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A comparison of population types used for QTL mapping in Arabidopsis thaliana

Published online by Cambridge University Press:  17 March 2011

Joost J. B. Keurentjes ,
Glenda Willems ,
Fred van Eeuwijk ,
Magnus Nordborg  and
Maarten Koornneef
Joost J. B. Keurentjes
Affiliation:
Wageningen University, Wageningen, The Netherlands Centre for Biosystems Genomics, Wageningen, The Netherlands
Glenda Willems
Affiliation:
University of Southern California, Los Angeles, CA, USA Max Planck Institute for Plant Breeding Research, Cologne, Germany
Fred van Eeuwijk
Affiliation:
Wageningen University, Wageningen, The Netherlands Centre for Biosystems Genomics, Wageningen, The Netherlands
Magnus Nordborg
Affiliation:
University of Southern California, Los Angeles, CA, USA Gregor Mendel Institute, Vienna, Austria
Maarten Koornneef*
Affiliation:
Wageningen University, Wageningen, The Netherlands Max Planck Institute for Plant Breeding Research, Cologne, Germany
*
*Corresponding author. E-mail: maarten.koornneef@wur.nl
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Abstract

In Arabidopsis, a variety of mapping populations have been used for the detection of quantitative trait loci (QTLs) responsible for natural variation. In this study, we present an overview of the advantages and disadvantages of the different types of populations used. To do this, we compare the results of both experimental and natural populations for the commonly analysed trait flowering time. It is expected that genome wide association (GWA) mapping will be an increasingly important tool for QTL mapping because of the high allelic richness and mapping resolution in natural populations. In Arabidopsis, GWA mapping becomes ever more facilitated by the increasing availability of re-sequenced genomes of many accessions. However, specifically designed mapping populations such as recombinant inbred lines and near isogenic lines will remain important. The high QTL detection power of such experimental populations can identify spurious GWA associations, and their unique genomic structure is superior for investigating the role of low-frequency alleles. Future QTL studies will therefore benefit from a combined approach of GWA and classical linkage analysis.

Keywords

Arabidopsis thalianaflowering timenatural variationquantitative trait loci mapping
Type
Research Article
Information
Plant Genetic Resources , Volume 9 , Issue 2 , July 2011 , pp. 185 - 188
Copyright
Copyright © NIAB 2011

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