title: Genome-wide analysis of DNA methylation before-and after exercise in the thoroughbred horse with MeDIP-Seq.
abstract: Athletic performance is an important criteria used for the selection of superior horses. However, little is known about exercise-related epigenetic processes in the horse. DNA methylation is a key mechanism for regulating gene expression in response to environmental changes. We carried out comparative genomic analysis of genome-wide DNA methylation profiles in the blood samples of two different thoroughbred horses before and after exercise by methylated-DNA immunoprecipitation sequencing (MeDIP-Seq). Differentially methylated regions (DMRs) in the pre-and post-exercise blood samples of superior and inferior horses were identified. Exercise altered the methylation patterns. After 30 min of exercise, 596 genes were hypomethylated and 715 genes were hypermethylated in the superior horse, whereas in the inferior horse, 868 genes were hypomethylated and 794 genes were hypermethylated. These genes were analyzed based on gene ontology (GO) annotations and the exercise-related pathway patterns in the two horses were compared. After exercise, gene regions related to cell division and adhesion were hypermethylated in the superior horse, whereas regions related to cell signaling and transport were hypermethylated in the inferior horse. Analysis of the distribution of methylated CpG islands confirmed the hypomethylation in the gene-body methylation regions after exercise. The methylation patterns of transposable elements also changed after exercise. Long interspersed nuclear elements (LINEs) showed abundance of DMRs. Collectively, our results serve as a basis to study exercise-based reprogramming of epigenetic traits.
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Jeong-An
authors: JA
authors: Gim
authors: TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
authors: Chang Pyo
authors: CP
authors: Hong
authors: Genome Resource Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 305-806, Korea.
authors: Dae-Soo
authors: DS
authors: Kim
authors: TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
authors: Jae-Woo
authors: JW
authors: Moon
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Yuri
authors: Y
authors: Choi
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Jungwoo
authors: J
authors: Eo
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Yun-Jeong
authors: YJ
authors: Kwon
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Ja-Rang
authors: JR
authors: Lee
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Yi-Deun
authors: YD
authors: Jung
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Jin-Han
authors: JH
authors: Bae
authors: Division of Animal Genomics and Bioinformatics, National Institute of Animal Science, Rural Development Administration, Suwon 441-706, Korea.
authors: Bong-Hwan
authors: BH
authors: Choi
authors: TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
authors: Junsu
authors: J
authors: Ko
authors: TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
authors: Sanghoon
authors: S
authors: Song
authors: TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
authors: Kung
authors: K
authors: Ahn
authors: Department of Genetics, Human Genetics Institute of New Jersey, Rutgers, the State University of New Jersey, Piscataway, NJ 08854, USA.
authors: Hong-Seok
authors: HS
authors: Ha
authors: Department of Pathology, School of Medicine, and Institute of Biomedical Science and Technology, Konkuk University, Seoul 143-701, Korea.
authors: Young Mok
authors: YM
authors: Yang
authors: Department of Biotechnology, Hankyong National University, Anseong 456-749, Korea.
authors: Hak-Kyo
authors: HK
authors: Lee
authors: Department of Biotechnology, Hankyong National University, Anseong 456-749, Korea.
authors: Kyung-Do
authors: KD
authors: Park
authors: Department of Equine Sciences, Sorabol College, Gyeongju 780-711, Korea.
authors: Kyoung-Tag
authors: KT
authors: Do
authors: Department of Nanobiomedical Science and WCU Research Center, Dankook University, Cheonan 330-714, Korea.
authors: Kyudong
authors: K
authors: Han
authors: Research Center, Dongnam Institute of Radiological and Medical Science (DIRAMS), Busan 619-953, Korea.
authors: Joo Mi
authors: JM
authors: Yi
authors: Departments of Parasitology and Genetics, Kosin University College of Medicine, Busan 602-702, Korea.
authors: Hee-Jae
authors: HJ
authors: Cha
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Selvam
authors: S
authors: Ayarpadikannan
authors: Department of Animal Science, College of Life Sciences, Pusan National University, Miryang 627-702, Korea.
authors: Byung-Wook
authors: BW
authors: Cho
authors: TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.|BioMedical Engineering, UNIST, Ulsan 689-798, Korea.
authors: Jong
authors: J
authors: Bhak
authors: Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
authors: Heui-Soo
authors: HS
authors: Kim
mesh_terms: D000818:Animals; D001483:Base Sequence; D004247:DNA / Q000097:blood / Q000235:genetics; D019175:DNA Methylation; D057890:Epigenomics; D005260:Female; D063990:Gene Ontology; D006736:Horses / Q000235:genetics*; D008297:Male; D009043:Motor Activity / Q000235:genetics; D005082:Physical Exertion; D017422:Sequence Analysis, DNA; D012727:Sex Characteristics
chemical_list: D004247:DNA
keywords: DNA methylation; MeDIP-Seq; exercise; thoroughbred horse; transposable elements