Journal
NATURE BIOTECHNOLOGY
Volume 30, Issue 3, Pages 253-+Publisher
NATURE PORTFOLIO
DOI: 10.1038/nbt.2122
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Funding
- National Basic Research Program of China (973 program) [2011CB809200, 2011CB809202, 2011CB809203]
- National Natural Science Foundation of China [30725008, 30890032, 30811130531]
- Chinese 863 program [2006AA02A302, 2009AA022707]
- Shenzhen Municipal Government of China
- Local Government of Yantian District of Shenzhen [JC200903190767A, JC200903190772A, ZYC200903240076A, CXB200903110066A, ZYC200903240077A, ZYC200903240080A]
- Danish Natural Science Research Council
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RNA editing is a post-transcriptional event that recodes hereditary information. Here we describe a comprehensive profile of the RNA editome of a male Han Chinese individual based on analysis of similar to 767 million sequencing reads from poly(A)(+), poly(A)(-) and small RNA samples. We developed a computational pipeline that carefully controls for false positives while calling RNA editing events from genome and whole-transcriptome data of the same individual. We identified 22,688 RNA editing events in noncoding genes and introns, untranslated regions and coding sequences of protein-coding genes. Most changes (similar to 93%) converted A to I(G), consistent with known editing mechanisms based on adenosine deaminase acting on RNA (ADAR). We also found evidence of other types of nucleotide changes; however, these were validated at lower rates. We found 44 editing sites in microRNAs (miRNAs), suggesting a potential link between RNA editing and miRNA-mediated regulation. Our approach facilitates large-scale studies to profile and compare editomes across a wide range of samples.
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