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Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production

BACKGROUND: Domestic yaks play an indispensable role in sustaining the livelihood of Tibetans and other ethnic groups on the Qinghai-Tibetan Plateau (QTP), by providing milk and meat. They have evolved numerous physiological adaptations to high-altitude environment, including strong blood oxygen tra...

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Autores principales: Xin, Jinwei, Chai, Zhixin, Zhang, Chengfu, Zhang, Qiang, Zhu, Yong, Cao, Hanwen, Yangji, Cidan, Chen, Xiaoying, Jiang, Hui, Zhong, Jincheng, Ji, Qiumei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7576800/
https://www.ncbi.nlm.nih.gov/pubmed/33081725
http://dx.doi.org/10.1186/s12864-020-07151-3
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author Xin, Jinwei
Chai, Zhixin
Zhang, Chengfu
Zhang, Qiang
Zhu, Yong
Cao, Hanwen
Yangji, Cidan
Chen, Xiaoying
Jiang, Hui
Zhong, Jincheng
Ji, Qiumei
author_facet Xin, Jinwei
Chai, Zhixin
Zhang, Chengfu
Zhang, Qiang
Zhu, Yong
Cao, Hanwen
Yangji, Cidan
Chen, Xiaoying
Jiang, Hui
Zhong, Jincheng
Ji, Qiumei
author_sort Xin, Jinwei
collection PubMed
description BACKGROUND: Domestic yaks play an indispensable role in sustaining the livelihood of Tibetans and other ethnic groups on the Qinghai-Tibetan Plateau (QTP), by providing milk and meat. They have evolved numerous physiological adaptations to high-altitude environment, including strong blood oxygen transportation capabilities and high metabolism. The roles of DNA methylation and gene expression in milk production and high-altitudes adaptation need further exploration. RESULTS: We performed genome-wide DNA methylome and transcriptome analyses of breast, lung, and biceps brachii muscle tissues from yaks of different ages. We identified 432,350 differentially methylated regions (DMRs) across the age groups within each tissue. The post-mature breast tissue had considerably more differentially methylated regions (155,957) than that from the three younger age groups. Hypomethylated genes with high expression levels might regulate milk production by influencing protein processing in the endoplasmic reticulum. According to weighted gene correlation network analysis, the “hub” gene ZGPAT was highly expressed in the post-mature breast tissue, indicating that it potentially regulates the transcription of 280 genes that influence protein synthesis, processing, and secretion. The tissue network analysis indicated that high expression of HIF1A regulates energy metabolism in the lung. CONCLUSIONS: This study provides a basis for understanding the epigenetic mechanisms underlying milk production in yaks, and the results offer insight to breeding programs aimed at improving milk production. SUPPLEMENTARY INFORMATION: Supplementary information accompanies this paper at 10.1186/s12864-020-07151-3.
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spelling pubmed-75768002020-10-21 Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production Xin, Jinwei Chai, Zhixin Zhang, Chengfu Zhang, Qiang Zhu, Yong Cao, Hanwen Yangji, Cidan Chen, Xiaoying Jiang, Hui Zhong, Jincheng Ji, Qiumei BMC Genomics Research Article BACKGROUND: Domestic yaks play an indispensable role in sustaining the livelihood of Tibetans and other ethnic groups on the Qinghai-Tibetan Plateau (QTP), by providing milk and meat. They have evolved numerous physiological adaptations to high-altitude environment, including strong blood oxygen transportation capabilities and high metabolism. The roles of DNA methylation and gene expression in milk production and high-altitudes adaptation need further exploration. RESULTS: We performed genome-wide DNA methylome and transcriptome analyses of breast, lung, and biceps brachii muscle tissues from yaks of different ages. We identified 432,350 differentially methylated regions (DMRs) across the age groups within each tissue. The post-mature breast tissue had considerably more differentially methylated regions (155,957) than that from the three younger age groups. Hypomethylated genes with high expression levels might regulate milk production by influencing protein processing in the endoplasmic reticulum. According to weighted gene correlation network analysis, the “hub” gene ZGPAT was highly expressed in the post-mature breast tissue, indicating that it potentially regulates the transcription of 280 genes that influence protein synthesis, processing, and secretion. The tissue network analysis indicated that high expression of HIF1A regulates energy metabolism in the lung. CONCLUSIONS: This study provides a basis for understanding the epigenetic mechanisms underlying milk production in yaks, and the results offer insight to breeding programs aimed at improving milk production. SUPPLEMENTARY INFORMATION: Supplementary information accompanies this paper at 10.1186/s12864-020-07151-3. BioMed Central 2020-10-20 /pmc/articles/PMC7576800/ /pubmed/33081725 http://dx.doi.org/10.1186/s12864-020-07151-3 Text en © The Author(s) 2020 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research Article
Xin, Jinwei
Chai, Zhixin
Zhang, Chengfu
Zhang, Qiang
Zhu, Yong
Cao, Hanwen
Yangji, Cidan
Chen, Xiaoying
Jiang, Hui
Zhong, Jincheng
Ji, Qiumei
Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production
title Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production
title_full Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production
title_fullStr Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production
title_full_unstemmed Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production
title_short Methylome and transcriptome profiles in three yak tissues revealed that DNA methylation and the transcription factor ZGPAT co-regulate milk production
title_sort methylome and transcriptome profiles in three yak tissues revealed that dna methylation and the transcription factor zgpat co-regulate milk production
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7576800/
https://www.ncbi.nlm.nih.gov/pubmed/33081725
http://dx.doi.org/10.1186/s12864-020-07151-3
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