Epigenetic Diversity in Ecology

Livrables

Recruitment: vacancies advertised
EpiDiverse publications in open access repositories
Final open conference

Final open conference in Seville or alternatively in online format if an inperson meeting in Seville is not possible due to Covid19

Fact sheets and email list

Ecological Epigenetics fact sheets and email list

EpiDiverse website

EpiDiverse website online

Epigenetics online teaching portal

Epigenetics online teaching portal added to website

Short movies of ESR research

Information booklet ‘epigenetics in conservation'

Information booklet epigenetics in conservation

Publications

EpiDiverse Toolkit: a pipeline suite for the analysis of bisulfite sequencing data in ecological plant epigenetics

Auteurs: Adam Nunn, Sultan Nilay Can, Christian Otto, Mario Fasold, Bárbara Díez Rodríguez, Noé Fernández-Pozo, Stefan A Rensing, Peter F Stadler, David Langenberger
Publié dans: NAR Genomics and Bioinformatics, Numéro Volume 3, Numéro 4, 2021, ISSN 2631-9268
Éditeur: Oxford Academic

ANCHOR: A Technical Approach to Monitor Single-Copy Locus Localization in Planta

Auteurs: Anis Meschichi; Mathieu Ingouff; Claire Picart; Marie Mirouze; Sophie Desset; Franck Gallardo; Kerstin Bystricky; Nathalie Picault; Stefanie Rosa; Frédéric Pontvianne
Publié dans: Frontiers in Plant Science, Numéro 3, 2021, ISSN 1664-462X
Éditeur: Frontiers Media S. A.
DOI: 10.3389/fpls.2021.677849

DNA Methylation Can Mediate Local Adaptation and Response to Climate Change in the Clonal Plant Fragaria vesca: Evidence From a European-Scale Reciprocal Transplant Experiment

Auteurs: Sammarco Iris; Münzbergová Zuzana; Latzel Vít
Publié dans: Frontiers in Plant Sciene, Numéro 3, 2022, ISSN 1664-462X
Éditeur: Frontiers Media S. A.
DOI: 10.3389/fpls.2022.827166

epiGBS2: Improvements and evaluation of highly multiplexed, epiGBS‐based reduced representation bisulfite sequencing

Auteurs: Gawehns, F; Postuma, M; van Antro, M; Nunn, A; Sepers, B; Fatma, S; van Gurp, TP; Wagemaker, CAM; Mateman, AC; Milanovic-Ivanovic, S; Grosse, I; van Oers, K; Vergeer, P; Verhoeven, KJF
Publié dans: Molecular Ecology Resources, Numéro 3, 2022, ISSN 1755-0998
Éditeur: Wiley-Blackwell
DOI: 10.1111/1755-0998.13597

Playing with genetic and epigenetic concepts at the school: an Epigenetic Orchestra project

Auteurs: Conchita Alonso; Yolanda Palomares
Publié dans: Evolution: Education and Outreach, Numéro 5, 2021, ISSN 1936-6434
Éditeur: BioMed Central Ltd
DOI: 10.1186/s12052-021-00146-y

Comprehensive benchmarking of software for mapping whole genome bisulfite data: from read alignment to DNA methylation analysis

Auteurs: Adam Nunn, Christian Otto, Peter F Stadler, David Langenberger
Publié dans: Briefings in Bioinformatics, 2021, ISSN 1467-5463
Éditeur: Oxford University Press
DOI: 10.1093/bib/bbab021

A Blind and Independent Benchmark Study for Detecting Differentially Methylated Regions in Plants

Auteurs: Kreutz, Clemens; Can, Sultan Nilay; Schulze Bruening, Ralf; Meyberg, Rabea; Merai, Zsuzsanna; Fernandez-Pozo, Noe; Rensing, Stefan A.
Publié dans: BIOINFORMATICS, Numéro 3, 2020, ISSN 1460-2059
Éditeur: Oxford University Press
DOI: 10.1093/bioinformatics/btaa191

Large tandem duplications affect gene expression, 3D organization, and plant–pathogen response

Auteurs: Ariadna Picart-Picolo, Stefan Grob, Nathalie Picault, Michal Franek, Christel Llauro, Thierry Halter, Tom R. Maier, Edouard Jobet, Julie Descombin, Panpan Zhang, Vijayapalani Paramasivan, Thomas J. Baum, Lionel Navarro, Martina Dvořáčková, Marie Mirouze, Frédéric Pontvianne
Publié dans: Genome Research, Numéro 30/11, 2020, Page(s) 1583-1592, ISSN 1088-9051
Éditeur: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gr.261586.120

