A simple ATAC-seq protocol for population epigenetics

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.


epigenetics, epigenomics, ATAC-seq, Daphnia pulex, Schistosoma mansoni

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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 (2020). A simple ATAC-seq protocol for population epigenetics. Wellcome Open Research. 5. 121 (24p.). https://doi.org/10.12688/wellcomeopenres.15552.2, https://archimer.ifremer.fr/doc/00681/79353/

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