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The Hordeum Toolbox: The Barley Coordinated Agricultural Project Genotype and Phenotype Resource 公开 Deposited

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https://ir.library.oregonstate.edu/concern/articles/9z9030604

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  • The use of DNA markers in public sector plant breeding is now the norm. Such markers are common across breeding programs and this commonality enables and enhances collaboration. Therefore, large collaborative research projects that measure several phenotypes across multiple environments coupled with the expanding amount of genotype data attainable with current marker technologies are on the rise and these projects demand efficient data delivery. However, development of computational tools for advanced data integration, visualization, and analysis is still a bottleneck, even though these resources have the greatest potential impact for users who are extracting and developing hypothesis-based solutions. The Hordeum Toolbox (THT) was developed as a data resource for the Barley Coordinated Agricultural Project (CAP) with the novel capability of constructing user-defined downloadable sets of phenotype and/or genotype data for downstream analysis. Internal tools in THT enable users to create clusters of a selected group of lines based on genotype data, parse pedigrees, and select germplasm based on haplotype, phenotype, and agronomic properties. The Hordeum Toolbox can be adapted to breeding programs or collaborations to assist researchers in germplasm selection, genotype data visualization, and the integration of complex data sets for statistical analysis
  • This is the publisher’s final pdf. The published article is copyrighted by the Crop Science Society of America and can be found at: https://www.crops.org/publications/tpg
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  • Blake, V. C., Kling, J. G., Hayes, P. M., Jannink, J., Jillella, S. R., Matthews, D. E., ... Dickerson, J. A. (2012, July). The Hordeum Toolbox: The Barley Coordinated Agricultural Project Genotype and Phenotype Resource. Plant Genome, 5(2), 81-91. doi: 10.3835/plantgenome2012.03.0002
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  • 5
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  • 2
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  • This research was supported by USDA-CSREES-NRI Grant No. 2006-55606-16722 and USDA-NIFA Grant No. 2009-85606-05701, “Barley Coordinated Agricultural Project: Leveraging Genomics, Genetics, and Breeding for Gene Discovery and Barley Improvement.” Maintenance and further development of THT by GrainGenes is supported by USDA-ARS project 5325-21000-014-00, “An Integrated Database and Bioinformatics Resource for Small Grains.” This publication was supported by funds received from the “Triticeae Coordinated Agricultural Project (TCAP)” USDA-NIFA Grant no. 2011-68002-30029.
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