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Home / Equine Research Bank / Mol Cells / Genome-wide analysis of DNA methylation before-and after exe...
Molecules and cells2015; 38(3); 210-220; doi: 10.14348/molcells.2015.2138

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.
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Publication Date: 2015-01-30 PubMed ID: 25666347PubMed Central: PMC4363720DOI: 10.14348/molcells.2015.2138Google Scholar: Lookup
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  • Journal Article
  • Research Support
  • Non-U.S. Gov't

Summary

This research summary has been generated with artificial intelligence and may contain errors and omissions. Refer to the original study to confirm details provided. Submit correction.

This research investigates the genetic changes in thoroughbred horses before and after exercise. It discovered that exercise alters DNA methylation patterns, a process that controls gene expression, and these modifications vary between superior and inferior horses.

Methodology

  • The researchers utilized blood samples from two different thoroughbred horses (classified as superior and inferior) and conducted a comparative genomic analysis of these samples.
  • The study used methylated-DNA immunoprecipitation sequencing (MeDIP-Seq), an advanced technique to analyze and map methylation sites across the genome.
  • They analyzed the blood samples both before and after exercise to identify differentially methylated regions (DMRs) – areas of the DNA where methylation levels changed due to exercise.

Findings

  • Exercise altered the DNA methylation patterns in both horses. In the superior horse, post-exercise saw 596 genes hypomethylated (less methyl groups) and 715 genes hypermethylated (more methyl groups).
  • In the inferior horse, 868 genes were hypomethylated and 794 genes were hypermethylated post-exercise.
  • These findings suggest that exercise has a distinct impact on the DNA methylation profiles of the different horses.

Gene Ontology (GO) Annotations

  • The researchers further analyzed the genes based on their Gene Ontology (GO) annotations – a framework for describing genes’ functions.
  • This revealed that 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.

Impact on Transposable Elements

  • The DNA methylation patterns also influenced transposable elements, sequences in the DNA that can change their position.
  • After exercise, the study found an abundance of DMRs in long interspersed nuclear elements (LINEs) – a type of transposable element.
  • This suggests that exercise also has an impact on the dynamic elements of the genome.

Conclusion

  • The study concluded that exercise can lead to reprogramming of epigenetic traits in thoroughbred horses. Understanding this reprogramming is crucial as it could potentially influence the selection of superior horses for athletic performance.

Cite This Article

APA
Gim JA, Hong CP, Kim DS, Moon JW, Choi Y, Eo J, Kwon YJ, Lee JR, Jung YD, Bae JH, Choi BH, Ko J, Song S, Ahn K, Ha HS, Yang YM, Lee HK, Park KD, Do KT, Han K, Yi JM, Cha HJ, Ayarpadikannan S, Cho BW, Bhak J, Kim HS. (2015). Genome-wide analysis of DNA methylation before-and after exercise in the thoroughbred horse with MeDIP-Seq. Mol Cells, 38(3), 210-220. https://doi.org/10.14348/molcells.2015.2138

Publication

Molecules and cells
ISSN: 0219-1032
NlmUniqueID: 9610936
Country: Korea (South)
Language: English
Volume: 38
Issue: 3
Pages: 210-220

Researcher Affiliations

Gim, Jeong-An
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
Hong, Chang Pyo
  • TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
Kim, Dae-Soo
  • Genome Resource Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 305-806, Korea.
Moon, Jae-Woo
  • TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
Choi, Yuri
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
Eo, Jungwoo
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
Kwon, Yun-Jeong
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
Lee, Ja-Rang
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
Jung, Yi-Deun
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
Bae, Jin-Han
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
Choi, Bong-Hwan
  • Division of Animal Genomics and Bioinformatics, National Institute of Animal Science, Rural Development Administration, Suwon 441-706, Korea.
Ko, Junsu
  • TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
Song, Sanghoon
  • TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
Ahn, Kung
  • TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
Ha, Hong-Seok
  • Department of Genetics, Human Genetics Institute of New Jersey, Rutgers, the State University of New Jersey, Piscataway, NJ 08854, USA.
Yang, Young Mok
  • Department of Pathology, School of Medicine, and Institute of Biomedical Science and Technology, Konkuk University, Seoul 143-701, Korea.
Lee, Hak-Kyo
  • Department of Biotechnology, Hankyong National University, Anseong 456-749, Korea.
Park, Kyung-Do
  • Department of Biotechnology, Hankyong National University, Anseong 456-749, Korea.
Do, Kyoung-Tag
  • Department of Equine Sciences, Sorabol College, Gyeongju 780-711, Korea.
Han, Kyudong
  • Department of Nanobiomedical Science and WCU Research Center, Dankook University, Cheonan 330-714, Korea.
Yi, Joo Mi
  • Research Center, Dongnam Institute of Radiological and Medical Science (DIRAMS), Busan 619-953, Korea.
Cha, Hee-Jae
  • Departments of Parasitology and Genetics, Kosin University College of Medicine, Busan 602-702, Korea.
Ayarpadikannan, Selvam
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.
Cho, Byung-Wook
  • Department of Animal Science, College of Life Sciences, Pusan National University, Miryang 627-702, Korea.
Bhak, Jong
  • TBI, Theragen BiO Institute, TheragenEtex, Suwon 443-270, Korea.
  • BioMedical Engineering, UNIST, Ulsan 689-798, Korea.
Kim, Heui-Soo
  • Department of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea.

MeSH Terms

  • Animals
  • Base Sequence
  • DNA / blood
  • DNA / genetics
  • DNA Methylation
  • Epigenomics
  • Female
  • Gene Ontology
  • Horses / genetics
  • Male
  • Motor Activity / genetics
  • Physical Exertion
  • Sequence Analysis, DNA
  • Sex Characteristics

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