人足月胎盘长链非编码 RNA 的初步 RNA-Seq 分析。
Preliminary RNA-Seq Analysis of Long Non-Coding RNAs Expressed in Human Term Placenta.
机构信息
Department of Human Physiology, School of Medicine, Collegium Medicum, University of Warmia and Mazury in Olsztyn, 10-082 Olsztyn, Poland.
Department of Gynecology and Obstetrics, School of Medicine, Collegium Medicum, University of Warmia and Mazury in Olsztyn, 10-045 Olsztyn, Poland.
出版信息
Int J Mol Sci. 2018 Jun 27;19(7):1894. doi: 10.3390/ijms19071894.
Development of particular structures and proper functioning of the placenta are under the influence of sophisticated pathways, controlled by the expression of substantial genes that are additionally regulated by long non-coding RNAs (lncRNAs). To date, the expression profile of lncRNA in human term placenta has not been fully established. This study was conducted to characterize the lncRNA expression profile in human term placenta and to verify whether there are differences in the transcriptomic profile between the sex of the fetus and pregnancy multiplicity. RNA-Seq data were used to profile, quantify, and classify lncRNAs in human term placenta. The applied methodology enabled detection of the expression of 4463 isoforms from 2899 annotated lncRNA loci, plus 990 putative lncRNA transcripts from 607 intergenic regions. Those placentally expressed lncRNAs displayed features such as shorter transcript length, longer exon length, fewer exons, and lower expression levels compared to messenger RNAs (mRNAs). Among all placental transcripts, 175,268 were classified as mRNAs and 15,819 as lncRNAs, and 56,727 variants were discovered within unannotated regions. Five differentially expressed lncRNAs (HAND2-AS1, XIST, RP1-97J1.2, AC010084.1, TTTY15) were identified by a sex-bias comparison. Splicing events were detected within 37 genes and 4 lncRNA loci. Functional analysis of cis-related potential targets for lncRNAs identified 2021 enriched genes. It is presumed that the obtained data will expand the current knowledge of lncRNAs in placenta and human non-coding catalogs, making them more contemporary and specific.
特定结构的发育和胎盘的正常功能受到复杂途径的影响,这些途径受大量基因表达的控制,而这些基因的表达又受到长非编码 RNA(lncRNA)的额外调节。迄今为止,人类足月胎盘中 lncRNA 的表达谱尚未完全确定。本研究旨在描绘人类足月胎盘中 lncRNA 的表达谱,并验证胎儿性别和妊娠多胎之间是否存在转录组谱的差异。RNA-Seq 数据用于对人类足月胎盘中的 lncRNA 进行特征分析、定量和分类。所应用的方法学能够检测到 2899 个注释 lncRNA 基因座中的 4463 个亚型以及 607 个基因间区域中的 990 个推定 lncRNA 转录本的表达。与信使 RNA(mRNA)相比,这些胎盘表达的 lncRNA 具有较短的转录本长度、较长的外显子长度、较少的外显子和较低的表达水平。在所有胎盘转录本中,有 175268 个被归类为 mRNA,15819 个被归类为 lncRNA,在未注释区域发现了 56727 个变体。通过性别偏差比较,鉴定了 5 个差异表达的 lncRNA(HAND2-AS1、XIST、RP1-97J1.2、AC010084.1、TTTY15)。在 37 个基因和 4 个 lncRNA 基因座中检测到剪接事件。对 lncRNA 顺式相关潜在靶基因的功能分析确定了 2021 个富集基因。据推测,获得的数据将扩展胎盘和人类非编码目录中 lncRNA 的现有知识,使它们更加现代和具体。