Literature DB >> 21596900

Genome-wide epigenetic perturbation jump-starts patterns of heritable variation found in nature.

Fabrice Roux1, Maria Colomé-Tatché, Cécile Edelist, René Wardenaar, Philippe Guerche, Frédéric Hospital, Vincent Colot, Ritsert C Jansen, Frank Johannes.   

Abstract

We extensively phenotyped 6000 Arabidopsis plants with experimentally perturbed DNA methylomes as well as a diverse panel of natural accessions in a common garden. We found that alterations in DNA methylation not only caused heritable phenotypic diversity but also produced heritability patterns closely resembling those of the natural accessions. Our findings indicate that epigenetically induced and naturally occurring variation in complex traits share part of their polygenic architecture and may offer complementary adaptation routes in ecological settings.

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Year:  2011        PMID: 21596900      PMCID: PMC3176100          DOI: 10.1534/genetics.111.128744

Source DB:  PubMed          Journal:  Genetics        ISSN: 0016-6731            Impact factor:   4.562


  11 in total

1.  Compromised stability of DNA methylation and transposon immobilization in mosaic Arabidopsis epigenomes.

Authors:  Jon Reinders; Brande B H Wulff; Marie Mirouze; Arturo Marí-Ordóñez; Mélanie Dapp; Wilfried Rozhon; Etienne Bucher; Grégory Theiler; Jerzy Paszkowski
Journal:  Genes Dev       Date:  2009-04-15       Impact factor: 11.361

2.  A role for RNAi in the selective correction of DNA methylation defects.

Authors:  Felipe Karam Teixeira; Fabiana Heredia; Alexis Sarazin; François Roudier; Martine Boccara; Constance Ciaudo; Corinne Cruaud; Julie Poulain; Maria Berdasco; Mario F Fraga; Olivier Voinnet; Patrick Wincker; Manel Esteller; Vincent Colot
Journal:  Science       Date:  2009-01-29       Impact factor: 47.728

3.  System-wide molecular evidence for phenotypic buffering in Arabidopsis.

Authors:  Jingyuan Fu; Joost J B Keurentjes; Harro Bouwmeester; Twan America; Francel W A Verstappen; Jane L Ward; Michael H Beale; Ric C H de Vos; Martijn Dijkstra; Richard A Scheltema; Frank Johannes; Maarten Koornneef; Dick Vreugdenhil; Rainer Breitling; Ritsert C Jansen
Journal:  Nat Genet       Date:  2009-01-25       Impact factor: 38.330

Review 4.  Epigenome dynamics: a quantitative genetics perspective.

Authors:  Frank Johannes; Vincent Colot; Ritsert C Jansen
Journal:  Nat Rev Genet       Date:  2008-11       Impact factor: 53.242

5.  Arabidopsis thaliana DNA methylation mutants.

Authors:  A Vongs; T Kakutani; R A Martienssen; E J Richards
Journal:  Science       Date:  1993-06-25       Impact factor: 47.728

6.  Bursts of retrotransposition reproduced in Arabidopsis.

Authors:  Sayuri Tsukahara; Akie Kobayashi; Akira Kawabe; Olivier Mathieu; Asuka Miura; Tetsuji Kakutani
Journal:  Nature       Date:  2009-09-06       Impact factor: 49.962

7.  The rate and molecular spectrum of spontaneous mutations in Arabidopsis thaliana.

Authors:  Stephan Ossowski; Korbinian Schneeberger; José Ignacio Lucas-Lledó; Norman Warthmann; Richard M Clark; Ruth G Shaw; Detlef Weigel; Michael Lynch
Journal:  Science       Date:  2010-01-01       Impact factor: 47.728

8.  Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines.

