威九国际

图1 全转录组测序分析流程图

图1 ceRNA机制示意图

经典案例

全基因组范围筛选和功能分析鉴定大量的产量相关的水稻lncRNA Genome Biology.2014.
Genome-wide screening and functional analysis identify a large number of long noncoding RNAs involved in the sexual reproduction of rice. Genome Biology.2014, doi: 10.1186/s13059-014-0512-1.

本文通过对水稻雄蕊、雌蕊、授粉5天后的种子和发芽14天后的嫩枝4个组织构建链特异文库、测序，结合水稻数据库中已有的35个样品的数据，全面分析水稻lncRNA 的结构特点及lncRNA与mRNA的ceRNA关系。作者共分析得到2224个水稻lncRNA，这些lncRNA与拟南芥及哺乳动物的lncRNA有所不同，且具有很强的组织及时空表达特异性。结合位点是miR160及miR164的ceRNA对也被发现，对应的lncRNA是XLOC_063639与XLOC_007072。分析结果还显示XLOC_057324（lncRNA）与水稻产量有重要关系。

图1  水稻lncRNA的结构特征

图2  水稻lncRNA的表达特异性及qPCR验证结果

图3 水稻ceRNA机制

推荐文献

[1] Endogenous microRNA sponges: evidence and controversy. Nat Rev Genet. 2016, doi: 10.1038/nrg.2016.20.

[2] The BRAF pseudogene functions as a competitive endogenous RNA and induces lymphoma in vivo. Cell. 2015, doi: 10.1016/j.cell.2015.02.043.

[3] Competing endogenous RNA: A novel posttranscriptional regulatory dimension associated with the progression of cancer. Oncol Lett. 2015, DOI: 10.3892/ol.2015.3698.

[4] Deep RNA sequencing reveals dynamic regulation of myocardial noncoding RNAs in failing human heart and remodeling with mechanical circulatory support. Circulation.2014, doi: 10.1161/CIRCULATIONAHA.113.003863.

[5] Emerging roles of competing endogenous RNAs in cancer: insights from the regulation of PTEN. Mol Cell Biol. 2013, doi: 10.1128/MCB.00683-13.

[6] A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language? Cell. 2011, doi: 10.1016/j.cell.2011.07.014.