• Corpus ID: 8587556

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

@inproceedings{Atwell2010GenomewideAS,
  title={Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines},
  author={Susanna Atwell and Yu S. Huang and Bjarni J{\'o}hann Vilhj{\'a}lmsson and Glenda Willems and Matthew W Horton and Yan Li and Dazhe Meng and Alexander Platt and Aaron M. Tarone and Tina T. Hu and Rong Jiang and Ni Wayan Muliyati and Xu Zhang and Muhammad Ali Amer and Ivan R. Baxter and Benjamin Brachi and Joanne Chory and Caroline Dean and Marilyne Debieu and Juliette de Meaux and Joseph R. Ecker and Nathalie Faure and Joel M. Kniskern and Jonathan D. G. Jones and Todd P. Michael and Adnane Nemri and Fabrice Roux and David E. Salt and Chunlao Tang and Marco Todesco and Milton Brian Traw and Detlef Weigel and Paul Marjoram and Justin O. Borevitz and Joy Bergelson and Magnus Nordborg},
  year={2010}
}
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… 
gepv.univ-lille1.fr
892 Citations
Highly Influential Citations
129
Background Citations
399
Methods Citations
180
Results Citations
32

Figures from this paper

892 Citations

Genetics and Genomics of Rice

Ch.1: A reference rice genome sequence in the 10K genome era Takeshi Itoh, Baltazar A. Antonio, Yoshihiro Kawahara, Tsuyoshi Tanaka, Hiroaki Sakai, Takashi Matsumoto, Takuji Sasaki Ch. 2: The Wild…

ish in g . or g ) A SNP-Based Genetic Linkage Map of Soybean Using the SoyS-NP 6 K Illumina Infinium BeadChip Genotyping Array

1 Plant Genomics & Biotechnology Lab, Department of Biological Sciences, Fayetteville State University, Fayetteville, NC 28301, USA; 2 Department of Plant, Soil, and Agricultural Systems, Southern…

1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana

  • Carlos Jorge Claude Felix Joy Karsten M. Jun Eunyoung Tod Alonso-Blanco Andrade Becker Bemm Bergelson BorgwaC. Alonso‐Blanco Xuefeng Zhou
  • Biology
    Cell
  • 2016

Revisiting a GWAS peak in Arabidopsis thaliana reveals possible confounding by genetic heterogeneity

It is demonstrated that the AOP2/AOP3 flowering association can be wholly accounted for by allelic variation in two flanking genes with clear roles in regulating flowering: NDX1, a regulator of the main flowering time controller FLC, and GA1, which plays a central role in gibberellin synthesis and is required for flowering under some conditions.

Natural variation in GA1 associates with floral morphology in Arabidopsis thaliana.

It is interesting that adjacent petal and stamen whorls are most strongly affected in GA1, which suggests that GA1 could contribute to the greater strength of petal-stamen correlations relative to other floral-length correlations observed in some Brassicaceous species.

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

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 and future QTL studies will benefit from a combined approach of GWA and classical linkage analysis.

The Flowering Repressor SVP Underlies a Novel Arabidopsis thaliana QTL Interacting with the Genetic Background

Results support that the flowering repressor SVP has been recently selected in A. thaliana as a target for early flowering, and evidence the relevance of genetic interactions for the intraspecific evolution of FAQ1/SVP and flowering time.

Characterization of a heat-activated retrotransposon in natural accessions of Arabidopsis thaliana.

ONSEN, a heat-activated long terminal repeat (LTR) retrotransposon, in natural A. thaliana accessions was characterized and several ONSEN copies in Col-0 were activated by heat stress and maintained their transpositional activity in the progeny.

GWA Mapping of Anthocyanin Accumulation Reveals Balancing Selection of MYB90 in Arabidopsis thaliana

Analysis of the geographical origin of the studied accessions suggests that the macro climate is not the driving force behind positive or negative selection for anthocyanin accumulation, and GWA mapping is a powerful approach to identify alleles that are under balancing selection pressure in nature.

Combination of multi-locus genome-wide association study and QTL mapping reveals genetic basis of tassel architecture in maize

The findings of the present study improve the understanding of the genetic basis of tassel architecture in maize and identify the putative target of the RA1 gene.
...

References

SHOWING 1-10 OF 27 REFERENCES

Genome-Wide Association Mapping in Arabidopsis Identifies Previously Known Flowering Time and Pathogen Resistance Genes

The feasibility of genome-wide association mapping in A. thaliana was tested by searching for associations with flowering time and pathogen resistance in a sample of 95 accessions for which genome- wide polymorphism data were available, and known major genes were identified for all phenotypes tested.

Recombination and linkage disequilibrium in Arabidopsis thaliana

The genome-wide pattern of LD in a sample of 19 Arabidopsis thaliana accessions using 341,602 non-singleton SNPs is described, finding clear evidence of recombination hotspots, which seem to occur preferentially in intergenic regions.

An Arabidopsis Example of Association Mapping in Structured Samples

By combining the association results with results from linkage mapping in F2 crosses, this study identifies one previously known true positive and several promising new associations, but also demonstrates the existence of both false positives and false negatives.

The extent of linkage disequilibrium in Arabidopsis thaliana

It is shown that in global samples, LD decays within approximately 1 cM, or 250 kb, and that LD in local populations may be much stronger than that of global populations, presumably as a result of founder events.

A Nonparametric Test Reveals Selection for Rapid Flowering in the Arabidopsis Genome

It is demonstrated that selection has acted to increase the frequency of early-flowering alleles at the vernalization requirement locus FRIGIDA, and a novel test statistic based on haplotype sharing is introduced that embraces the problem of population structure, and so should be widely applicable.

The Pattern of Polymorphism in Arabidopsis thaliana

The data support the utility of A. thaliana as a model for evolutionary functional genomics and suggest there is a genome-wide excess of rare alleles and too much variation between genomic regions in the level of polymorphism.

Naturally occurring genetic variation in Arabidopsis thaliana.

The analysis of Arabidopsis natural genetic variation for flowering time revealed the identity of several genes, some of which correspond to genes with previously unknown function, which might provide new insights into the networks of gene regulation.

Cloning of DOG1, a quantitative trait locus controlling seed dormancy in Arabidopsis

The identification of the DELAY of GERMINation 1 (DOG1) gene previously identified as a quantitative trait locus involved in the control of seed dormancy is described.

Natural Variants of AtHKT1 Enhance Na+ Accumulation in Two Wild Populations of Arabidopsis

The coupling of high-throughput elemental profiling of shoot tissue from various Arabidopsis accessions with DNA microarray-based bulk segregant analysis and reverse genetics opens up a vast and tractable source of natural variation for the identification of gene function not only in ionomics but also in many other biological processes.

Variation in Molybdenum Content Across Broadly Distributed Populations of Arabidopsis thaliana Is Controlled by a Mitochondrial Molybdenum Transporter (MOT1)

This work provides the first molecular insight into the processes that regulate Mo accumulation in plants and shows that novel loci can be detected by association mapping.