Whole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents

Milk fat and protein contents are among key elements of milk quality, and they are attracting more attention in response to consumers′ demand for high-quality dairy products. To investigate the potential regulatory roles of DNA methylation underlying milk component yield, whole genome bisulfite sequ...

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Autores principales:	Mengqi Wang, Nathalie Bissonnette, Pier-Luc Dudemaine, Xin Zhao, Eveline M. Ibeagha-Awemu
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	DNA methylation whole genome bisulfite sequencing mammary gland tissue Holstein cattle milk fat content milk protein content Genetics QH426-470
Acceso en línea:	https://doaj.org/article/cb24fa7b8adf4fae9df74fdacf0ff172
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spelling	oai:doaj.org-article:cb24fa7b8adf4fae9df74fdacf0ff1722021-11-25T17:41:18ZWhole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents10.3390/genes121117272073-4425https://doaj.org/article/cb24fa7b8adf4fae9df74fdacf0ff1722021-10-01T00:00:00Zhttps://www.mdpi.com/2073-4425/12/11/1727https://doaj.org/toc/2073-4425Milk fat and protein contents are among key elements of milk quality, and they are attracting more attention in response to consumers′ demand for high-quality dairy products. To investigate the potential regulatory roles of DNA methylation underlying milk component yield, whole genome bisulfite sequencing was employed to profile the global DNA methylation patterns of mammary gland tissues from 17 Canada Holstein cows with various milk fat and protein contents. A total of 706, 2420 and 1645 differentially methylated CpG sites (DMCs) were found between high vs. low milk fat (HMF vs. LMF), high vs. low milk protein (HMP vs. LMP), and high vs. low milk fat and protein (HMFP vs. LMFP) groups, respectively (<i>q</i> value < 0.1). Twenty-seven, 56 and 67 genes harboring DMCs in gene regions (denoted DMC genes) were identified for HMF vs. LMF, HMP vs. LMP and HMFP vs. LMFP, respectively. DMC genes from HMP vs. LMP and HMFP vs. LMFP comparisons were significantly overrepresented in GO terms related to aerobic electron transport chain and/or mitochondrial ATP (adenosine triphosphate) synthesis coupled electron transport. A total of 83 (HMF vs. LMF), 708 (HMP vs. LMP) and 408 (HMFP vs. LMFP) DMCs were co-located with 87, 147 and 158 quantitative trait loci (QTL) for milk component and yield traits, respectively. In conclusion, the identified methylation changes are potentially involved in the regulation of milk fat and protein yields, as well as the variation in reported co-located QTLs.Mengqi WangNathalie BissonnettePier-Luc DudemaineXin ZhaoEveline M. Ibeagha-AwemuMDPI AGarticleDNA methylationwhole genome bisulfite sequencingmammary gland tissueHolstein cattlemilk fat contentmilk protein contentGeneticsQH426-470ENGenes, Vol 12, Iss 1727, p 1727 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	DNA methylation whole genome bisulfite sequencing mammary gland tissue Holstein cattle milk fat content milk protein content Genetics QH426-470
spellingShingle	DNA methylation whole genome bisulfite sequencing mammary gland tissue Holstein cattle milk fat content milk protein content Genetics QH426-470 Mengqi Wang Nathalie Bissonnette Pier-Luc Dudemaine Xin Zhao Eveline M. Ibeagha-Awemu Whole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents
description	Milk fat and protein contents are among key elements of milk quality, and they are attracting more attention in response to consumers′ demand for high-quality dairy products. To investigate the potential regulatory roles of DNA methylation underlying milk component yield, whole genome bisulfite sequencing was employed to profile the global DNA methylation patterns of mammary gland tissues from 17 Canada Holstein cows with various milk fat and protein contents. A total of 706, 2420 and 1645 differentially methylated CpG sites (DMCs) were found between high vs. low milk fat (HMF vs. LMF), high vs. low milk protein (HMP vs. LMP), and high vs. low milk fat and protein (HMFP vs. LMFP) groups, respectively (<i>q</i> value < 0.1). Twenty-seven, 56 and 67 genes harboring DMCs in gene regions (denoted DMC genes) were identified for HMF vs. LMF, HMP vs. LMP and HMFP vs. LMFP, respectively. DMC genes from HMP vs. LMP and HMFP vs. LMFP comparisons were significantly overrepresented in GO terms related to aerobic electron transport chain and/or mitochondrial ATP (adenosine triphosphate) synthesis coupled electron transport. A total of 83 (HMF vs. LMF), 708 (HMP vs. LMP) and 408 (HMFP vs. LMFP) DMCs were co-located with 87, 147 and 158 quantitative trait loci (QTL) for milk component and yield traits, respectively. In conclusion, the identified methylation changes are potentially involved in the regulation of milk fat and protein yields, as well as the variation in reported co-located QTLs.
format	article
author	Mengqi Wang Nathalie Bissonnette Pier-Luc Dudemaine Xin Zhao Eveline M. Ibeagha-Awemu
author_facet	Mengqi Wang Nathalie Bissonnette Pier-Luc Dudemaine Xin Zhao Eveline M. Ibeagha-Awemu
author_sort	Mengqi Wang
title	Whole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents
title_short	Whole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents
title_full	Whole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents
title_fullStr	Whole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents
title_full_unstemmed	Whole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents
title_sort	whole genome dna methylation variations in mammary gland tissues from holstein cattle producing milk with various fat and protein contents
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/cb24fa7b8adf4fae9df74fdacf0ff172
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Whole Genome DNA Methylation Variations in Mammary Gland Tissues from Holstein Cattle Producing Milk with Various Fat and Protein Contents

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