAs)

被引：173

作者：

Lu, Cheng ^{[1
,2
]}

Jeong, Dong-Hoon ^{[1
,2
]}

Kulkarni, Karthik ^{[1
,2
]}

Pillay, Manoj ^{[1
,2
]}

Nobuta, Kan ^{[1
,2
]}

German, Rana ^{[1
,2
]}

Thatcher, Shawn R. ^{[1
,2
]}

Maher, Christopher ^{[3
,4
]}

Zhang, Lifang ^{[3
]}

Ware, Doreen ^{[3
,5
,6
]}

Liu, Bin ^{[7
]}

Cao, Xiaofeng ^{[7
]}

Meyers, Blake C. ^{[1
,2
]}

Green, Pamela J. ^{[1
,2
]}

机构：

[1] Univ Delaware, Dept Plant & Soil Sci, Newark, DE 19711 USA

[2] Univ Delaware, Delaware Biotechnol Inst, Newark, DE 19711 USA

[3] Cold Spring Harbor Lab, Cold Spring Harbor, NY 11724 USA

[4] SUNY Stony Brook, Dept Biomed Engn, Stony Brook, NY 11794 USA

[5] USDA, Agr Res Serv, N Atlantic Area Plant Soil, Ithaca, NY 14853 USA

[6] USDA, Agr Res Serv, Nutr Lab Res Unit, Ithaca, NY 14853 USA

[7] Chinese Acad Sci, Inst Genet & Dev Biol, Ctr Plant Gene Res, Beijing 100080, Peoples R China

来源：

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA | 2008年 / 105卷 / 12期

关键词：

high-throughput sequencing; siRNA; small RNA; massively parallel signature sequencing (MPSS);

D O I：

10.1073/pnas.0708743105

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Small RNAs (21-24 nt) are involved in gene regulation through translation inhibition, mRNA cleavage, or directing chromatin modifications. In rice, currently approximate to 240 microRNAs (miRNAs) have been annotated. We sequenced more than four million small RNAs from rice and identified another 24 miRNA genes. Among these, we found a unique class of miRNA that derive from natural cis-antisense transcript pairs. This configuration generates miRNAs that can perfectly match their targets. We provide evidence that the miRNAs function by inducing mRNA cleavage in the middle of their complementary site. Their production requires Dicer-like 1 (DCL1) activity, which is essential for canonical miRNA biogenesis. All of the natural antisense miRNAs (nat-miRNAs) identified in this study have large introns in their precursors that appear critical for nat-miRNA evolution and for the formation of functional miRNA loci. These findings suggest that other natural cis-antisense loci with similar exon-intron arrangements could be another source of miRNA genes.

引用

页码：4951 / 4956

页数：6

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