구.농수식품
제주대학교
Abstract
M. Ghosh1,†, S. S. Sodhi1,†, K.-D. Song2, J. H. Kim1, R. K. Mongre1, N. Sharma1, N. K. Singh3, S. W. Kim4, H. K. Lee2 and D. K. Jeong1,5,*
1 Department of Animal Biotechnology, Faculty of Biotechnology, Jeju National University, Jeju, Korea
2 The Animal Genomics and Breeding Center, Hankyong National University, Anseong-si, Gyeonggi-do, Korea
3 Laboratary of Stem Cell & Regenerative Biotechnology, College of Animal Life Sciences, Kangwon National University, Chuncheon-si, Korea
4 Animal Genetic Resource Station, National Institute of Animal Science, Namwon-si, South Korea
5 Sustainable Agriculture Research Institute, Jeju National University, Jeju, Korea
† These authors contributed equally to this paper.
* Address for correspondence
Prof. D. K. Jeong, Department of Animal Biotechnology, Faculty of Biotechnology, Jeju National University, Ara-1 Dong, Jeju-Si, Jeju-Do 690-756, South Korea.
Summary
This study was carried out with the objective to investigate the differentially expressed genes (DEGs) between Jeju native pig (JNP) and Berkshire piglets. The RNA-Seq technique was used to investigate the transcriptomes in the fat, liver and longissimus dorsi muscle from these two breeds. Paired-end reads of the sequences that passed the quality filters were aligned to the Sus scrofa genome using tophat2 (v2.0.2). In this study, 65% of muscle, 20% of fat and 54% of liver genes showed higher expression in the piglets of JNP than in Berkshire. Gene Ontology and signaling pathways showed that immune response and lipid metabolisms were commonly enriched pathways in all three tissues. It was found that the genes pertaining to body growth and immune system are significantly (P < 0.01) more highly expressed in Berkshire piglets. DEGs explored between the piglets of the two breeds might influence the identification of the genetic markers for further breed improvement programs. Our findings provide a new perspective for understanding and identifying candidate genes that are involved in various biological functions. Moreover, transcriptome analysis makes it easier to understand the differences between genetic mechanisms of breeds.
Keywords: differentially expressed genes; Gene Ontology; RNA-Seq; transcriptome
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