Genome-Wide Epigenetic Characterization of Tissues from Three Germ Layers Isolated from Sheep Fetuses
DNA methylation of regulatory and growth-related genes contributes to fetal programming which is important for maintaining the correct development of three germ layers of the embryo that develope into different tissues and organs, and which persists into adult life. In this study, a preliminary epig...
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doaj-4273590326cf4eb9924ea3e957258d442020-11-24T23:12:09ZengFrontiers Media S.A.Frontiers in Genetics1664-80212017-09-01810.3389/fgene.2017.00115281441Genome-Wide Epigenetic Characterization of Tissues from Three Germ Layers Isolated from Sheep FetusesEmanuele Capra0Paola Toschi1Marcello Del Corvo2Marcello Del Corvo3Barbara Lazzari4Barbara Lazzari5Pier A. Scapolo6Pasqualino Loi7John L. Williams8Alessandra Stella9Alessandra Stella10Paolo Ajmone-Marsan11Istituto di Biologia e Biotecnologia Agraria, Consiglio Nazionale delle RicercheLodi, ItalyFacoltà di Veterinaria, Università degli Studi di TeramoTeramo, ItalyIstituto di Zootecnica, Università Cattolica del Sacro CuorePiacenza, ItalyParco Tecnologico PadanoLodi, ItalyIstituto di Biologia e Biotecnologia Agraria, Consiglio Nazionale delle RicercheLodi, ItalyParco Tecnologico PadanoLodi, ItalyFacoltà di Veterinaria, Università degli Studi di TeramoTeramo, ItalyFacoltà di Veterinaria, Università degli Studi di TeramoTeramo, ItalyDavies Research Centre, School of Animal and Veterinary Sciences, University of Adelaide, AdelaideSA, AustraliaIstituto di Biologia e Biotecnologia Agraria, Consiglio Nazionale delle RicercheLodi, ItalyParco Tecnologico PadanoLodi, ItalyIstituto di Zootecnica, Università Cattolica del Sacro CuorePiacenza, ItalyDNA methylation of regulatory and growth-related genes contributes to fetal programming which is important for maintaining the correct development of three germ layers of the embryo that develope into different tissues and organs, and which persists into adult life. In this study, a preliminary epigenetic screen was performed to define genomic regions that are involved in fetal epigenome remodeling. Embryonic ectodermic tissues (origin of nervous tissue), mesenchymal tissues (origin of connective and muscular tissues), and foregut endoderm tissues (origin of epithelial tissue), from day 28 sheep fetuses were collected and the distribution of methylated CpGs was analyzed using whole-genome bisulfite sequencing. Patterns of methylation among the three tissues showed a high level of conservation of hypo-methylated CpG islands CGIs, and a consistent level of methylation in regulatory genetic elements. Analysis of tissue specific differentially methylated regions, revealed that 20% of the total CGIs differed between tissues. A proportion of the methylome was remodeled in gene bodies, 5′ UTRs and 3′ UTRs (7, 11, and 11%, respectively). Genes with overlapping differentially methylated regions in gene bodies and CGIs showed a significant enrichment for tissue morphogenesis and development pathways. The data presented here provides a “reference” for the epigenetic status of genes potentially involved in the maintenance and regulation of fetal developmental during early life, a period expected to be particularly prone to epigenetic alterations induced by environmental and nutritional stressors.http://journal.frontiersin.org/article/10.3389/fgene.2017.00115/fullmethylationfetustissueepigenomicectodermendoderm |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Emanuele Capra Paola Toschi Marcello Del Corvo Marcello Del Corvo Barbara Lazzari Barbara Lazzari Pier A. Scapolo Pasqualino Loi John L. Williams Alessandra Stella Alessandra Stella Paolo Ajmone-Marsan |
spellingShingle |
Emanuele Capra Paola Toschi Marcello Del Corvo Marcello Del Corvo Barbara Lazzari Barbara Lazzari Pier A. Scapolo Pasqualino Loi John L. Williams Alessandra Stella Alessandra Stella Paolo Ajmone-Marsan Genome-Wide Epigenetic Characterization of Tissues from Three Germ Layers Isolated from Sheep Fetuses Frontiers in Genetics methylation fetus tissue epigenomic ectoderm endoderm |
author_facet |
Emanuele Capra Paola Toschi Marcello Del Corvo Marcello Del Corvo Barbara Lazzari Barbara Lazzari Pier A. Scapolo Pasqualino Loi John L. Williams Alessandra Stella Alessandra Stella Paolo Ajmone-Marsan |
author_sort |
Emanuele Capra |
title |
Genome-Wide Epigenetic Characterization of Tissues from Three Germ Layers Isolated from Sheep Fetuses |
title_short |
Genome-Wide Epigenetic Characterization of Tissues from Three Germ Layers Isolated from Sheep Fetuses |
title_full |
Genome-Wide Epigenetic Characterization of Tissues from Three Germ Layers Isolated from Sheep Fetuses |
title_fullStr |
Genome-Wide Epigenetic Characterization of Tissues from Three Germ Layers Isolated from Sheep Fetuses |
title_full_unstemmed |
Genome-Wide Epigenetic Characterization of Tissues from Three Germ Layers Isolated from Sheep Fetuses |
title_sort |
genome-wide epigenetic characterization of tissues from three germ layers isolated from sheep fetuses |
publisher |
Frontiers Media S.A. |
series |
Frontiers in Genetics |
issn |
1664-8021 |
publishDate |
2017-09-01 |
description |
DNA methylation of regulatory and growth-related genes contributes to fetal programming which is important for maintaining the correct development of three germ layers of the embryo that develope into different tissues and organs, and which persists into adult life. In this study, a preliminary epigenetic screen was performed to define genomic regions that are involved in fetal epigenome remodeling. Embryonic ectodermic tissues (origin of nervous tissue), mesenchymal tissues (origin of connective and muscular tissues), and foregut endoderm tissues (origin of epithelial tissue), from day 28 sheep fetuses were collected and the distribution of methylated CpGs was analyzed using whole-genome bisulfite sequencing. Patterns of methylation among the three tissues showed a high level of conservation of hypo-methylated CpG islands CGIs, and a consistent level of methylation in regulatory genetic elements. Analysis of tissue specific differentially methylated regions, revealed that 20% of the total CGIs differed between tissues. A proportion of the methylome was remodeled in gene bodies, 5′ UTRs and 3′ UTRs (7, 11, and 11%, respectively). Genes with overlapping differentially methylated regions in gene bodies and CGIs showed a significant enrichment for tissue morphogenesis and development pathways. The data presented here provides a “reference” for the epigenetic status of genes potentially involved in the maintenance and regulation of fetal developmental during early life, a period expected to be particularly prone to epigenetic alterations induced by environmental and nutritional stressors. |
topic |
methylation fetus tissue epigenomic ectoderm endoderm |
url |
http://journal.frontiersin.org/article/10.3389/fgene.2017.00115/full |
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