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

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 and Magnus Nordborg ()
Additional contact information
Susanna Atwell: Molecular and Computational Biology,
Yu S. Huang: Molecular and Computational Biology,
Bjarni J. Vilhjálmsson: Molecular and Computational Biology,
Glenda Willems: Molecular and Computational Biology,
Matthew Horton: University of Chicago, Chicago, Illinois 60637, USA
Yan Li: University of Chicago, Chicago, Illinois 60637, USA
Dazhe Meng: Molecular and Computational Biology,
Alexander Platt: Molecular and Computational Biology,
Aaron M. Tarone: Molecular and Computational Biology,
Tina T. Hu: Molecular and Computational Biology,
Rong Jiang: Molecular and Computational Biology,
N. Wayan Muliyati: University of Chicago, Chicago, Illinois 60637, USA
Xu Zhang: University of Chicago, Chicago, Illinois 60637, USA
Muhammad Ali Amer: Molecular and Computational Biology,
Ivan Baxter: Bindley Bioscience Center,
Benjamin Brachi: Laboratoire de Génétique et Evolution des Populations Végétales, UMR CNRS 8016, Université des Sciences et Technologies de Lille 1
Joanne Chory: Howard Hughes Medical Institute, La Jolla, California 92037, USA
Caroline Dean: John Innes Centre
Marilyne Debieu: Max Planck Institute for Plant Breeding Research
Juliette de Meaux: Max Planck Institute for Plant Breeding Research
Joseph R. Ecker: Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, California 92037, USA
Nathalie Faure: Laboratoire de Génétique et Evolution des Populations Végétales, UMR CNRS 8016, Université des Sciences et Technologies de Lille 1
Joel M. Kniskern: University of Chicago, Chicago, Illinois 60637, USA
Jonathan D. G. Jones: Sainsbury Laboratory
Todd Michael: Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, California 92037, USA
Adnane Nemri: Sainsbury Laboratory
Fabrice Roux: University of Chicago, Chicago, Illinois 60637, USA
David E. Salt: Purdue University, West Lafayette, Indiana 47907, USA
Chunlao Tang: Molecular and Computational Biology,
Marco Todesco: Max Planck Institute for Developmental Biology
M. Brian Traw: University of Chicago, Chicago, Illinois 60637, USA
Detlef Weigel: Max Planck Institute for Developmental Biology
Paul Marjoram: Keck School of Medicine, University of Southern California, Los Angeles, California 90089, USA
Justin O. Borevitz: University of Chicago, Chicago, Illinois 60637, USA
Joy Bergelson: University of Chicago, Chicago, Illinois 60637, USA
Magnus Nordborg: Molecular and Computational Biology,

Nature, 2010, vol. 465, issue 7298, 627-631

Abstract: The genetics of plant variety Large-scale genome-wide association (GWA) studies have become an important tool in human genomics, mostly focused on disease but also on adaptive variations such as skin colour. The technique is now shown to be similarly useful in plants. Atwell et al. report a GWA study of over a hundred phenotypes in naturally occurring inbred lines of Arabidopsis thaliana. The results range from significant associations, usually for single genes, to more difficult-to-interpret findings that indicate confounding by complex genetics and population structure. The accompanying paper by Todesco et al. demonstrates the ability of this technique to detect major-effect gene loci. Using forward genetics and GWA analyses, they show that variation at a single locus (ACD6) in Arabidopsis underlies phenotypic variation in vegetative growth as well as resistance to infection. The strong enhancement of resistance mediated by one of the alleles at this locus explains its persistence in natural populations throughout the world, despite it drastically reducing new leaf production.

Date: 2010
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DOI: 10.1038/nature08800

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