Screening for possible miRNA–mRNA associations in a colon cancer cell line

MicroRNAs (miRNAs) are small non-coding RNAs mediating the regulation of gene expression in various biological contexts, including carcinogenesis. Here, we screened putative associations between 34, 45, and 103 miRNAs and 164, 391, and 81 mRNAs via Argonaute1 (Ago1) or Ago2 immunoprecipitation (IP) experiments in a colon cancer cell line. We used a combination of RIP Seq analysis. RNAs that were co-immunoprecipitated with Ago1 or Ago2 were used for massively parallel small RNA and mRNA sequencing. The detected miRNAs and mRNAs were further associated with one another based on in silico target predictions. Analysis of the putative associations indicated that, although Ago1 and Ago2 shared a similar repertory of miRNAs, the mRNAs possibly regulated by those miRNAs seemed different. The mRNAs detected with Ago1 IP were indicated to be frequently associated with genes having constitutive cellular functions, regulated by a smaller number of miRNAs, and appeared to receive more stringent translational regulation. In contrast, putative miRNA-mRNA associations detected with Ago2 IP appeared to be related to signal transduction genes, which had a larger number of possible miRNA binding sites. We then conducted a similar analysis using the colon cancer cells cultured under hypoxia and identified potential hypoxia-induced miRNA-mRNA associations, which included several well-characterized cancer-related genes as novel putative miRNA targets.     

miRNA的研究进展

微小RNAs(microRNAs,miRNAs)是一类长度在22nt左右、能调节mRNAs表达的非编码RNA基因产物。miRNAs最初在线虫体内被发现,广泛存在于真核生物体内,对于生物体的发育等诸多方面有调节作用,并在进化中保守。miRNAs作用机制尚不完全清楚,但已知其能通过与mRNAs的3′非翻译区结合而影响翻译水平。部分miRNAs可以行使类似siRNAs的作用。本文就miRNAs的生物发生、作用机制、应用方向等研究进展作一综述。相信对miRNAs的深入认识将为基因功能研究提供新思路,同时也将为基因操作技术提供新的手段。