Epigenetics in plant organismic interactions

Auteurs: Daniela Ramos-Cruz, A. Niloya Troyee, Claude Becker
Publié dans: Current Opinion in Plant Biology, Numéro 61, 2021, Page(s) 102060, ISSN 1369-5266
Éditeur: Elsevier BV
DOI: 10.1016/j.pbi.2021.102060

The role of plant epigenetics in biotic interactions

Auteurs: Conchita Alonso, Daniela Ramos‐Cruz, Claude Becker
Publié dans: New Phytologist, Numéro 221/2, 2018, Page(s) 731-737, ISSN 0028-646X
Éditeur: Blackwell Publishing Inc.
DOI: 10.1111/nph.15408

Epigenetic targeting of transposon relics: beating the dead horses of the genome?

Auteurs: Sammarco Iris; Pieters Janto; Salony Susnata; Toman Izabela; Zolotarov Grygoriy; Lafon Placette Clément
Publié dans: Epigenetics, Numéro 4, 2022, ISSN 1559-2308
Éditeur: Taylor & Francis
DOI: 10.1080/15592294.2021.2022066

The EpiDiverse Plant Epigenome-Wide Association Studies (EWAS) Pipeline

Auteurs: Sultan Nilay Can, Adam Nunn, Dario Galanti, David Langenberger, Claude Becker, Katharina Volmer, Katrin Heer, Lars Opgenoorth, Noe Fernandez-Pozo and Stefan A. Rensing
Publié dans: Epigenomes, 2021, ISSN 2075-4655
Éditeur: MDPI

Chromosome-level Thlaspi arvense genome provides new tools for translational research and for a newly domesticated cash cover crop of the cooler climates

Auteurs: Adam Nunn, Isaac Rodríguez-Arévalo, Zenith Tandukar, Katherine Frels, Adrián Contreras-Garrido, Pablo Carbonell-Bejerano, Panpan Zhang, Daniela Ramos Cruz, Katharina Jandrasits, Christa Lanz, Anthony Brusa, Marie Mirouze, Kevin Dorn, David W Galbraith, Brice A. Jarvis, John C. Sedbrook, Donald L. Wyse, Christian Otto, David Langenberger, Peter F. Stadler, Detlef Weigel, M. David Marks, James A.
Publié dans: Plant Biotechnology Journal, 2022, Page(s) pp 1-20, ISSN 1467-7652
Éditeur: Wiley on line publishers
DOI: 10.1111/pbi.13775

Plant epigenetics: phenotypic and functional diversity beyond the DNA sequence

Auteurs: MT Boquete; A Muyle; C Alonso
Publié dans: American Journal of Botany, Numéro 5, 2021, ISSN 1537-2197
Éditeur: Botanical Society of America
DOI: 10.1002/ajb2.1645

Large tandem duplications affect gene expression, 3D organization, and plant–pathogen response

Auteurs: Picart-Picolo, Ariadna; Grob, Stefan; Picault, Nathalie; Franek, Michal; Llauro, Christel; Halter, Thierry; Maier, Tom R.; Jobet, Edouard; Descombin, Julie; Zhang, Panpan; Paramasivan, Vijayapalani; Baum, Thomas J.; Navarro, Lionel; Dvořáčková, Martina; Mirouze, Marie; Pontvianne, Frédéric
Publié dans: https://hal-univ-perp.archives-ouvertes.fr/hal-02962580, Numéro 3, 2021, ISSN 1088-9051
Éditeur: Cold Spring Harbor Laboratory Press
DOI: 10.5167/uzh-196601

ecc_finder: A Robust and Accurate Tool for Detecting Extrachromosomal Circular DNA From Sequencing Data

Auteurs: Marie Mirouze; Panpan Zhang; Christel Llauro; Hoaran Peng; Etienne Bucher
Publié dans: Frontiers in Plant Science, Numéro 3, 2021, ISSN 1664-462X
Éditeur: Frontiers Media S. A.
DOI: 10.3389/fpls.2021.743742

A Critical Guide for Studies on Epigenetic Inheritance in Plants

Auteurs: Daniela Ramos Cruz, Claude Becker
Publié dans: Plant Epigenetics and Epigenomics - Methods and Protocols, Numéro 2093, 2020, Page(s) 261-270, ISBN 978-1-0716-0178-5
Éditeur: Springer US
DOI: 10.1007/978-1-0716-0179-2_18

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