1471-2164-15-1036.pdf 862,44KB
1000 Titel
  • Whole genome sequencing and methylome analysis of the wild guinea pig
1000 Autor/in
  1. Weyrich, Alexandra |
  2. Schüllermann, Tino |
  3. Heeger, Felix |
  4. Jeschek, Marie |
  5. Mazzoni, Camila J. |
  6. Chen, Wei |
  7. Schumann, Kathrin |
  8. Fickel, Joerns |
1000 LeibnizOpen
1000 Publikationstyp
  1. Artikel |
1000 Online veröffentlicht
  • 2014-11-28
1000 Erschienen in
1000 Quellenangabe
  • 15: 1036
1000 FRL-Sammlung
1000 Copyrightjahr
  • 2014
1000 Lizenz
1000 Verlagsversion
  • |
  • |
1000 Ergänzendes Material
  • |
1000 Publikationsstatus
1000 Begutachtungsstatus
1000 Sprache der Publikation
1000 Abstract/Summary
  • BACKGROUND: DNA methylation is a heritable mechanism that acts in response to environmental changes, lifestyle and diseases by influencing gene expression in eukaryotes. Epigenetic studies of wild organisms are mandatory to understand their role in e.g. adaptational processes in the great variety of ecological niches. However, strategies to address those questions on a methylome scale are widely missing. In this study we present such a strategy and describe a whole genome sequence and methylome analysis of the wild guinea pig. RESULTS: We generated a full Wild guinea pig (Cavia aperea) genome sequence with enhanced coverage of methylated regions, benefiting from the available sequence of the domesticated relative Cavia porcellus. This new genome sequence was then used as reference to map the sequence reads of bisulfite treated Wild guinea pig sequencing libraries to investigate DNA-methylation patterns at nucleotide-specific level, by using our here described method, named ‘DNA-enrichment-bisulfite-sequencing’ (MEBS). The results achieved using MEBS matched those of standard methods in other mammalian model species. The technique is cost efficient, and incorporates both methylation enrichment results and a nucleotide-specific resolution even without a whole genome sequence available. Thus MEBS can be easily applied to extend methylation enrichment studies to a nucleotide-specific level. CONCLUSIONS: The approach is suited to study methylomes of not yet sequenced mammals at single nucleotide resolution. The strategy is transferable to other mammalian species by applying the nuclear genome sequence of a close relative. It is therefore of interest for studies on a variety of wild species trying to answer evolutionary, adaptational, ecological or medical questions by epigenetic mechanisms.
1000 Sacherschließung
lokal Next-generation-sequencing
lokal Methylated DNA-enrichment-bisulfite-sequencing (MEBS)
lokal Cavia
lokal Reference sequence
lokal Immunoprecipitation
lokal Bisulfite
lokal Methyl-binding domain protein (MBD)
1000 Fächerklassifikation (DDC)
1000 Liste der Beteiligten
1000 Label
1000 Förderer
  1. Leibniz-Gemeinschaft |
1000 Fördernummer
  1. SAW-2011-IZW-2
1000 Förderprogramm
  1. -
1000 Dateien
  1. Whole genome sequencing and methylome analysis of the wild guinea pig
1000 Förderung
  1. 1000 joinedFunding-child
    1000 Förderer Leibniz-Gemeinschaft |
    1000 Förderprogramm -
    1000 Fördernummer SAW-2011-IZW-2
1000 Objektart article
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1000 @id frl:6405866.rdf
1000 Erstellt am 2017-12-14T16:20:34.130+0100
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