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DNA methylation and relationships with gene expression in wild fish

AuthorsAnastasiadi, Dafni ; Esteve-Codina, Anna; Piferrer, Francesc
Issue Date28-Sep-2016
CitationEpigenetics and Periconception Environment : Proceedings of the EPICONCEPT Conference 2016: 13 (2016)
AbstractIn recent years, the regulation of gene expression by DNA methylation has been a central focus in research related to biomedicine. Only lately DNA methylation patterns are studied in non-model species and under an ecological context. Here, we used a wild marine fish, the European sea bass (Dicentrarchus labrax), to study natural patterns of DNA methylation and their relationship with gene expression in tissues of different cellular heterogeneity. Tissue samples were obtained from testis and muscle of wild sea bass caught off the Montgrí, Medes Islands and Baix Ter Natural Park, and were processed by Reduced Representation Bisulfite Sequencing (RRBS) to measure DNA methylation and RNA-seq to measure gene expression. The majority of CpG sites were either methylated or unmethylated in both tissues, although there were differentially methylated sites between tissues, while in specific genomic features, such as promoters and first exons, the majority of CpG sites were unmethylated. In testis there were more genes expressed than in muscle, while testis showed a more complex transcriptome including testis-specific genes showing low expression. In addition, while in both tissues there was in general low methylation of promoters and first exons independently of gene expression, in testis there was high variation in DNA methylation levels of promoters and first exons in the 20% of the least expressed genes. Tissue-specific genes containing differentially methylated regions (DMRs) showed both positive and negative correlation with gene expression, while these DMRs contained unique TF-binding sites depending on the direction of the correlation. Taken together, these results provide insights to the tissue-specific regulation of gene expression by DNA methylation in vertebrates in general and in marine fish in particular
DescriptionEPICONCEPT Conference, Epigenetics and Periconception Environment, 26-29 September 2016, Giardini Naxos, Italy.-- 1 page
Identifiersisbn: 9788867055043
Appears in Collections:(ICM) Libros y partes de libros
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