Global Diversity of the Brachypodium Species Complex as a Resource for Genome-Wide Association Studies Demonstrated for Agronomic Traits in Response to Climate

The development of model systems requires a detailed assessment of standing genetic variation across natural populations. The Brachypodium species complex has been promoted as a plant model for grass genomics with translation to small grain and biomass crops. To capture the genetic diversity within...

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Bibliographic Details
Published in:Genetics (Austin) 2019-01, Vol.211 (1), p.317-331
Main Authors: Wilson, Pip B, Streich, Jared C, Murray, Kevin D, Eichten, Steve R, Cheng, Riyan, Aitken, Nicola C, Spokas, Kurt, Warthmann, Norman, Gordon, Sean P, Vogel, John P, Borevitz, Justin O
Format: Article
Language:English
Subjects:
Agricultural production
Agronomy
Barley
BASIC BIOLOGICAL SCIENCES
Biodiversity
Bioinformatics
Biomass
Brachypodium
Climate change
Climatic conditions
Computer simulation
Consortia
Efficiency
Energy
Energy crops
Flowering
Gene sequencing
Genetic diversity
Genetics
Genome-wide association studies
Genomes
Genomics
Genotypes
Grain
Grasses
Inbreeding
Investigations
Life history
Natural populations
Phenotyping
Population genetics
Principal components analysis
Quantitative trait loci
Respiration
Species
Species diversity
Vigor
Wheat
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Summary:The development of model systems requires a detailed assessment of standing genetic variation across natural populations. The Brachypodium species complex has been promoted as a plant model for grass genomics with translation to small grain and biomass crops. To capture the genetic diversity within this species complex, thousands of Brachypodium accessions from around the globe were collected and genotyped by sequencing. Overall, 1897 samples were classified into two diploid or allopolyploid species, and then further grouped into distinct inbred genotypes. A core set of diverse diploid lines was selected for whole genome sequencing and high resolution phenotyping. Genome-wide association studies across simulated seasonal environments was used to identify candidate genes and pathways tied to key life history and agronomic traits under current and future climatic conditions. A total of 8, 22, and 47 QTL were identified for flowering time, early vigor, and energy traits, respectively. The results highlight the genomic structure of the Brachypodium species complex, and the diploid lines provided a resource that allows complex trait dissection within this grass model species.
ISSN:1943-2631
0016-6731
1943-2631
DOI:10.1534/genetics.118.301589