Journal article
Gene-set association and epistatic analyses reveal complex gene interaction networks affecting flowering time in a worldwide barley collection
Journal of Experimental Botany, Vol.70(20), pp.5603-5616
2019
Abstract
Single-marker genome-wide association studies (GWAS) have successfully detected associations between single nucleotide polymorphisms (SNPs) and agronomic traits such as flowering time and grain yield in barley. However, the analysis of individual SNPs can only account for a small proportion of genetic variation, and can only provide limited knowledge on gene network interactions. Gene-based GWAS approaches provide enormous opportunity both to combine genetic information and to examine interactions among genetic variants. Here, we revisited a previously published phenotypic and genotypic data set of 895 barley varieties grown in two years at four different field locations in Australia. We employed statistical models to examine gene–phenotype associations, as well as two-way epistasis analyses to increase the capability to find novel genes that have significant roles in controlling flowering time in barley. Genetic associations were tested between flowering time and corresponding genotypes of 174 putative flowering time-related genes. Gene–phenotype association analysis detected 113 genes associated with flowering time in barley, demonstrating the unprecedented power of gene-based analysis. Subsequent two-way epistasis analysis revealed 19 pairs of gene×gene interactions involved in controlling flowering time. Our study demonstrates that gene-based association approaches can provide higher capacity for future crop improvement to increase crop performance and adaptation to different environments.
Details
- Title
- Gene-set association and epistatic analyses reveal complex gene interaction networks affecting flowering time in a worldwide barley collection
- Authors/Creators
- T. He (Author/Creator) - Murdoch UniversityC.B. Hill (Author/Creator) - Murdoch UniversityT.T. Angessa (Author/Creator) - Murdoch UniversityX-Q Zhang (Author/Creator) - Murdoch UniversityK. Chen (Author/Creator) - Curtin UniversityD. Moody (Author/Creator) - InterGrainP. Telfer (Author/Creator) - Australian Grain Technologies Pty Ltd (AGT), SA, Australia.S. Westcott (Author/Creator) - Department of Primary Industries and Regional DevelopmentC. Li (Author/Creator) - Department of Primary Industries and Regional Development
- Publication Details
- Journal of Experimental Botany, Vol.70(20), pp.5603-5616
- Publisher
- Oxford University Press
- Identifiers
- 991005542924807891
- Copyright
- © The Author(s) 2019.
- Murdoch Affiliation
- College of Science, Health, Engineering and Education; State Agricultural Biotechnology Centre; Western Barley Genetics Alliance
- Language
- English
- Resource Type
- Journal article
UN Sustainable Development Goals (SDGs)
This output has contributed to the advancement of the following goals:
Metrics
48 File views/ downloads
74 Record Views
InCites Highlights
These are selected metrics from InCites Benchmarking & Analytics tool, related to this output
- Collaboration types
- Industry collaboration
- Domestic collaboration
- International collaboration
- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.96 QTL
- Web Of Science research areas
- Plant Sciences
- ESI research areas
- Plant & Animal Science