Skip to main content
SpringerLink
Log in

Genome-wide methylation changes are associated with muscle fiber density and drip loss in male three-yellow chickens

  • Published:
Molecular Biology Reports Aims and scope Submit manuscript

Abstract

In eukaryotes, DNA methylation is an important epigenetic modification involved in gene expression regulation. Meat quality traits are complicated traits that are controlled by many genes. Changes in the methylation levels of certain genes controlling meat quality traits will inevitably affect their expression levels, thereby affecting meat quality. The objectives of this study were to investigate the differences in the DNA methylation level in pectoral muscle tissues using fluorescent-labeled methylation sensitive amplified polymorphism and their relationships with meat quality traits in three-yellow chickens. The results showed that the differences in the DNA methylation level had a highly significant effect on muscle fiber density and drip loss (P < 0.01). However, no significant correlations were found between the DNA methylation levels and the other investigated traits (P > 0.05).

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3

Similar content being viewed by others

References

  1. Auclair G, Weber M (2012) Mechanisms of DNA methylation and demethylation in mammals. Biochimie 94:2202–2211

    Article  CAS  PubMed  Google Scholar 

  2. Yin H, Blanchard KL (2000) DNA methylation represses the expression of the human erythropoietin gene by two different mechanisms. Blood 95:111–119

    CAS  PubMed  Google Scholar 

  3. Bell JT, Pai AA, Pickrell JK, Gaffney DJ, Pique-Regi R, Degner JF, Gilad Y, Pritchard JK (2011) DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines. Genome Biol 12:R10

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  4. Nica AC, Parts L, Glass D, Nisbet J, Barrett A, Sekowska M, Travers M, Potter S, Grundberg E, Small KNica AC (2011) The architecture of gene regulatory variation across multiple human tissues: the MuTHER study. PLoS Genet 7:e1002003

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  5. Xu Q, Zhang Y, Sun D, Wang Y, Yu Y (2007) Analysis on DNA methylation of various tissues in chicken. Anim Biotechnol 18:231–241

    Article  CAS  PubMed  Google Scholar 

  6. Grunau C, Hindermann W, Rosenthal A (2000) Large-scale methylation analysis of human genomic DNA reveals tissue-specific differences between the methylation profiles of genes and pseudogenes. Hum Mol Genet 9:2651–2663

    Article  CAS  PubMed  Google Scholar 

  7. Yeivin A, Razin A (1993) Gene methylation patterns and expression. EXS 64:523–568

    CAS  PubMed  Google Scholar 

  8. Jiang C, Deng C, Xiong Y (2005) Relationship between individual DNA methylation percentage difference and carcass traits in pig. J Agri Biotechnol China 13:179–185

    CAS  Google Scholar 

  9. Rehfeldt C, Kuhn G (2006) Consequences of birth weight for postnatal growth performance and carcass quality in pigs as related tomyogenesis. J Anim Sci 84:113–123

    Google Scholar 

  10. Yang Chun, Zhang Mingjun, Niu Weiping, Yang Runjun, Zhang Yonghong, Qiu Zhengyan, Sun Boxing, Zhao Zhihui (2011) Analysis of DNA methylation in various swine tissues. PLoS ONE 6:e16229

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  11. Frommer M, McDonald LE, Millar DS, Collis CM, Watt F, Grigg GW, Molloy PL, Paul CL (1992) A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Proc Natl Acad Sci U S A 89:1827–1831

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  12. Cottrell SE (2004) Molecular diagnostic applications of DNA methylation technology. Clin Biochem 37:595–604

    Article  CAS  PubMed  Google Scholar 

  13. Shan XH, Li YD, Liu XM, Wu Y, Zhang MZ, Guo WL, Liu B, Yuan YP (2012) Comparative analyses of genetic/epigenetic diversities and structures in a wild barley species (Hordeum brevisubulatum) using MSAPSSAP and AFLP. Genet Mol Res 11:2749–2759

    Article  CAS  PubMed  Google Scholar 

  14. Mastan SG, Rathore MS, Bhatt VD, Yadav P, Chikara J (2012) Assessment of changes in DNA methylation by methylation-sensitive amplification polymorphism in Jatropha curcas L. subjected to salinity stress. Gene 508:125–129

    Article  CAS  PubMed  Google Scholar 

  15. Shiraishi M, Sekiguchi A, Oates AJ, Terry MJ, Miyamoto Y, Sekiya T (2004) Methyl-CpG binding domain column chromatography as a tool for the analysis of genomic DNA methylation. Anal Biochem 329:1–10