Authors:  Susanna Atwell; Yu S Huang; Bjarni J Vilhjálmsson; Glenda Willems; Matthew Horton; Yan Li; Dazhe Meng; Alexander Platt; Aaron M Tarone; Tina T Hu; Rong Jiang; N Wayan Muliyati; Xu Zhang; Muhammad Ali Amer; Ivan Baxter; Benjamin Brachi; Joanne Chory; Caroline Dean; Marilyne Debieu; Juliette de Meaux; Joseph R Ecker; Nathalie Faure; Joel M Kniskern; Jonathan D G Jones; Todd Michael; Adnane Nemri; Fabrice Roux; David E Salt; Chunlao Tang; Marco Todesco; M Brian Traw; Detlef Weigel; Paul Marjoram; Justin O Borevitz; Joy Bergelson; Magnus Nordborg
Journal:  Nature       Date:  2010-03-24       Impact factor: 49.962

9.  Quantitative epigenetics through epigenomic perturbation of isogenic lines.

Authors:  Frank Johannes; Maria Colomé-Tatché
Journal:  Genetics       Date:  2011-03-08       Impact factor: 4.562

10.  Assessing the impact of transgenerational epigenetic variation on complex traits.

Authors:  Frank Johannes; Emmanuelle Porcher; Felipe K Teixeira; Vera Saliba-Colombani; Matthieu Simon; Nicolas Agier; Agnès Bulski; Juliette Albuisson; Fabiana Heredia; Pascal Audigier; David Bouchez; Christine Dillmann; Philippe Guerche; Frédéric Hospital; Vincent Colot
Journal:  PLoS Genet       Date:  2009-06-26       Impact factor: 5.917

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  51 in total

Review 1.  Natural variation in Arabidopsis: from molecular genetics to ecological genomics.

Authors:  Detlef Weigel
Journal:  Plant Physiol       Date:  2011-12-06       Impact factor: 8.340

2.  Epigenetic variation in plant responses to defence hormones.

Authors:  Vít Latzel; Yuanye Zhang; Kim Karlsson Moritz; Markus Fischer; Oliver Bossdorf
Journal:  Ann Bot       Date:  2012-04-26       Impact factor: 4.357

3.  A role for epigenetic inheritance in modern evolutionary theory? A comment in response to Dickins and Rahman.

Authors:  Catherine M Suter; Dario Boffelli; David I K Martin
Journal:  Proc Biol Sci       Date:  2013-10-02       Impact factor: 5.349

Review 4.  Role of chromatin in water stress responses in plants.

Authors:  Soon-Ki Han; Doris Wagner
Journal:  J Exp Bot       Date:  2013-12-03       Impact factor: 6.992

Review 5.  Epigenetic regulation in plants.

Authors:  Craig S Pikaard; Ortrun Mittelsten Scheid
Journal:  Cold Spring Harb Perspect Biol       Date:  2014-12-01       Impact factor: 10.005

6.  When is incomplete epigenetic resetting in germ cells favoured by natural selection?

Authors:  Tobias Uller; Sinead English; Ido Pen
Journal:  Proc Biol Sci       Date:  2015-07-22       Impact factor: 5.349

7.  Twenty-four-nucleotide siRNAs produce heritable trans-chromosomal methylation in F1 Arabidopsis hybrids.

Authors:  Ian K Greaves; Steven R Eichten; Michael Groszmann; Aihua Wang; Hua Ying; W James Peacock; Elizabeth S Dennis
Journal:  Proc Natl Acad Sci U S A       Date:  2016-10-17       Impact factor: 11.205

Review 8.  Crop Epigenomics: Identifying, Unlocking, and Harnessing Cryptic Variation in Crop Genomes.

Authors:  Lexiang Ji; Drexel A Neumann; Robert J Schmitz
Journal:  Mol Plant       Date:  2015-01-29       Impact factor: 13.164

9.  Features of the Arabidopsis recombination landscape resulting from the combined loss of sequence variation and DNA methylation.

Authors:  Maria Colomé-Tatché; Sandra Cortijo; René Wardenaar; Lionel Morgado; Benoit Lahouze; Alexis Sarazin; Mathilde Etcheverry; Antoine Martin; Suhua Feng; Evelyne Duvernois-Berthet; Karine Labadie; Patrick Wincker; Steven E Jacobsen; Ritsert C Jansen; Vincent Colot; Frank Johannes
Journal:  Proc Natl Acad Sci U S A       Date:  2012-09-17       Impact factor: 11.205

10.  A case-control design for testing and estimating epigenetic effects on complex diseases.

Authors:  Yihan Sui; Weimiao Wu; Zhong Wang; Jianxin Wang; Zuoheng Wang; Rongling Wu
Journal:  Brief Bioinform       Date:  2013-01-17       Impact factor: 11.622

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