Abstract
3′ addition events in miRNAs are widely detected and may contribute to miRNA stability, but little is known about details of the events in miRNA gene clusters and families. Here, we performed a comprehensive analysis of isomiR expression patterns and 3′ additions in miRNA gene clusters and families by analyzing high-throughput sequencing dataset. According to dominant modified isomiRs, miRNA members in many miRNA gene clusters and families showed the same 3′ additional non-template nucleotides. Although clustered miRNAs and homologous miRNAs had consistent or inconsistent expression levels, we found many of them showed consistent expression patterns at isomiR levels. These findings revealed similar processing mechanism and 3′ modification event of miRNAs in gene clusters and families through miRNA maturation process. The consistent maturation mechanism may contribute to co-regulate biological processes, and may originate from ancestral miRNA genes through complex duplication history.
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Acknowledgments
The work was supported by the project 30871393 from National Natural Science Foundation of China and funded by Tsinghua National Laboratory for Information Science and Technology (TNList) Cross-discipline Foundation. The work was also supported by a research Grant from the Innovation Project for Graduate Student of Jiangsu Province (No. CX10B_081Z), the Scientific Research Foundation of Graduate School of Southeast University, Science and Technology Project in Nanjing (201001095) and Pre-Research Project for National Natural Science Foundation supported by Southeast University (KJ2010442).
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Li Guo, Hailing Li, and Tingming Liang contributed equally to this work.
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11033_2012_1493_MOESM1_ESM.tif
Fig. S1 The contribution of cross-mapping between homologous miRNAs. The three isomiRs can simultaneously map to hsa-miR-23a and hsa-miR-23b. (TIFF 34 kb)
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Guo, L., Li, H., Liang, T. et al. Consistent isomiR expression patterns and 3′ addition events in miRNA gene clusters and families implicate functional and evolutionary relationships. Mol Biol Rep 39, 6699–6706 (2012). https://doi.org/10.1007/s11033-012-1493-3
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DOI: https://doi.org/10.1007/s11033-012-1493-3