Agriculture and Agri-Food Canada, Sherbrooke Research and Development Centre, Sherbrooke, QC J1M 0C8, Canada.
College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China.
Int J Mol Sci. 2018 Nov 15;19(11):3610. doi: 10.3390/ijms19113610.
This study aimed to characterize the long non-coding RNA (lncRNA) expression in the bovine mammary gland and to infer their functions in dietary response to 5% linseed oil (LSO) or 5% safflower oil (SFO). Twelve cows (six per treatment) in mid lactation were fed a control diet for 28 days followed by a treatment period (control diet supplemented with 5% LSO or 5% SFO) of 28 days. Mammary gland biopsies were collected from each animal on day-14 (D-14, control period), D+7 (early treatment period) and D+28 (late treatment period) and were subjected to RNA-Sequencing and subsequent bioinformatics analyses. Functional enrichment of lncRNA was performed via potential regulated target genes located within 50 kb flanking regions of lncRNAs and having expression correlation of >0.7 with mRNAs. A total of 4955 lncRNAs (325 known and 4630 novel) were identified which potentially targeted 59 and 494 genes in LSO and SFO treatments, respectively. Enrichments of target genes of lncRNAs indicated potential roles of lncRNAs in immune function, nucleic acid metabolism and cell membrane organization processes as well as involvement in Notch, cAMP and TGF-β signaling pathways. Thirty-two and 21 lncRNAs were differentially expressed (DE) in LSO and SFO treatments, respectively. Six genes (, , , , and ) were identified as potential target genes of six DE lncRNAs. In conclusion, this study has identified lncRNAs with potential roles in mammary gland functions and potential candidate genes and pathways via which lncRNAs might function in response to LSO and SFA.
本研究旨在描述牛乳腺长链非编码 RNA（lncRNA）的表达，并推断它们在 5%亚麻籽油（LSO）或 5%红花油（SFO）饮食反应中的功能。12 头泌乳中期奶牛（每处理 6 头）先饲喂对照日粮 28 天，然后用对照日粮（补充 5%LSO 或 5%SFO）进行处理 28 天。在第-14 天（对照期，D-14）、D+7 天（早期处理期）和 D+28 天（晚期处理期），从每只动物的乳腺组织中采集活检样本，并进行 RNA 测序和随后的生物信息学分析。通过位于 lncRNA 侧翼区域 50kb 内的潜在调控靶基因，并与 mRNAs 的表达相关性>0.7，对 lncRNA 的功能进行富集。共鉴定出 4955 个 lncRNA（325 个已知和 4630 个新的），它们分别潜在地靶向 LSO 和 SFO 处理中的 59 和 494 个基因。lncRNA 靶基因的富集表明，lncRNA 可能在免疫功能、核酸代谢和细胞膜组织过程中发挥作用，并参与 Notch、cAMP 和 TGF-β 信号通路。在 LSO 和 SFO 处理中，分别有 32 个和 21 个 lncRNA 差异表达（DE）。鉴定出 6 个基因（、、、、和）作为 6 个 DE lncRNA 的潜在靶基因。总之，本研究通过鉴定在乳腺功能中具有潜在作用的 lncRNA，以及潜在的候选基因和途径，确定了 lncRNA 可能在 LSO 和 SFA 反应中发挥作用的 lncRNA。
