G C A T T A C G G C A T genes Article Identification of Long Non-Coding RNAs Involved in Porcine Fat Deposition Using Two High-Throughput Sequencing Methods Yibing Liu 1, Ying Yu 1, Hong Ao 2, Fengxia Zhang 1, Xitong Zhao 1, Huatao Liu 1, Yong Shi 1 , Kai Xing 3,* and Chuduan Wang 1,* 1 Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China;
[email protected] (Y.L.);
[email protected] (Y.Y.);
[email protected] (F.Z.);
[email protected] (X.Z.);
[email protected] (H.L.);
[email protected] (Y.S.) 2 Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China;
[email protected] 3 Animal Science and Technology College, Beijing University of Agriculture, Beijing 102206, China * Correspondence:
[email protected] (K.X.);
[email protected] (C.W.) Abstract: Adipose is an important body tissue in pigs, and fatty traits are critical in pig production. The function of long non-coding RNA (lncRNA) in fat deposition and metabolism has been found in previous studies. In this study, we collected the adipose tissue of six Landrace pigs with contrast backfat thickness (nhigh = 3, nlow = 3), after which we performed strand-specific RNA sequencing (RNA-seq) based on pooling and biological replicate methods. Biological replicate and pooling RNA- Citation: Liu, Y.; Yu, Y.; Ao, H.; seq revealed 1870 and 1618 lncRNAs, respectively. Using edgeR, we determined that 1512 genes and Zhang, F.; Zhao, X.; Liu, H.; Shi, Y.; 220 lncRNAs, 2240 genes and 127 lncRNAs were differentially expressed in biological replicate and Xing, K.; Wang, C.