BACKGROUND: DNA methylation is a frequently studied epigenetic modification due to its role in regulating gene expression and hence in biological processes and in determining phenotypic plasticity in organisms. Rudimentary DNA methylation patterns for some livestock species are publically available: among these, goat methylome deserves to be further explored. RESULTS: Genome-wide DNA methylation maps of the hypothalamus and ovary from Saanen goats were generated using Methyl-CpG binding domain protein sequencing (MBD-seq). Analysis of DNA methylation patterns indicate that the majority of methylation peaks found within genes are located gene body regions, for both organs. Analysis of the distribution of methylated sites per chromosome showed that chromosome X had the lowest number of methylation peaks. The X chromosome has one of the highest percentages of methylated CpG islands in both organs, and approximately 50% of the CpG islands in the goat epigenome are methylated in hypothalamus and ovary. Organ-specific Differentially Methylated Genes (DMGs) were correlated with the expression levels. CONCLUSIONS: The comparison between transcriptome and methylome in hypothalamus and ovary showed that a higher level of methylation is not accompanied by a higher gene suppression. The genome-wide DNA methylation map for two goat organs produced here is a valuable starting point for studying the involvement of epigenetic modifications in regulating goat reproduction performance.

Genome-wide analysis of DNA methylation in hypothalamus and ovary of Capra hircus / S. Frattini, E. Capra, B. Lazzari, S.D. Mckay, B. Coizet, A. Talenti, D. Groppetti, P. Riccaboni, A. Pecile, S. Chessa, B. Castiglioni, J.L. Williams, G. Pagnacco, A. Stella, P. Crepaldi. - In: BMC GENOMICS. - ISSN 1471-2164. - 18:1(2017 Jun 23), pp. 476.1-476.9.

Genome-wide analysis of DNA methylation in hypothalamus and ovary of Capra hircus

S. Frattini
Primo
;
E. Capra
Secondo
;
B. Coizet;A. Talenti;D. Groppetti;P. Riccaboni;A. Pecile;S. Chessa;G. Pagnacco;P. Crepaldi
Ultimo
2017

Abstract

BACKGROUND: DNA methylation is a frequently studied epigenetic modification due to its role in regulating gene expression and hence in biological processes and in determining phenotypic plasticity in organisms. Rudimentary DNA methylation patterns for some livestock species are publically available: among these, goat methylome deserves to be further explored. RESULTS: Genome-wide DNA methylation maps of the hypothalamus and ovary from Saanen goats were generated using Methyl-CpG binding domain protein sequencing (MBD-seq). Analysis of DNA methylation patterns indicate that the majority of methylation peaks found within genes are located gene body regions, for both organs. Analysis of the distribution of methylated sites per chromosome showed that chromosome X had the lowest number of methylation peaks. The X chromosome has one of the highest percentages of methylated CpG islands in both organs, and approximately 50% of the CpG islands in the goat epigenome are methylated in hypothalamus and ovary. Organ-specific Differentially Methylated Genes (DMGs) were correlated with the expression levels. CONCLUSIONS: The comparison between transcriptome and methylome in hypothalamus and ovary showed that a higher level of methylation is not accompanied by a higher gene suppression. The genome-wide DNA methylation map for two goat organs produced here is a valuable starting point for studying the involvement of epigenetic modifications in regulating goat reproduction performance.
DNA methylation; Epigenetic; Goat; Hypothalamus; MBD-seq; Ovary; RNA-seq
Settore VET/03 - Patologia Generale e Anatomia Patologica Veterinaria
Settore VET/10 - Clinica Ostetrica e Ginecologia Veterinaria
Settore AGR/17 - Zootecnica Generale e Miglioramento Genetico
23-giu-2017
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/2434/512841
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