文献类型：期刊文献

英文题名：Genome-wide analysis of long non-coding RNAs at the mature stage of sea buckthorn (Hippophae rhamnoides Linn) fruit

作者：Zhang, Guoyun[1,2] Duan, Aiguo[1,2] Zhang, Jianguo[1,2,3] He, Caiyun[1,2]

第一作者：张国昀

通信作者：Zhang, JG[1];He, CY[1];Zhang, JG[2];He, CY[2];Zhang, JG[3]|[a0005b245645e47e67b16]何彩云;

机构：[1]Chinese Acad Forestry, State Key Lab Tree Genet & Breeding, Beijing, Peoples R China;[2]Chinese Acad Forestry, Key Lab Tree Breeding & Cultivat, State Forestry Adm, Res Inst Forestry, Beijing, Peoples R China;[3]Nanjing Forestry Univ, Collaborat Innovat Ctr Sustainable Forestry South, Nanjing, Jiangsu, Peoples R China

年份：2017

卷号：596

起止页码：130-136

外文期刊名：GENE

收录：;WOS:【SCI-EXPANDED(收录号:WOS:000389098800013)】；

语种：英文

外文关键词：Sea buckthorn; Fruit; lncRNAs; Transcriptome

摘要：Long non-coding RNAs (lncRNAs), which are >200 nt longer transcripts, potentially play important roles in almost all biological processes in plants and mammals. However, the functions and profiles of lncRNAs in fruit is less understood. Therefore, it is urgent and necessary to identify and analyze the functions of lncRNAs in sea buckthorns. Using RNA-sequencing, we synthetically identified lncRNAs in mature fruit from the red and yellow sea buckthorn. We obtained 567,778,938 clean reads from six samples and identified 3428 lncRNAs in mature fruit, including 2498 intergenic lncRNAs, 593 anti-sense lncRNAs, and 337 intronic lncRNAs. We also identified 3819 and 2295 circular RNAs in red and yellow sea buckthorn Fruit. In the aspects of gene architecture and expression, our results showed significant differences among the three lncRNA subtypes. We also investigated the effect of lncRNAs on its cis and trans target genes. Based on target genes analysis, we obtained 61 different expression lncRNAs (DE-lncRNAs) between these two sea buckthorns, including 23 special expression lncRNAs in red fruit and 22 special expression lncRNAs in yellow fruit. Importantly, we found a few DE-lncRNAs play cis and trans roles for genes in the Carotenoid biosynthesis, ascorbate and aldarate metabolism and fatty acid metabolism pathways. Our study provides a resource for lncRNA studies in mature fruit. It probably encourages researchers to deeply study fruit-coloring. It expands our knowledge about lncRNA biology and the annotation of the sea buckthorn genome. (C) 2016 Elsevier B.V. All rights reserved.