A5001507986- Genetic Mapping and Diversity in Plants and Animals
- Plant Molecular Biology Research
- Plant Reproductive Biology
- Chromosomal and Genetic Variations
- Genetic diversity and population structure
- Genetic and phenotypic traits in livestock
- Evolution and Genetic Dynamics
- Genomics and Phylogenetic Studies
- Genetic Associations and Epidemiology
- Plant nutrient uptake and metabolism
- Plant and animal studies
- Photosynthetic Processes and Mechanisms
- Plant-Microbe Interactions and Immunity
- Plant Virus Research Studies
- Plant Parasitism and Resistance
- Genetics, Bioinformatics, and Biomedical Research
- Plant tissue culture and regeneration
- Plant Disease Resistance and Genetics
- Genetics and Plant Breeding
- Gene expression and cancer classification
- Plant Stress Responses and Tolerance
- Plant Gene Expression Analysis
- Nutrition, Genetics, and Disease
- Seed Germination and Physiology
- Legume Nitrogen Fixing Symbiosis
Gregor Mendel Institute of Molecular Plant Biology
2016-2025
Austrian Academy of Sciences
2016-2025
Vienna Biocenter
2015-2025
University of California, Davis
2024
University of Freiburg
2024
University of Southern California
2005-2016
Southern California University for Professional Studies
2003-2008
University of Utah
2007
University of California, Los Angeles
2007
Medical Research Council
2007
We resequenced 876 short fragments in a sample of 96 individuals Arabidopsis thaliana that included stock center accessions as well hierarchical from natural populations. Although A. is selfing weed, the pattern polymorphism general agrees with what expected for widely distributed, sexually reproducing species. Linkage disequilibrium decays rapidly, within 50 kb. Variation shared worldwide, although population structure and isolation by distance are evident. The data fail to fit standard...
A potentially serious disadvantage of association mapping is the fact that marker-trait associations may arise from confounding population structure as well linkage to causative polymorphisms. Using genome-wide marker data, we have previously demonstrated problem can be severe in a global sample 95 Arabidopsis thaliana accessions, and established methods for controlling are generally insufficient. Here, use same together with number flowering-related phenotypes data-perturbation simulations...
Levels of neutral genetic diversity in populations subdivided into two demes were studied by multi-locus stochastic simulations. The model includes deleterious mutations at loci throughout the genome, causing ‘background selection’, as well a single locus which polymorphism is maintained, either frequency-dependent selection or local selective differences. These balanced polymorphisms induce long coalescence times linked loci, so that sequence these enhanced statistical equilibrium. We study...
The genomes of individuals from the same species vary in sequence as a result different evolutionary processes. To examine patterns of, and forces shaping, variation Arabidopsis thaliana , we performed high-density array resequencing 20 diverse strains (accessions). More than 1 million nonredundant single-nucleotide polymorphisms (SNPs) were identified at moderate false discovery rates (FDRs), ∼4% genome was being highly dissimilar or deleted relative to reference sequence. Patterns...
Local adaptation is critical for species persistence in the face of rapid environmental change, but its genetic basis not well understood. Growing model plant Arabidopsis thaliana field experiments four sites across species' native range, we identified candidate loci local from a genome-wide association study lifetime fitness geographically diverse accessions. Fitness-associated exhibited both geographic and climatic signatures adaptation. Relative to genomic controls, high-fitness alleles...
The domestic dog exhibits greater diversity in body size than any other terrestrial vertebrate. We used a strategy that exploits the breed structure of dogs to investigate genetic basis size. First, through genome-wide scan, we identified major quantitative trait locus (QTL) on chromosome 15 influencing variation within single breed. Second, examined 15-megabase interval surrounding QTL small and giant breeds found marked evidence for selective sweep spanning gene (IGF1), encoding...
Epigenome modulation potentially provides a mechanism for organisms to adapt, within and between generations. However, neither the extent which this occurs, nor mechanisms involved are known. Here we investigate DNA methylation variation in Swedish Arabidopsis thaliana accessions grown at two different temperatures. Environmental effects were limited transposons, where CHH was found increase with temperature. Genome-wide association studies (GWAS) revealed that extensive strongly associated...
Flowering time is a key life-history trait in the plant life cycle. Most studies to unravel genetics of flowering Arabidopsis thaliana have been performed under greenhouse conditions. Here, we describe study about that differs from previous two important ways: first, measure more complex and ecologically realistic environment; and, second, combine advantages genome-wide association (GWA) traditional linkage (QTL) mapping. Our experiments involved phenotyping nearly 20,000 plants over 2...
There is currently tremendous interest in the possibility of using genome-wide association mapping to identify genes responsible for natural variation, particularly human disease susceptibility. The model plant Arabidopsis thaliana many ways an ideal candidate such studies, because it a highly selfing hermaphrodite. As result, species largely exists as collection naturally occurring inbred lines, or accessions, which can be genotyped once and phenotyped repeatedly. Furthermore, linkage...
Abstract It is shown that partial self-fertilization can be introduced into neutral population genetic models with recombination as a simple change in the scaling of parameters. This means statistical and computational methods have been developed under assumption random mating used without modification, provided appropriate parameter changes are made. An important prediction all forms linkage disequilibrium will more extensive selfing species. The implications this discussed.
Stephen Wright, Detlef Weigel and colleagues report the whole-genome sequence of Capsella rubella, a highly selfing crucifer found throughout much southern western Europe. They compare mixed-stage flower bud transcriptomes from C. rubella grandiflora, finding shift in expression genes associated with flowering phenotypes providing insights into transition to selfing. The outcrossing is common plants1,2, but genomic consequences speed at which they emerge remain poorly understood. An...
Abstract Arabidopsis (Arabidopsis thaliana) accessions provide an excellent resource to dissect the molecular basis of adaptation. We have selected 192 collected represent worldwide and local variation analyzed two adaptively important traits, flowering time vernalization response. There was huge in habit different accessions, with no simple relationship latitude collection site considerable diversity occurring within regions. explored contribution this from genes FRIGIDA (FRI) FLOWERING...