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

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.

doi:10.1534/genetics.118.301589

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

Journal Article · 09 January 2019 · Genetics

DOI: https://doi.org/10.1534/genetics.118.301589 · OSTI ID:1493985

Wilson, Pip B. ^[1];

^[1]; Murray, Kevin D. ^[1]; Eichten, Steve R. ^[1]; Cheng, Riyan ^[2]; Aitken, Nicola C. ^[1]; Spokas, Kurt ^[3]; Warthmann, Norman ^[1]; Gordon, Sean P. ^[4]; Vogel, John P. ^[4];

^[1]

Australian National Univ., Canberra, ACT (Australia)
Univ. of California, San Diego, CA (United States); Australian National Univ., Canberra, ACT (Australia)
United States Department of Agriculture (USDA), St. Paul, MN (United States)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)

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 B. distachyon 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.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Contributing Organization:: Accession Contributors

Grant/Contract Number:: AC05-00OR22725

OSTI ID:: 1493985

Journal Information:: Genetics, Vol. 211, Issue 1; ISSN 0016-6731

Publisher:: Genetics Society of AmericaCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 12 works

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Genetic Variation for Seed Metabolite Levels in Brachypodium distachyon Onda, Yoshihiko; Inoue, Komaki; Sawada, Yuji International Journal of Molecular Sciences, Vol. 20, Issue 9 https://doi.org/10.3390/ijms20092348	journal	May 2019
Extending the Genotype in Brachypodium by Including DNA Methylation Reveals a Joint Contribution with Genetics on Adaptive Traits Eichten, Steven R.; Srivastava, Akanksha; Reddiex, Adam J. G3 Genes\|Genomes\|Genetics, Vol. 10, Issue 5 https://doi.org/10.1534/g3.120.401189	journal	May 2020

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