FN Archimer Export Format
PT J
TI A simple ATAC-seq protocol for population epigenetics
BT 
AF de Carvalho Augusto, Ronaldo
   Rey, Oliver
   Cosseau, Céline
   Chaparro, Cristian
   Vidal-Dupiol, Jeremie
   Allienne, Jean-François
   Duval, David
   Pinaud, Silvain
   Tönges, Sina
   Andriantsoa, Ranja
   Luquet, Emilien
   Aubret, Fabien
   Dia Sow, Mamadou
   David, Patrice
   Thomson, Vicki
   Joly, Dominique
   Gomes Lima, Mariana
   Federico, Déborah
   Danchin, Etienne
   Minoda, Aki
   Grunau, Christoph
AS 1:2,15;2:15;3:15;4:15;5:1;6:15;7:15;8:3,15;9:4;10:4;11:5;12:6,7;13:8;14:9;15:10;16:11;17:12;18:13;19:13;20:14;21:15;
FF 1:;2:;3:;4:;5:PDG-RBE-IHPE;6:;7:;8:;9:;10:;11:;12:;13:;14:;15:;16:;17:;18:;19:;20:;21:;
C1 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
   Cancer Research UK, Cambridge Institute, University of Cambridge, Cambridge, UK
   Division of Epigenetics, DKFZ ZMBH Alliance, German Cancer Research Center, Heidelberg, 69120, Germany
   Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR 5023 LEHNA, Villeurbanne, F-69622, France
   CNRS,Station d'Ecologie Théorique et Expérimentale, Université Paul Sabatier, Moulis, 09200, France
   School of Molecular and Life Sciences, Curtin University, Bentley, Australia
   LBLGC, INRA, Université d’Orléans, Orléans, France
   Univ Montpellier, CNRS, CEFE, F-34293, Montpellier, France
   School of Biological Sciences, University of Adelaide, Adelaide, 5005, Australia
   Laboratoire Evolution, Génomes Comportement, Ecologie, CNRS Université Paris Sud UMR 9191, Gif sur Yvette, 91198, France
   Laboratório de Malacologia, Instituto Oswaldo Cruz/Fiocruz, Rio de Janeiro, RJ, Brazil
   Laboratoire Évolution & Diversité Biologique (EDB UMR 5174), Université Fédérale de Toulouse; CNRS, Toulouse, 31062, France
   RIKEN Center for Integrative Medical Sciences, Epigenome Technology Exploration Unit, Tsurumi, Kanagawa, 230-0045, Japan
   Univ. Montpellier, CNRS, IFREMER, UPVD, IHPE, F-66000 Perpignan and F-34095, Montpellier, France
C2 IFREMER, FRANCE
   ENS LYON, FRANCE
   UNIV CAMBRIDGE, UK
   DKFZ ZMBH ALLIANCE, GERMANY
   UNIV LYON, FRANCE
   CNRS, FRANCE
   UNIV CURTIN, AUSTRALIA
   UNIV ORLEANS, FRANCE
   UNIV MONTPELLIER, FRANCE
   UNIV ADELAIDE, AUSTRALIA
   CNRS, FRANCE
   INST OSWALDO CRUZ, BRAZIL
   UNIV TOULOUSE, FRANCE
   RIKEN, JAPAN
   UNIV MONTPELLIER, FRANCE
SI MONTPELLIER
SE PDG-RBE-IHPE
UM IHPE
IN DOAJ
TC 0
UR https://archimer.ifremer.fr/doc/00681/79353/81859.pdf
LA English
DT Article
DE ;epigenetics;epigenomics;ATAC-seq;Daphnia pulex;Schistosoma mansoni
AB 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. 
PY 2020
SO Wellcome Open Research
SN 2398-502X
PU F1000 Research Ltd
VL 5
DI 10.12688/wellcomeopenres.15552.2
ID 79353
ER

EF