A simple ATAC-seq protocol for population epigenetics

Christoph Grunau, Ronaldo de Carvalho Augusto, Oliver Rey, Céline Cosseau, Cristian Chaparro, Jérémie Vidal-Dupiol, Jean François Allienne, David Duval, Silvain Pinaud, Sina Tönges, Ranja Andriantsoa, Emilien Luquet, Fabien Aubret, Mamadou Dia Sow, Patrice David, Vicki Thomson, Dominique Joly, Mariana Gomes Lima, Déborah Federico, Etienne DanchinAki Minoda

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Abstract

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.

Original languageEnglish
Article number121
Pages (from-to)1-24
Number of pages24
JournalWellcome Open Research
Volume5
DOIs
Publication statusPublished - 7 Jan 2021
Externally publishedYes

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