期刊
MOLECULAR BIOLOGY REPORTS
卷 39, 期 2, 页码 2031-2038出版社
SPRINGER
DOI: 10.1007/s11033-011-0950-8
关键词
microRNA; High-throughput sequencing; miRNA precursor; Metabolism; Mechanism
资金
- National Natural Science Foundation of China [30871393, 30900836, 60971021]
- Tsinghua National Laboratory for Information Science and Technology (TNList) Cross-discipline Foundation
- Innovation Project for Graduate Students of Jiangsu Province [CX10B_081Z]
- Scientific Research Foundation of Graduate School of Southeast University [201001095]
- Southeast University [KJ2010442]
The small non-coding important regulatory molecules, microRNAs (miRNAs), have been widely and deeply studied especially combining high-throughput sequencing technologies. Here, we attempted to track detailed miRNA precursor metabolic products and gain further insight into pre-miRNA processing by completely analyzing high-throughput sequencing data. Highly expressed miRNA precursors could be entirely covered by various short RNAs and small RNA fragments with a hierarchical distribution. miRNAs and some miRNA* regions were detected quite abundant short RNAs as expected, while other regions of precursors were found shorter RNAs or small fragments with fewer sequence counts. Furthermore, we developed a method to analyze relative expression levels of special RNA classes according to divergence of 5' and 3' ends, respectively. Generally, there were several quite abundant RNA classes from a given miRNA locus, which suggested dominant cleavage sites of Drosha and Dicer during pre-miRNA processing. Compared with 3' end, dominant cleavage site in 5' end always focused on a specific position, which ensured conservation of the identity of miRNA (5'-seed sequence, nucleotides 2-8). Overall, a comprehensive analysis of sequencing data can be used to track pre-miRNA metabolic products and mechanism of pre-miRNA processing and metabolism.
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