Back to Search
Start Over
Reduced representation bisulphite sequencing of ten bovine somatic tissues reveals DNA methylation patterns and their impacts on gene expression
- Source :
- BMC Genomics
- Publisher :
- Springer Nature
-
Abstract
- 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. Electronic supplementary material The online version of this article (doi:10.1186/s12864-016-3116-1) contains supplementary material, which is available to authorized users.
- Subjects :
- 0301 basic medicine
Epigenomics
Bisulfite sequencing
Gene Expression
Biology
Epigenesis, Genetic
03 medical and health sciences
chemistry.chemical_compound
Cattle genome
Genetics
Animals
Epigenetics
DNA methylation
Somatic tissue
Methylation
Sequence Analysis, DNA
Molecular biology
RRBS (reduced representation bisulphite sequencing)
030104 developmental biology
chemistry
Organ Specificity
Illumina Methylation Assay
Cattle
CpG Islands
DNA microarray
DNA
Research Article
Biotechnology
Subjects
Details
- Language :
- English
- ISSN :
- 14712164
- Volume :
- 17
- Issue :
- 1
- Database :
- OpenAIRE
- Journal :
- BMC Genomics
- Accession number :
- edsair.doi.dedup.....65c921570ba3ef8443723e36229eb6e8
- Full Text :
- https://doi.org/10.1186/s12864-016-3116-1