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Open AccessArticle

Transcriptome Analysis of Long Non-Coding RNA in the Bovine Mammary Gland Following Dietary Supplementation with Linseed Oil and Safflower Oil

1
Agriculture and Agri-Food Canada, Sherbrooke Research and Development Centre, Sherbrooke, QC J1M 0C8, Canada
2
College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China
3
Department of Animal Science, McGill University, Ste-Anne-De-Bellevue, QC H9X 3V9, Canada
*
Author to whom correspondence should be addressed.
Int. J. Mol. Sci. 2018, 19(11), 3610; https://doi.org/10.3390/ijms19113610
Received: 9 October 2018 / Revised: 1 November 2018 / Accepted: 2 November 2018 / Published: 15 November 2018
(This article belongs to the Special Issue Nutrition Genomics)
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 cis 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 cis targeted 59 and 494 genes in LSO and SFO treatments, respectively. Enrichments of cis 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 (KCNF1, STARD13, BCL6, NXPE2, HHIPL2 and MMD) were identified as potential cis 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. View Full-Text
Keywords: long non-coding RNA; bovine mammary gland; linseed oil; safflower oil; lipid metabolism; fatty acid synthesis; cis-regulation long non-coding RNA; bovine mammary gland; linseed oil; safflower oil; lipid metabolism; fatty acid synthesis; cis-regulation
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Ibeagha-Awemu, E.M.; Li, R.; Dudemaine, P.-L.; Do, D.N.; Bissonnette, N. Transcriptome Analysis of Long Non-Coding RNA in the Bovine Mammary Gland Following Dietary Supplementation with Linseed Oil and Safflower Oil. Int. J. Mol. Sci. 2018, 19, 3610.

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