Journal ArticleDOI
Effect of population size on the estimation of QTL: a test using resistance to barley stripe rust.
M. I. Vales,Chris-Carolin Schön,F. Capettini,Xianming Chen,Ann Corey,Diane E. Mather,Christopher C. Mundt,K. Richardson,J. S. Sandoval-Islas,H. F. Utz,Patrick M. Hayes +10 more
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TLDR
Selective genotyping and/or selective phenotyping approaches could be effective strategies for reducing the costs associated with conducting QTL analysis in large populations using the barley/barley stripe rust pathosystem to evaluate the effect of population size on the estimation of QTL parameters.Abstract:
The limited population sizes used in many quantitative trait locus (QTL) detection experiments can lead to underestimation of QTL number, overestimation of QTL effects, and failure to quantify QTL interactions. We used the barley/barley stripe rust pathosystem to evaluate the effect of population size on the estimation of QTL parameters. We generated a large (n=409) population of doubled haploid lines derived from the cross of two inbred lines, BCD47 and Baronesse. This population was evaluated for barley stripe rust severity in the Toluca Valley, Mexico, and in Washington State, USA, under field conditions. BCD47 was the principal donor of resistance QTL alleles, but the susceptible parent also contributed some resistance alleles. The major QTL, located on the long arm of chromosome 4H, close to the Mlo gene, accounted for up to 34% of the phenotypic variance. Subpopulations of different sizes were generated using three methods—resampling, selective genotyping, and selective phenotyping—to evaluate the effect of population size on the estimation of QTL parameters. In all cases, the number of QTL detected increased with population size. QTL with large effects were detected even in small populations, but QTL with small effects were detected only by increasing population size. Selective genotyping and/or selective phenotyping approaches could be effective strategies for reducing the costs associated with conducting QTL analysis in large populations. The method of choice will depend on the relative costs of genotyping versus phenotyping.read more
Citations
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Journal ArticleDOI
QTL mapping and marker-assisted selection for Fusarium head blight resistance in wheat: A review
TL;DR: Current knowledge on the genetics of FHB resistance in wheat resulting from QTL mapping investigations are summarized and updated and FHB breeding strategies based on the available information and DNA markers are suggested.
Journal ArticleDOI
Quantitative Disease Resistance and Quantitative Resistance Loci in Breeding
TL;DR: Increasing the biological knowledge of QDR and QRLs will enhance understanding of how QDR differs from qualitative resistance and provide the necessary information to better deploy these resources in breeding.
Journal ArticleDOI
Durable resistance: A key to sustainable management of pathogens and pests
TL;DR: This review briefly addresses what has been learned about resistance durability in recent years, as well as the questions that still remain.
Journal ArticleDOI
Construction and application for QTL analysis of a Restriction Site Associated DNA (RAD) linkage map in barley
Yada Chutimanitsakun,Rick Nipper,Alfonso Cuesta-Marcos,L. Cistué,Ann Corey,T. Filichkina,Eric A. Johnson,Patrick M. Hayes +7 more
TL;DR: It is demonstrated how sequenced RAD markers can be leveraged to produce high quality linkage maps for detection of single gene loci and QTLs.
Journal ArticleDOI
Gains in QTL Detection Using an Ultra-High Density SNP Map Based on Population Sequencing Relative to Traditional RFLP/SSR Markers
TL;DR: This study constructed an ultra-high density genetic map based on high quality single nucleotide polymorphisms (SNPs) from low-coverage sequences of a recombinant inbred line (RIL) population of rice, generated using new sequencing technology.
References
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Journal ArticleDOI
Mapping mendelian factors underlying quantitative traits using rflp linkage maps
Eric S. Lander,David Botstein +1 more
TL;DR: In this paper, a set of analytical methods that modify and extend the classical theory for mapping such quantitative trait loci (QTLs) are described, and explicit graphs are provided that allow experimental geneticists to estimate, in any particular case, the number of progeny required to map QTLs underlying a quantitative trait.
Journal ArticleDOI
Precision mapping of quantitative trait loci.
TL;DR: A new method of QTL mapping is proposed and analyzed in this paper by combining interval mapping with multiple regression, an interval test in which the test statistic on a marker interval is made to be unaffected by QTLs located outside a defined interval.
Journal ArticleDOI
Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.).
TL;DR: Results show that with the software tool developed, EST databases can be efficiently exploited for the development of cDNA-SSRs, EST-derived SSRs are significantly less polymorphic than those derived from genomic regions, a considerable portion of the developed SSRs can be transferred to related species, and compared to RFLP-markers, c DNA- SSRs yield similar patterns of genetic diversity.
Book ChapterDOI
QTL Analyses: Power, Precision, and Accuracy
TL;DR: This article identified significant statistical associations between genotypic values and phenotypic variability among the segregating progeny, defined as the minimum and maximum percent of the variance explained by the significant QTL.
Journal ArticleDOI
A Simple Sequence Repeat-Based Linkage Map of Barley
Luke Ramsay,Malcolm Macaulay,S degli Ivanissevich,K MacLean,Linda Cardle,John Fuller,Keith J. Edwards,S Tuvesson,Michele Morgante,A. Massari,Elena Maestri,Nelson Marmiroli,T Sjakste,Martin W. Ganal,Wayne Powell,Robbie Waugh +15 more
TL;DR: The mapped SSRs provide a framework for rapidly assigning chromosomal designations and polarity in future mapping programs in barley and a convenient alternative to RFLP for aligning information derived from different populations.