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    Exploring genome wide bisulfite sequencing for DNA methylation analysis in livestock: a technical assessment

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    fgene-05-00126 Doherty and ...
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    Author
    Doherty, Rachael
    Couldrey, Christine
    Keyword
    Epigenetics
    DNA methylation
    Sheep
    Quantification
    RRBS
    WGBS
    Fragment size
    Date
    2014-05-13
    
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    URI
    http://hdl.handle.net/11019/804
    Citation
    Doherty R and Couldrey C (2014) Exploring genome wide bisulfite sequencing for DNA methylation analysis in livestock: a technical assessment. Front. Genet. 5:126. doi: 10.3389/fgene.2014.00126
    Abstract
    Recent advances made in “omics” technologies are contributing to a revolution in livestock selection and breeding practices. Epigenetic mechanisms, including DNA methylation are important determinants for the control of gene expression in mammals. DNA methylation research will help our understanding of how environmental factors contribute to phenotypic variation of complex production and health traits. High-throughput sequencing is a vital tool for the comprehensive analysis of DNA methylation, and bisulfite-based strategies coupled with DNA sequencing allows for quantitative, site-specific methylation analysis at the genome level or genome wide. Reduced representation bisulfite sequencing (RRBS) and more recently whole genome bisulfite sequencing (WGBS) have proven to be effective techniques for studying DNA methylation in both humans and mice. Here we report the development of RRBS and WGBS for use in sheep, the first application of this technology in livestock species. Important technical issues associated with these methodologies including fragment size selection and sequence depth are examined and discussed.
    Funder
    AgResearch AR&C; Teagasc
    ae974a485f413a2113503eed53cd6c53
    http://dx.doi.org/10.3389/fgene.2014.00126
    Scopus Count
    Collections
    Animal & Bioscience

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