Genome-Wide Bovine H3K27me3 Modifications and the Regulatory Effects on Genes Expressions in Peripheral Blood Lymphocytes

He, Yanghua; Yu, Ying; Zhang, Yuan; Song, Jiuzhou; Mitra, Apratim; Wang, Yachun; Sun, Dan; Zhang, Shengli

doi:10.1371/journal.pone.0039094

Cited by 16 publications

(18 citation statements)

References 47 publications

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“…Notably, there are also examples of individual highly modified genes that were strongly transcribed and vice versa, suggesting that H3K27me3 is likely necessary but not sufficient for transcriptional repression (He et al . 2012). …”

Section: Discussionmentioning

confidence: 99%

“…H3K27me3 modification in this group probably indicates the silencing of genes in skeletal muscle that are transcriptionally active in other tissues, particularly neural tissues. Notably, there are also examples of individual highly modified genes that were strongly transcribed and vice versa, suggesting that H3K27me3 is likely necessary but not sufficient for transcriptional repression (He et al 2012).…”

Section: Discussionmentioning

confidence: 99%

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Genomic architecture of histone 3 lysine 27 trimethylation during late ovine skeletal muscle development

et al. 2014

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SummaryThe ruminant developmental transition from late foetus to lamb is associated with marked changes in skeletal muscle structure and function that reflect programming for new physiological demands following birth. To determine whether epigenetic changes are involved in this transition, we investigated the genomic architecture of the chromatin modification, histone 3 lysine 27 trimethylation (H3K27me3), which typically regulates early life developmental processes; however, its role in later life processes is unclear. Chromatin immunoprecipitation coupled with next‐generation sequencing was used to map H3K27me3 nucleosomes in ovine longissimus lumborum skeletal muscle at 100 days of gestation and 12 weeks post‐partum. In both states, H3K27me3 modification was associated with genes, transcription start sites and CpG islands and with transcriptional silencing. The H3K27me3 peaks consisted of two major categories, promoter specific and regional, with the latter the dominant feature. Genes encoding homeobox transcription factors regulating early life development and genes involved in neural functions, particularly gated ion channels, were strongly modified by H3K27me3. Gene promoters differentially modified by H3K27me3 in the foetus and lamb were enriched for gated ion channels, which may reflect changes in neuromuscular function. However, most modified genes showed no changes, indicating that H3K27me3 does not have a large role in late muscle maturation. Notably, promyogenic transcription factors were strongly modified with H3K27me3 but showed no differences between the late gestation foetus and lamb, likely reflecting their lack of involvement in the myofibre fusion process occurring in this transition. H3K27me3 is a major architectural feature of the epigenetic landscape of ruminant skeletal muscle, and it comments on gene transcription and gene function in the context of late skeletal muscle development.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Genomic architecture of histone 3 lysine 27 trimethylation during late ovine skeletal muscle development

et al. 2014

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“…The latter being a potential mechanism through which Met can alter gene expression in dairy cows. Currently, the limited amount of data on histone methylation in dairy cows has been conducted in immune cells [76] primarily related to subclinical mastitis [77]. This work has provided nuances on the interactions between mastitis-related pathogens and histone methylation; however, dietary effects on histone methylation have not been investigated.…”

Section: Nutriepigenomics In Dairy Cattlementioning

confidence: 99%

Gene Regulation in Ruminants: A Nutritional Perspective

Osorio¹,

Moisá²

2019

Gene Expression and Control

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This chapter will focus on cellular regulatory programs implemented by the ruminant physiology in order to respond to external stimuli such as nutrition as well as important physiological events such as parturition. The increasing adoption of "omics" technologies and bioinformatics in nutrition and physiology in ruminant research have allowed us to delineate a clearer picture on what regulates major biological process at a molecular level such as milk synthesis and meat quality and fatty acid composition as well as pathological conditions such as ketosis, mastitis, and heat stress. The assembly of such plethora of information in a blend among nutritional research, molecular biology, and novel tools to study the response of the genome to nutrition has led to emerging disciplines such as nutritional genomics or "nutrigenomics."

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“…To determine the epigenetic mechanisms by which DNA methylation affects the function of bovine adaptive immune system during the peripartum period, Paibomesai et al (2013) stimulated CD4+ T -lymphocytes from 5 Holstein dairy cows before and after parturition with concanavalin A (ConA) and from 3 Holstein dairy cows in mid-lactation with ConA alone or ConA plus dexamethasone and demonstrated significant effects on the expression of two cytokines, IFN-γ, type 1 and IL-4, type 2, which were also consistent with DNA methylation profiles of the IFN-γ gene promoter region but not with IL-4 promoter region. Recently, He et al (2012) used a genome-wide approach to determine histone H3K27me3 modifications on blood lymphocytes in lactating Holsteins and reported a blueprint of bovine K3K27me3 marks that mediate gene silencing as well as indications that H3K27me3 plays its repressed role mainly in the regulatory region of bovine lymphocytes.…”

Section: Epigenetic Marks and Livestock Healthmentioning

confidence: 99%

Epigenetic marks: regulators of livestock phenotypes and conceivable sources of missing variation in livestock improvement programs

Ibeagha‐Awemu

Zhao

2015

Front. Genet.

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Improvement in animal productivity has been achieved over the years through careful breeding and selection programs. Today, variations in the genome are gaining increasing importance in livestock improvement strategies. Genomic information alone, however, explains only a part of the phenotypic variance in traits. It is likely that a portion of the unaccounted variance is embedded in the epigenome. The epigenome encompasses epigenetic marks such as DNA methylation, histone tail modifications, chromatin remodeling, and other molecules that can transmit epigenetic information such as non-coding RNA species. Epigenetic factors respond to external or internal environmental cues such as nutrition, pathogens, and climate, and have the ability to change gene expression leading to emergence of specific phenotypes. Accumulating evidence shows that epigenetic marks influence gene expression and phenotypic outcome in livestock species. This review examines available evidence of the influence of epigenetic marks on livestock (cattle, sheep, goat, and pig) traits and discusses the potential for consideration of epigenetic markers in livestock improvement programs. However, epigenetic research activities on farm animal species are currently limited partly due to lack of recognition, funding and a global network of researchers. Therefore, considerable less attention has been given to epigenetic research in livestock species in comparison to extensive work in humans and model organisms. Elucidating therefore the epigenetic determinants of animal diseases and complex traits may represent one of the principal challenges to use epigenetic markers for further improvement of animal productivity.

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Genome-Wide Bovine H3K27me3 Modifications and the Regulatory Effects on Genes Expressions in Peripheral Blood Lymphocytes

Cited by 16 publications

References 47 publications

Genomic architecture of histone 3 lysine 27 trimethylation during late ovine skeletal muscle development

Genomic architecture of histone 3 lysine 27 trimethylation during late ovine skeletal muscle development

Gene Regulation in Ruminants: A Nutritional Perspective

Epigenetic marks: regulators of livestock phenotypes and conceivable sources of missing variation in livestock improvement programs

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