Precision mapping of quantitative trait loci.
Abstract
Adequate separation of effects of possible multiple linked quantitative trait loci (QTLs) on mapping QTLs is the key to increasing the precision of QTL mapping. A new method of QTL mapping is proposed and analyzed in this paper by combining interval mapping with multiple regression. The basis of the proposed method is an interval test in which the test statistic on a marker interval is made to be unaffected by QTLs located outside a defined interval. This is achieved by fitting other genetic markers in the statistical model as a control when performing interval mapping. Compared with the current QTL mapping method (i.e., the interval mapping method which uses a pair or two pairs of markers for mapping QTLs), this method has several advantages. (1) By confining the test to one region at a time, it reduces a multiple dimensional search problem (for multiple QTLs) to a one dimensional search problem. (2) By conditioning linked markers in the test, the sensitivity of the test statistic to the position of individual QTLs is increased, and the precision of QTL mapping can be improved. (3) By selectively and simultaneously using other markers in the analysis, the efficiency of QTL mapping can be also improved. The behavior of the test statistic under the null hypothesis and appropriate critical value of the test statistic for an overall test in a genome are discussed and analyzed. A simulation study of QTL mapping is also presented which illustrates the utility, properties, advantag…
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The CIM approach was simultaneously proposed by Jansen and Stam (1994) and Zeng (1994).
“This is the principle of the CIM approach, simultaneously proposed by Jansen and Stam (1994) and Zeng (1994).”
From The statistical analysis of multi-environment data: modeling genotype-by-environment interaction and its genetic basis (2013) · cites this paper as Zeng (1994)
The power of QTL detection can be improved by reducing the background noise caused by QTLs outside the region under test.
“The power of QTL detection can be improved by reducing the background noise caused by QTLs outside the region under test.”
From The statistical analysis of multi-environment data: modeling genotype-by-environment interaction and its genetic basis (2013) · cites this paper as Zeng (1994)
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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
Theoretical Basis of the Beavis Effect
Xu, S. (2003) · Genetics · doi:10.1093/genetics/165.4.2259 · Cited by 464 · see citing works
Reymond, M., Muller, B., Leonardi, A., Charcosset, A., & Tardieu, F. (2003) · Plant Physiology · doi:10.1104/pp.013839 · Cited by 428 · see citing works
A simple correction for multiple comparisons in interval mapping genome scans
Cheverud, J. M. (2001) · Heredity · doi:10.1046/j.1365-2540.2001.00901.x · Cited by 421 · see citing works
TUBEROSA, 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
Borevitz, J. O., Maloof, J. N., Lutes, J., Dabi, T., Redfern, J. L., Trainer, G. T., Werner, J. D., Asami, T., Berry, C. C., Weigel, D., et al. (2002) · Genetics · doi:10.1093/genetics/160.2.683 · Cited by 128 · see citing works
Evaluation of genome-wide selection efficiency in maize nested association mapping populations
Guo, Z., Tucker, D. M., Lu, J., Kishore, V., & Gay, G. (2012) · Theoretical and Applied Genetics · doi:10.1007/s00122-011-1702-9 · Cited by 127 · see citing works
Quantitative Trait Loci Mapping in Plants: Concepts and Approaches
Sehgal, D., Singh, R., & Rajpal, V. R. (2016) · Sustainable Development and Biodiversity · doi:10.1007/978-3-319-27090-6_2 · Cited by 50 · see citing works
Kaiser, T. S., & Heckel, D. G. (2012) · PLoS ONE · doi:10.1371/journal.pone.0032092 · Cited by 37 · see citing works
Yu, H., Xie, W., Wang, J., Xing, Y., Xu, C., Li, X., Xiao, J., & Zhang, Q. (2011) · PLoS ONE · doi:10.1371/annotation/f2eb75fb-ae22-4a57-b828-1506aa506c6d · Cited by 23 · see citing works
- Authors
- Zeng, Z. B.
- Affiliations
- North Carolina State University (US)
- Corresponding author
- Zeng, Z B
- ORCID
- Zeng, Z B
- Venue
- Genetics
- Publisher
- Oxford University Press (OUP)
- Published
- 1994-04-01
- Volume
- 136
- Issue
- 4
- Pages
- 1457-1468
- ISSN
- 0016-6731 (ISSN-L)
- 1943-2631
- OpenAlex
- W1864995317
- Cited by
- 3,182
- References
- 1
- Citations by year
- 2026: 34 · 2025: 38 · 2024: 52 · 2023: 47 · 2022: 86 · 2021: 95 · 2020: 74 · 2019: 74 · 2018: 82 · 2017: 78 · 2016: 94 · 2015: 116 · 2014: 120 · 2013: 123 · 2012: 193
- FWCI
- 26.15
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model (vor)
- Locations
- Genetics (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Institute of General Medical Sciences (GM-45344, P01GM045344)
- 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, QTL mapping, interval mapping, multiple linear regression, test statistics, critical values, precision mapping
- MeSH terms
- Chromosome Mapping, Models, Genetic, Regression Analysis
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