Jiang Lan, Yang Qiao, Yu Jianqiu, Liu Xuanzhen, Cai Yansen, Niu Lili, Li Jing
Key Laboratory of Bio-Resources and Eco-Environment (Ministry of Education), College of Life Sciences, Sichuan University, Chengdu, 610065, Sichuan, China.
Institute of Wild Animals, The Chengdu Zoo, Chengdu, China.
Funct Integr Genomics. 2021 Nov;21(5-6):543-555. doi: 10.1007/s10142-021-00797-6. Epub 2021 Jul 21.
Long non-coding RNA (lncRNA) represents a new direction to identify expression profiles and regulatory mechanisms in various organisms. Here, we report the first dataset of lncRNAs of the golden snub-nosed monkey (GSM), including 12,557 putative lncRNAs identified from seven organs. Compared with mRNA, GSM lncRNA had fewer exons and isoforms, and longer length. LncRNA showed more obvious tissue-specific expression than mRNA. However, for the top ten most abundant genes in each organ, mRNAs expression was more tissue-specific than lncRNAs. By identification of specifically expressed lncRNAs and mRNAs in each organ, it indicates that the expression of SEG-lncRNA (specifically expressed lncRNA) and SEG-mRNA (specifically expressed mRNA) had high correlation. In particular, combined our lncRNA and mRNA data, we identified 92 heart SEG-lncRNAs targeted ten mRNA genes in the oxidative phosphorylation pathway and upregulated the expression of these target genes such as ND4, ATP6, and ATP8. These may contribute to GSM adaption to its high-elevation environment. We also identified 171 liver SEG-lncRNAs, which targeted 27 genes associated with the metabolism of xenobiotics and leaded to high expression of these target genes in liver. These lncRNAs may play important roles in GSM adaptation to a folivory diet.
长链非编码RNA（lncRNA）代表了在各种生物体中识别表达谱和调控机制的新方向。在此，我们报告了金丝猴lncRNAs的首个数据集，其中包括从七个器官中鉴定出的12557个假定lncRNAs。与mRNA相比，金丝猴lncRNA的外显子和异构体较少，长度更长。lncRNA的组织特异性表达比mRNA更明显。然而，对于每个器官中表达量最高的前十个基因，mRNA的表达比lncRNA具有更强的组织特异性。通过鉴定每个器官中特异性表达的lncRNAs和mRNAs，发现特异性表达的lncRNA（SEG-lncRNA）和特异性表达的mRNA（SEG-mRNA）的表达具有高度相关性。特别是，结合我们的lncRNA和mRNA数据，我们鉴定出92个心脏SEG-lncRNAs靶向氧化磷酸化途径中的10个mRNA基因，并上调了这些靶基因（如ND4、ATP6和ATP8）的表达。这些可能有助于金丝猴适应其高海拔环境。我们还鉴定出171个肝脏SEG-lncRNAs，它们靶向27个与外源性物质代谢相关的基因，并导致这些靶基因在肝脏中高表达。这些lncRNAs可能在金丝猴适应食叶饮食中发挥重要作用。