    Article  CAS  PubMed  Google Scholar 

  16. Suzuki MM, Bird A (2008) DNA methylation landscapes: provocative insights from epigenomics. Nat Rev Genet 9:465–476

    Article  CAS  PubMed  Google Scholar 

  17. Wilson IM, Davies JJ, Weber M, Brown CJ, Alvarez CE, MacAulay C, Schübeler D, Lam WL (2006) Epigenomics: mapping the methylome. Cell Cycle 5:155–158

    Article  CAS  PubMed  Google Scholar 

  18. Auclair Ghislain, Weber Michael (2012) Mechanisms of DNA methylation and demethylation in mammals. Biochimie 94:2202–2211

    Article  CAS  PubMed  Google Scholar 

  19. Cedar H (1988) DNA methylation and gene activity. Cell 53:3–4

    Article  CAS  PubMed  Google Scholar 

  20. Gama-Sosa MA, Midgett RM, Slagel VA, Githens S, Kuo KC, Gehrke CW, Ehrich M (1983) Tissue-specific differences in DNA methylation in various mammals. Biochim Biophys Acta 740:212–219

    Article  CAS  PubMed  Google Scholar 

  21. Mohandas T, Sparkes RS, Shapiro LJ (1981) Reactivation of an inactive human X chromosome:evidence for X inactivation by DNA methylation. Science 211:393–396

    Article  CAS  PubMed  Google Scholar 

  22. Li E, Beard C, Jaenisch R (1993) Role for DNA methylation in genomic imprinting. Nature 366:362–365

    Article  CAS  PubMed  Google Scholar 

  23. Zhang D, Li S, Tan Q, Pang Z (2012) Twin-based DNA methylation analysis takes the center stage of studies of human complex diseases. J Genet Genomics 39:581–586

    Article  CAS  PubMed  Google Scholar 

  24. Spisák S, Kalmár A, Galamb O, Wichmann B, Sipos F, Péterfia B, Csabai I, Kovalszky I, Semsey S, Tulassay Z, Molnár B (2012) Genome-wide screening of genes regulated by DNA methylation in colon cancer development. PLoS ONE 7:e46215

    Article  PubMed Central  PubMed  Google Scholar 

  25. Buchheit T, Van de Ven T, Shaw A (2012) Epigenetics and the transition from acute to chronic pain. Pain Med 13:1474–1490

    Article  PubMed Central  PubMed  Google Scholar 

  26. Razin A (1998) CpG methylation, chromatin structure and gene silencing—a three-way connection. EMBO J 17:4905–4908

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  27. Gokul G, Khosla S (2012) DNA methylation and cancer. Subcell Biochem. 61:597–625

    Article  Google Scholar 

  28. Gopalakrishnan S, van Emburgh BO, Robertson KD (2011) DNA methylation in development and human disease. Mutat Res 647:30–38

    Article  Google Scholar 

  29. Esteller M (2005) Aberrant DNA methylation as a cancer-inducing mechanism. Annu Rev Pharmacol Toxicol 45:629–656

    Article  CAS  PubMed  Google Scholar 

  30. Okano M, Bell DW, Haber DA, Li E (1999) DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell 99:247–257

    Article  CAS  PubMed  Google Scholar 

  31. Rlehardson BC (2002) Role of DNA methylation in the regulation of cell function: autoimmunity, agingandeaneer. J Nutr 132:2401S–2405S

    Google Scholar 

  32. Rönn T, Poulsen P, Hansson O, Holmkvist J, Almgren P, Nilsson P, Tuomi T, Isomaa B, Groop L, Vaag A, Ling C (2008) Age influenees DNA methylation and gene expression of COX7A1 in homan skeletal muscle. Diabetologia 51:1159–1168

    Article  PubMed  Google Scholar 

  33. Bollati V, Schwartz J, Wright R, Litonjua A, Tarantini L, Suh H, Sparrow D, Vokonas P, Baccarelli A (2009) Decline in genomic DNA methylation through aging in a cohort of elderly subjects. Mech Ageing Dev 130:234–239

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  34. Jang HJ, Lee MO, Kim S, Kim TH, Kim SK, Song G, Womack JE, Han JY (2013) Biallelic expression of the l-arginine:glycine amidinotransferase gene with different methylation status between male and female primordial germ cells in chickens. Poult Sci 92:760–769

