Thesis
QTL analysis/validation of spike-architecture traits in wheat (Triticum aestivum L.), identification of new flanking club (C) gene loci, and club and lax seed identification by machine learning
Washington State University
Master of Science (MS), Washington State University
2018
Handle:
https://hdl.handle.net/2376/103015
Abstract
Club wheat (Triticum aestivum ssp. compactum) and lax wheat (Triticum aestivum spp. aestivum) are defined by morphological traits such as a compacted spike, quality traits, and disease resistance. Two bi-parental mapping populations, 'Brundage'/'Coda' and 'Cara'/'Xerpha', and one association mapping panel were used in this analysis. The traits being assessed were plant height, spike-architecture traits of rachis length, seeds per rachis and number of nodes per rachis, seed morphology traits of perimeter, area, major ellipse, minor ellipse and color. The objectives of this project were: (1) Identify new markers that flank the C gene region in multiple genetic backgrounds; (2) Investigate QTL from traits related to spike-architecture in both biparental mapping populations and the association mapping panel; (3) Validate loci from QTL analysis in both bi-parental mapping populations and the association mapping panel; and (4) Identify a machine learning method to classify club and lax wheat. It was concluded markers IWA2961 and IWB46396, identified in the association mapping panel provided new flanking markers for the C gene region. This maker provided flanking intervals that could be used for molecular cloning and functional characterization. The whole genome was scanned for validation of hundred-seed weight on chromosome 4B, plant height on chromosome 4B, and C gene loci on chromosome 2D. Spike-architecture traits of nodes per rachis, seeds per rachis, and hundred-seed weight were associated with four chromosomes each. Markers IWA2961, IWB46396, IWA5542, WPt-2644, IWA8487, and the compactum locus were localized to 10.3 cM near the centromere on chromosome 2D with associations for rachis length, spike compactness, seeds per rachis, hundred-seed weight, and plant height. Both bi-parental populations were used to classify seeds as club or lax types of wheat according to a digital image analysis with seed morphology. The support vector machine (SVM) (0.50 to 0.91 percent matched genotypes) was used to predict club wheat seeds as club and lax as fifteen-gram samples. To predict grain graded club and lax genotypes, the SVM algorithm showed the best results (did not match 5 out of 26 genotypes).
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Details
- Title
- QTL analysis/validation of spike-architecture traits in wheat (Triticum aestivum L.), identification of new flanking club (C) gene loci, and club and lax seed identification by machine learning
- Creators
- Jacob Lamkey
- Contributors
- Kimberly Garland-Campbell (Degree Supervisor)
- Awarding Institution
- Washington State University
- Academic Unit
- Crop and Soil Sciences, Department of
- Theses and Dissertations
- Master of Science (MS), Washington State University
- Publisher
- Washington State University; [Pullman, Washington] :
- Identifiers
- 99900525055601842
- Language
- English
- Resource Type
- Thesis