Identification of miRNAs and their targets from Brassica napus by high-throughput sequencing and degradome analysis

BMC Genomics

Research Article

Lan Zhang¹  Yan Z Luo¹  Lei Wang¹  Miao Y Xu¹  Qiu X Zhang¹  Yun L Fan¹  Jie Sun²  Yun Dong³ 

[1] Biotechnology Research Institute, National Key Facility of Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, 100081, Beijing, China;College of Agriculture/Key Laboratory of Oasis Ecology Agriculture of BINTUAN, Shihezi University, 832003, Shihezi, China;College of Agriculture/Key Laboratory of Oasis Ecology Agriculture of BINTUAN, Shihezi University, 832003, Shihezi, China;Biotechnology Research Institute, National Key Facility of Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, 100081, Beijing, China;Crops institute, Gansu Academy of Agricultural Sciences, 730070, Lanzhou, China;

关键词: miRNA Target;    miRNA Family;    Plant miRNAs;    Solexa Sequencing;    Genomic Survey Sequence;   

DOI  :  10.1186/1471-2164-13-421

 received in 2011-09-17, accepted in 2012-07-25,  发布年份 2012

来源: Springer

【 摘 要 】

BackgroundMicroRNAs (miRNAs) are endogenous regulators of a broad range of physiological processes and act by either degrading mRNA or blocking its translation. Oilseed rape (Brassica napus) is one of the most important crops in China, Europe and other Asian countries with publicly available expressed sequence tags (ESTs) and genomic survey sequence (GSS) databases, but little is known about its miRNAs and their targets. To date, only 46 miRNAs have been identified in B. napus.ResultsForty-one conserved and 62 brassica-specific candidate B. napus miRNAs, including 20 miRNA* sequences, were identified using Solexa sequencing technology. Furthermore, 33 non-redundant mRNA targets of conserved brassica miRNAs and 19 new non-redundant mRNA targets of novel brassica-specific miRNAs were identified by genome-scale sequencing of mRNA degradome.ConclusionsThis study describes large scale cloning and characterization of B. napus miRNAs and their potential targets, providing the foundation for further characterization of miRNA function in the regulation of diverse physiological processes in B. napus.

【 授权许可】

Unknown   
© Xu et al.; licensee BioMed Central Ltd. 2012. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.