Reduced representation bisulphite sequencing of ten bovine somatic tissues reveals DNA methylation patterns and their impacts on gene expression
文献类型: 外文期刊
第一作者: Zhou, Yang
作者: Zhou, Yang;Chen, Hong;Zhou, Yang;Bickhart, Derek M.;Schroeder, Steven G.;Connor, Erin E.;Van Tassell, Curtis P.;Liu, George E.;Xu, Lingyang;Hay, El Hamidi abdel;Alexander, Leeson J.;Sonstegard, Tad S.
作者机构:
关键词: Cattle genome;Somatic tissue;DNA methylation;RRBS (reduced representation bisulphite sequencing)
期刊名称:BMC GENOMICS ( 影响因子:3.969; 五年影响因子:4.478 )
ISSN: 1471-2164
年卷期: 2016 年 17 卷
页码:
收录情况: SCI
摘要: Background: As a major epigenetic component, DNA methylation plays important functions in individual development and various diseases. DNA methylation has been well studied in human and model organisms, but only limited data exist in economically important animals like cattle. Results: Using reduced representation bisulphite sequencing (RRBS), we obtained single-base-resolution maps of bovine DNA methylation from ten somatic tissues. In total, we evaluated 1,868,049 cytosines in CG-enriched regions. While we found slightly low methylation levels (29.87 to 38.06 %) in cattle, the methylation contexts (CGs and non-CGs) of cattle showed similar methylation patterns to other species. Non-CG methylation was detected but methylation levels in somatic tissues were significantly lower than in pluripotent cells. To study the potential function of the methylation, we detected 10,794 differentially methylated cytosines (DMCs) and 836 differentially methylated CG islands (DMIs). Further analyses in the same tissues revealed many DMCs (including non-CGs) and DMIs, which were highly correlated with the expression of genes involved in tissue development. Conclusions: In summary, our study provides a baseline dataset and essential information for DNA methylation profiles of cattle.
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