The EpiDiverse Plant Epigenome-Wide Association Studies (EWAS) Pipeline
Sultan Nilay Can, Adam Nunn, Dario Galanti, David Langenberger, Claude Becker, Katharina Volmer, Katrin Heer, Lars Opgenoorth, Noé Fernández‐Pozo, Stefan A. Rensing
Abstract
Bisulfite sequencing is a widely used technique for determining DNA methylation and its relationship with epigenetics, genetics, and environmental parameters. Various techniques were implemented for epigenome-wide association studies (EWAS) to reveal meaningful associations; however, there are only very few plant studies available to date. Here, we developed the EpiDiverse EWAS pipeline and tested it using two plant datasets, from P. abies (Norway spruce) and Q. lobata (valley oak). Hence, we present an EWAS implementation tested for non-model plant species and describe its use.
Topics & Concepts
EpigenomeComputational biologyBiologyDNA methylationEpigeneticsPipeline (software)Bisulfite sequencingGeneticsComputer scienceGeneProgramming languageGene expressionEpigenetics and DNA MethylationPlant Molecular Biology ResearchGenetic Mapping and Diversity in Plants and Animals