Estimating the locations and the sizes of the effects of quantitative trait loci using flanking markers
Abstract
The use of information from flanking markers to estimate the position and size of the effect of a quantitative trait locus (QTL) lying between two markers is shown to be affected by QTLs lying in neighbouring regions of the chromosome. In some situations the effects of two QTLs lying outside the flanked region are reinforced in such a way that a 'ghost' QTL may be mistakenly identified as a real QTL. These problems are discussed in the framework of a backcross using a regression model as the analytical tool to present the theoretical results. Regression models that use information obtained from three or more nearby markers are shown to be useful in separating the effects of QTLs in neighbouring regions. A simulated data set exemplifies the problem and is analysed by the interval mapping method as well as by the regression model.
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Within factorial regression models, markers can serve as explanatory variables, which is at the core of regression-based QTL mapping.
“For example, within the framework of factorial regression models, markers can serve as explanatory variables, which is at the core of regression–based approaches for QTL mapping (Haley and Knott, 1992; Martínez and Curnow, 1992).”
From The statistical analysis of multi-environment data: modeling genotype-by-environment interaction and its genetic basis (2013) · cites this paper as Martínez and Curnow, 1992
Cites
Haley, C. S., & Knott, S. A. (1992) · Heredity · doi:10.1038/hdy.1992.131 · Cited by 1,991 · see citing works
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The Genetic Architecture of Quantitative Traits
Mackay, T. F. C. (2001) · Annual Review of Genetics · doi:10.1146/annurev.genet.35.102401.090633 · Cited by 1,106 · see citing works
Malosetti, M., Ribaut, J.-M., & van Eeuwijk, F. A. (2013) · Frontiers in Physiology · doi:10.3389/fphys.2013.00044 · Cited by 539 · see citing works
“…within the framework of factorial regression models, markers can serve as explanatory variables, which is at the core of regression–based approaches for Frontiers in Physiology | Plant Physiology March 2013 | Volume 4 | Article 44 | 10 QTL mapping (Haley and Knott, 1992; Martínez and Curnow, 1992).”
MethodTUBEROSA, R. (2002) · Annals of Botany · doi:10.1093/aob/mcf134 · Cited by 397 · see citing works
Boer, M. P., Wright, D., Feng, L., Podlich, D. W., Luo, L., Cooper, M., & van Eeuwijk, F. A. (2007) · Genetics · doi:10.1534/genetics.107.071068 · Cited by 264 · see citing works
Deficiency Mapping of Quantitative Trait Loci Affecting Longevity in <i>Drosophila melanogaster</i>
Pasyukova, E. G., Vieira, C., & Mackay, T. F. C. (2000) · Genetics · doi:10.1093/genetics/156.3.1129 · Cited by 140 · see citing works
- Authors
- Martínez, O., & Curnow, R. N.
- Affiliations
- University of Reading (GB)
- ORCID
- Martínez, O.
- Venue
- Theoretical and Applied Genetics
- Published
- 1992-12
- Volume
- 85
- Issue
- 4
- Pages
- 480-488
- ISSN
- 0040-5752 (ISSN-L)
- 1432-2242
- OpenAlex
- W2037812929
- Cited by
- 355
- References
- 1
- Citations by year
- 2026: 2 · 2025: 3 · 2024: 4 · 2023: 1 · 2022: 1 · 2021: 4 · 2020: 4 · 2019: 8 · 2018: 9 · 2017: 4 · 2016: 4 · 2015: 4 · 2014: 5 · 2013: 9 · 2012: 15
- FWCI
- 6.52
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Theoretical and Applied Genetics (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic and phenotypic traits in livestock
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Associations and Epidemiology
- Keywords
- quantitative trait loci, flanking markers, QTL position estimation, QTL effect size, interval mapping, multiple markers, QTL interaction
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