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Maize Association Population: A High-resolution Platform For Quantitative Trait Locus Dissection.

S. Flint-Garcia, Anne-Céline Thuillet, J. Yu, Gael Pressoir, Susan Romero, S. E. Mitchell, J. Doebley, S. Kresovich, M. Goodman, E. Buckler
Published 2005 · Biology, Medicine

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Crop improvement and the dissection of complex genetic traits require germplasm diversity. Although this necessary phenotypic variability exists in diverse maize, most research is conducted using a small subset of inbred lines. An association population of 302 lines is now available--a valuable research tool that captures a large proportion of the alleles in cultivated maize. Provided that appropriate statistical models correcting for population structure are included, this tool can be used in association analyses to provide high-resolution evaluation of multiple alleles. This study describes the population structure of the 302 lines, and investigates the relationship between population structure and various measures of phenotypic and breeding value. On average, our estimates of population structure account for 9.3% of phenotypic variation, roughly equivalent to a major quantitative trait locus (QTL), with a high of 35%. Inclusion of population structure in association models is critical to meaningful analyses. This new association population has the potential to identify QTL with small effects, which will aid in dissecting complex traits and in planning future projects to exploit the rich diversity present in maize.
This paper references
Mapping quantitative trait loci in plant breeding populations
R. Jansen (2003)
Quantitative trait loci (QTL) detection in multicross inbred designs: recovering QTL identical-by-descent status information from marker
S. Crepieux (2004)
Patterns of DNA sequence polymorphism along chromosome 1 of maize ( Zeamays ssp
M. I. Tenaillon (2001)
Association analysis of flavonoid structural loci for maysin and chlorogenic acid synthesis inmaize silks
S. J. Szalma (2005)
Dissection of Maize Kernel Composition and Starch Production by Candidate Gene Association
L. Wilson (2004)
Empirical threshold values for quantitative trait mapping.
G. Churchill (1994)
) GENETIX, Software (Windows) for Population Genetics
K Belkhir (2001)
Use of unlinked genetic markers to detect population stratification in association studies.
J. Pritchard (1999)
Phylip - phylogeny inference package (version 3
J. Felsenstein (1989)
The genetical structure of populations
S. Wright (1951)
Expanding the genetic map of maize with the intermated B73 × Mo17 (IBM) population
M. Lee (2004)
Patterns of DNA sequence polymorphism along chromosome 1 of maize (Zea mays ssp. mays L.)
M. Tenaillon (2001)
Homoplasy and mutation model at microsatellite loci and their consequences for population genetics analysis.
A. Estoup (2002)
Structure of linkage disequilibrium in plants.
S. Flint-Garcia (2003)
Gm3;5,13,14 and type 2 diabetes mellitus: an association in American Indians with genetic admixture.
W. Knowler (1988)
Detecting association in a case‐control study while correcting for population stratification
David E. Reich (2001)
Dwarf8 polymorphisms associate with variation in flowering time
J. Thornsberry (2001)
GENETIX, Software (Windows) for Population Genetics. Montpellier, France: Laboratoire Génome, Populations
K. Belkhir (2001)
Identification of the cystic fibrosis gene: genetic analysis.
B. Kerem (1989)
Association analysis of flavonoid structural loci for maysin and chlorogenic acid synthesis in maize silks
S J Szalma (2005)
Gerdes, J.T., Behr, C.F., Coors, H.G., Tracy, W.F.: Compilation of North American Maize Breeding Germplasm
N. Avratovščuková (2004)
Introduction to quantitative genetics
H. Grüneberg (1960)
SAS Proprietary Software Release 8.2
Sas Institute (1999)
Efficiency of marker-assisted selection in the improvement of quantitative traits.
R. Lande (1990)
A measure of population subdivision based on microsatellite allele frequencies.
M. Slatkin (1995)
The power of association studies to detect the contribution of candidate genetic loci to variation in complex traits.
A. Long (1999)
A single domestication for maize shown by multilocus microsatellite genotyping
Y. Matsuoka (2002)
Using natural allelic diversity to evaluate gene function.
S. Whitt (2003)
Quantitative Trait Loci (QTL) Detection in Multicross Inbred Designs
S. Crepieux (2004)
Association analysis of candidate genes for maysin and chlorogenic acid accumulation in maize silks
S. Szalma (2005)
Linkage disequilibrium mapping of the bolting gene in sea beet using AFLP markers.
M. Hansen (2001)
Association mapping in structured populations.
J. Pritchard (2000)
Plant molecular diversity and applications to genomics.
E. Buckler (2002)
Laboratoire Gé nome, Populations, Interactions CNRS UMR 5000
France Montpellier
Gm and type 2 diabetes mellitus: an association in American Indians with genetic admixture
W. C. Knowler (1988)
Contrasting Effects of Selection on Sequence Diversity and Linkage Disequilibrium at Two Phytoene Synthase Loci Online version contains Web-only data. Article, publication date, and citation information can be found at
Kelly A Palaisa (2003)
Applications of single nucleotide polymorphisms in crop genetics.
A. Rafalski (2002)
Quantitative Genetics in Maize Breeding , 2nd edn. By A. R. Hallauer & J. B. Miranda Filho. xii+468 pages. Ames: Iowa State University Press. 1988. Price (hard covers) US $44.95. ISBN 0 8138 1522 3.
W. J. Ridgman (1989)
and High-resolution maize association population
D L Remington (1063)
Trichome distribution in Arabidopsis thaliana and its close relative Arabidopsis lyrata: molecular analysis of the candidate gene GLABROUS1.
M. T. Hauser (2001)
Structure of linkage disequilibrium and phenotypic associations in the maize genome
D. Remington (2001)
2000a) Inference of population structure using multilocus genotype
J. K. Pritchard (2000)
The power and deceit of QTL experiments: lessons from comparative QTL studies
W. Beavis (1994)
Protective effect of apolipoprotein E type 2 allele for late onset Alzheimer disease
E. Corder (1994)
Compilation of North American Maize Breeding Germplasm. Madison, WI: Crop Science Society of America
J. T. Gerdes (1993)
The Plant Journal
Identification of the cystic fibrosis gene.
T. Peters (1990)
Genetic isolation by distance in Arabidopsis thaliana: biogeography and postglacial colonization of Europe.
T. Sharbel (2000)
Inference of population structure using multilocus genotype data.
J. Pritchard (2000)
Genetic structure and diversity among maize inbred lines as inferred from DNA microsatellites.
K. Liu (2003)
Identification of the cystic fibrosis gene: genetic analysis.
B. Kerem (1989)
Genetical Structure of Populations
S. Wright (1950)
Quantitative Genetics in Maize Breeding
A. Hallauer (1981)

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