Statistical Techniques for Defining Reference Sets of Accessions and Microsatellite Markers

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dc.contributor.authorOdong, T. L.
dc.contributor.authorHecrwaarden, J. van
dc.contributor.authorJansen, J.
dc.contributor.authorvan Hintum, T.J. L.
dc.contributor.authorEeuwijk, F. A. van
dc.date.accessioned2022-08-25T04:50:18Z
dc.date.available2022-08-25T04:50:18Z
dc.date.issued2011
dc.description.abstractExploitation of the available genetic resources around the world requires information about the relationships and genetic diversify present among gene bank collections. These relations can be established by defining for each crop a small but informative set of accessions, together with a small set of reliable molecular markers, that can be used as reference material. In this study, various strategies to arrive at small but informative reference sets are discussed. For selection of accessions, we proposed genetic distance optimization (GDOpt) method, which selects a subset of accessions that optimally represent the accessions not included in the core collection. The performance of GDOpt was compared with Core Hunter, an advanced stochastic local search algorithm for selecting core subsets. For the selection of molecular markers, we evaluated (i) the backward elimination (BE) method and (ii) methods based on principal component analysis (PCA). We examined the performance of the proposed methodologies using five real datasets. Relative to average distance between an accession and the nearest selected accession (repressiveness), GDOpt outperformed Core Hunter. However, Core Hunter outperformed GDOpt with respect to allelic richness. The BE performed much better than other methods in selecting subsets of markers. Methods based on PCA showed that, for practical purposes, the inclusion of the first few (two or three) principal components (PCs) was often sufficient. To obtain robust and high qualify reference sets of accessions and markers we advise a combination of GDOpt (for accessions) and BE or methods based on PCA using a few PCs (for subsets of markers).en_US
dc.identifier.citationOdong, T. L., van Heerwaarden, J., Jansen, J., van Hintum, T. J., & van Eeuwijk, F. A. (2011). Statistical techniques for defining reference sets of accessions and microsatellite markers. Crop science, 51(6), 2401-2411.en_US
dc.identifier.uridoi: 10.2135/cropsci2011.02.0095
dc.identifier.urihttps://nru.uncst.go.ug/handle/123456789/4421
dc.language.isoenen_US
dc.publisherCrop scienceen_US
dc.subjectTechniquesen_US
dc.subjectReference Setsen_US
dc.subjectAccessionsen_US
dc.subjectMicrosatellite Markersen_US
dc.titleStatistical Techniques for Defining Reference Sets of Accessions and Microsatellite Markersen_US
dc.typeArticleen_US
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