    Article  CAS  PubMed  Google Scholar 

  35. Penaloza CG, Estevez B, Han DM, Norouzi M, Lockshin RA, Zakeri Z (2014) Sex-dependent regulation of cytochrome P450 family members Cyp1a1, Cyp2e1, and Cyp7b1 by methylation of DNA. FASEB J 28:966–977

    Google Scholar 

  36. Haggarty P (2012) Nutrition and the epigenome. Prog Mol Biol Transl Sci 108:427–446

    Article  CAS  PubMed  Google Scholar 

  37. Bottinelli R, Reggiani C (2000) Human skeletal muscle fibres: molecular and functional diversity. Prog Biophys Mol Biol 73:195–262

    Article  CAS  PubMed  Google Scholar 

  38. Seideman SC, Crouse JD (1986) The effects of sex condition, genotype and diet on bovine muscle characteristics. Meat Sci 17:55–72

    Article  CAS  PubMed  Google Scholar 

  39. Renand G, Picard B, Touraille C, Berge P, Lepetit J (2001) Relationships between muscle characteristics and meat quality traits of young Charolais bulls. Meat Sci 59:49–60

    Article  CAS  PubMed  Google Scholar 

  40. Lengerken G, Wicke M, Maak S (1997) Stress susceptibility and meat quality-situation and prospects in animal breeding and research. Arch Tierz 40:163–171

    Google Scholar 

  41. Lahbib-Mansais Y, Yerle M, Pinton P, Gellin J (1996) Chromosomal localization of homeobox genes and associated markers on porcine chromosomes 3,5,12,15,16 and 18: comparative mapping study with human and mouse. Mamm Genome 7:174–179

    Article  CAS  PubMed  Google Scholar 

  42. Goureau A, Garrigues A, Tosser-Klopp G, Lahbib-Mansais Y, Chardon P, Yerle M (2001) Conserved synteny and gene order difference between human chromosome 12 and pig chromosome 5. Cytogenet Cell Genet 94:49–54

    Article  CAS  PubMed  Google Scholar 

  43. Bertani GR, Johnson RK, Robic A, Pomp D (2003) Mapping of porcine ESTs obtained from the anterior pituitary. Anim Genet 34:132–134

    Article  CAS  PubMed  Google Scholar 

  44. Fontanesi L, Davoli R, Nanni Costa L, Scotti E, Russo V (2003) Study of candidate genes for glycolytic potential of porcine skeletal muscle: identification and analysis of mutations, linkage and physical mapping and association with meat quality traits in pigs. Cytogenet Genome Res 102:145–151

    Article  CAS  PubMed  Google Scholar 

  45. Cepica S, Yerle M, Stratil A, Schroffel J, Redl B (1999) Regional localization of porcine MYOD1, MYF5, LEP, UCP3 and LCN1 genes. Anim Genet 30:476–478

    CAS  PubMed  Google Scholar 

  46. Vykoukalova Z, Knoll A, Dvorak J, Rohrer GA, Cepica S (2003) Linkage and radiation hybrid mapping of the porcine MYF6 gene to chromosome 5. Anim Genet 34:238–240

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

This work is supported by the National Natural Science Foundation (30972085) and Program for Changjiang Scholars and Innovative Research Team in University (PCSIRT, No. IRT1248). We also appreciate and gratefully acknowledge the Jilin Academy of Agricultural Sciences for providing three-yellow chickens.

Author information

Authors and Affiliations

  1. College of Animal Science, Jilin University, Changchun, 130062, People’s Republic of China

    Yonghong Zhang, Jiang Guo, Yan Gao, Shuling Niu, Chun Yang, Chunyan Bai, Xianzhong Yu & Zhihui Zhao

Authors
  1. Yonghong Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Jiang Guo
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Yan Gao
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Shuling Niu
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Chun Yang
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Chunyan Bai
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Xianzhong Yu
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Zhihui Zhao
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding authors

Correspondence to Xianzhong Yu or Zhihui Zhao.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Zhang, Y., Guo, J., Gao, Y. et al. Genome-wide methylation changes are associated with muscle fiber density and drip loss in male three-yellow chickens. Mol Biol Rep 41, 3509–3516 (2014). https://doi.org/10.1007/s11033-014-3214-6

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11033-014-3214-6

Keywords

Search

Navigation