A simple ATAC-seq protocol for population epigenetics.

Autor:	Augusto RC; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France.; LBMC, Laboratoire de Biologie et Modélisation de la Cellule Univ Lyon, ENS de Lyon, Université Claude Bernard Lyon 1, CNRS, UMR 5239, INSERM, U1210, Lyon, 69007, France., Rey O; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France., Cosseau C; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France., Chaparro C; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France., Vidal-Dupiol J; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France., Allienne JF; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France., Duval D; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France., Pinaud S; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France.; Cancer Research UK, Cambridge Institute, University of Cambridge, Cambridge, UK., Tönges S; Division of Epigenetics, DKFZ ZMBH Alliance, German Cancer Research Center, Heidelberg, 69120, Germany., Andriantsoa R; Division of Epigenetics, DKFZ ZMBH Alliance, German Cancer Research Center, Heidelberg, 69120, Germany., Luquet E; Univ Lyon, Université Claude Bernard Lyon 1, CNRS, Villeurbanne, 69622, France., Aubret F; CNRS,Station d'Ecologie Théorique et Expérimentale, Université Paul Sabatier, Moulis, 09200, France.; School of Molecular and Life Sciences, Curtin University, Bentley, Australia., Dia Sow M; LBLGC, INRA, Université d'Orléans, Orléans, France., David P; Univ. Montpellier, CNRS, CEFE, F-34293, Montpellier, France., Thomson V; School of Biological Sciences, University of Adelaide, Adelaide, 5005, Australia., Joly D; Laboratoire Evolution, Génomes Comportement, Ecologie, CNRS Université Paris Sud UMR 9191, Gif sur Yvette, 91198, France., Gomes Lima M; Laboratório de Malacologia, Instituto Oswaldo Cruz/Fiocruz, Rio de Janeiro, RJ, Brazil., Federico D; Laboratoire Évolution & Diversité Biologique (EDB UMR 5174), Université Fédérale de Toulouse; CNRS, Toulouse, 31062, France., Danchin E; Laboratoire Évolution & Diversité Biologique (EDB UMR 5174), Université Fédérale de Toulouse; CNRS, Toulouse, 31062, France., Minoda A; RIKEN Center for Integrative Medical Sciences, Epigenome Technology Exploration Unit, Tsurumi, Kanagawa, 230-0045, Japan., Grunau C; Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France.
Jazyk:	angličtina
Zdroj:	Wellcome open research [Wellcome Open Res] 2021 Jan 07; Vol. 5, pp. 121. Date of Electronic Publication: 2021 Jan 07 (Print Publication: 2020).
DOI:	10.12688/wellcomeopenres.15552.2
Abstrakt:	We describe here a protocol for the generation of sequence-ready libraries for population epigenomics studies, and the analysis of alignment results. We show that the protocol can be used to monitor chromatin structure changes in populations when exposed to environmental cues. The protocol is a streamlined version of the Assay for transposase accessible chromatin with high-throughput sequencing (ATAC-seq) that provides a positive display of accessible, presumably euchromatic regions. The protocol is straightforward and can be used with small individuals such as daphnia and schistosome worms, and probably many other biological samples of comparable size (~10,000 cells), and it requires little molecular biology handling expertise. Competing Interests: No competing interests were disclosed. (Copyright: © 2021 Augusto RdC et al.)
Databáze:	MEDLINE
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