Multiple Trait Analysis of Genetic Mapping for Quantitative Trait Loci

INVESTIGATIONS

Multiple Trait Analysis of Genetic Mapping for Quantitative Trait Loci

C. Jiang and Z. B. Zeng
Department of Agronomy, Jiangsu Agricultural College, Yangzhou, Jiangsu 225001, People's Republic of China

We present in this paper models and statistical methods for performing multiple trait analysis on mapping quantitative trait loci (QTL) based on the composite interval mapping method. By taking into account the correlated structure of multiple traits, this joint analysis has several advantages, compared with separate analyses, for mapping QTL, including the expected improvement on the statistical power of the test for QTL and on the precision of parameter estimation. Also this joint analysis provides formal procedures to test a number of biologically interesting hypotheses concerning the nature of genetic correlations between different traits. Among the testing procedures considered are those for joint mapping, pleiotropy, QTL by environment interaction, and pleiotropy vs. close linkage. The test of pleiotropy (one pleiotropic QTL at a genome position) vs. close linkage (multiple nearby nonpleiotropic QTL) can have important implications for our understanding of the nature of genetic correlations between different traits in certain regions of a genome and also for practical applications in animal and plant breeding because one of the major goals in breeding is to break unfavorable linkage. Results of extensive simulation studies are presented to illustrate various properties of the analyses.

This article has been cited by other articles:

S. Banerjee, B. S. Yandell, and N. Yi
Bayesian Quantitative Trait Loci Mapping for Multiple Traits
Genetics, August 1, 2008; 179(4): 2275 - 2289.
[Abstract] [Full Text] [PDF]

C. Schmidt, N. P. Gonzaludo, S. Strunk, S. Dahm, J. Schuchhardt, F. Kleinjung, S. Wuschke, H.-G. Joost, and H. Al-Hasani
A meta-analysis of QTL for diabetes-related traits in rodents
Physiol Genomics, June 10, 2008; 34(1): 42 - 53.
[Abstract] [Full Text] [PDF]

C.-X. Ma, Q. Yu, A. Berg, D. Drost, E. Novaes, G. Fu, J. S. Yap, A. Tan, M. Kirst, Y. Cui, et al.
A Statistical Model for Testing the Pleiotropic Control of Phenotypic Plasticity for a Count Trait
Genetics, May 1, 2008; 179(1): 627 - 636.
[Abstract] [Full Text] [PDF]

J. N. Sampson and S. G. Self
Identifying trait clusters by linkage profiles: application in genetical genomics
Bioinformatics, April 1, 2008; 24(7): 958 - 964.
[Abstract] [Full Text] [PDF]

J. Yang, W. Wu, and J. Zhu
Mapping Interspecific Genetic Architecture in a Host-Parasite Interaction System
Genetics, March 1, 2008; 178(3): 1737 - 1743.
[Abstract] [Full Text] [PDF]

B. Liu, A. de la Fuente, and I. Hoeschele
Gene Network Inference via Structural Equation Modeling in Genetical Genomics Experiments
Genetics, March 1, 2008; 178(3): 1763 - 1776.
[Abstract] [Full Text] [PDF]

M. Maccaferri, M. C. Sanguineti, S. Corneti, J. L. A. Ortega, M. B. Salem, J. Bort, E. DeAmbrogio, L. F. G. del Moral, A. Demontis, A. El-Ahmed, et al.
Quantitative Trait Loci for Grain Yield and Adaptation of Durum Wheat (Triticum durum Desf.) Across a Wide Range of Water Availability
Genetics, January 1, 2008; 178(1): 489 - 511.
[Abstract] [Full Text] [PDF]

M. S. Lund, G. Sahana, L. Andersson-Eklund, N. Hastings, A. Fernandez, N. Schulman, B. Thomsen, S. Viitala, J. L. Williams, A. Sabry, et al.
Joint Analysis of Quantitative Trait Loci for Clinical Mastitis and Somatic Cell Score on Five Chromosomes in Three Nordic Dairy Cattle Breeds
J Dairy Sci, November 1, 2007; 90(11): 5282 - 5290.
[Abstract] [Full Text] [PDF]

A. E. Melchinger, H. F. Utz, H.-P. Piepho, Z.-B. Zeng, and C. C. Schon
The Role of Epistasis in the Manifestation of Heterosis: A Systems-Oriented Approach
Genetics, November 1, 2007; 177(3): 1815 - 1825.
[Abstract] [Full Text] [PDF]

B. Kusterer, H.-P. Piepho, H. F. Utz, C. C. Schon, J. Muminovic, R. C. Meyer, T. Altmann, and A. E. Melchinger
Heterosis for Biomass-Related Traits in Arabidopsis Investigated by Quantitative Trait Loci Analysis of the Triple Testcross Design With Recombinant Inbred Lines
Genetics, November 1, 2007; 177(3): 1839 - 1850.
[Abstract] [Full Text] [PDF]

Z. Tang, X. Wang, Z. Hu, Z. Yang, and C. Xu
Genetic Dissection of Cytonuclear Epistasis in Line Crosses
Genetics, September 1, 2007; 177(1): 669 - 672.
[Abstract] [Full Text] [PDF]

M. C. Hall, I. Dworkin, M. C. Ungerer, and M. Purugganan
Genetics of microenvironmental canalization in Arabidopsis thaliana
PNAS, August 21, 2007; 104(34): 13717 - 13722.
[Abstract] [Full Text] [PDF]

N. Yi, S. Banerjee, D. Pomp, and B. S. Yandell
Bayesian Mapping of Genomewide Interacting Quantitative Trait Loci for Ordinal Traits
Genetics, July 1, 2007; 176(3): 1855 - 1864.
[Abstract] [Full Text] [PDF]

E. Frascaroli, M. A. Cane, P. Landi, G. Pea, L. Gianfranceschi, M. Villa, M. Morgante, and M. E. Pe
Classical Genetic and Quantitative Trait Loci Analyses of Heterosis in a Maize Hybrid Between Two Elite Inbred Lines
Genetics, May 1, 2007; 176(1): 625 - 644.
[Abstract] [Full Text] [PDF]

M. T. Brewer, J. B. Moyseenko, A. J. Monforte, and E. van der Knaap
Morphological variation in tomato: a comprehensive study of quantitative trait loci controlling fruit shape and development
J. Exp. Bot., April 1, 2007; 58(6): 1339 - 1349.
[Abstract] [Full Text] [PDF]

J.-M. Ribaut and M. Ragot
Marker-assisted selection to improve drought adaptation in maize: the backcross approach, perspectives, limitations, and alternatives
J. Exp. Bot., January 1, 2007; 58(2): 351 - 360.
[Abstract] [Full Text] [PDF]

K. M. Nichols, K. W. Broman, K. Sundin, J. M. Young, P. A. Wheeler, and G. H. Thorgaard
Quantitative Trait Loci x Maternal Cytoplasmic Environment Interaction for Development Rate in Oncorhynchus mykiss
Genetics, January 1, 2007; 175(1): 335 - 347.
[Abstract] [Full Text] [PDF]

B. Bennett, P. Carosone-Link, N. R. Zahniser, and T. E. Johnson
Confirmation and Fine Mapping of Ethanol Sensitivity Quantitative Trait Loci, and Candidate Gene Testing in the LXS Recombinant Inbred Mice
J. Pharmacol. Exp. Ther., October 1, 2006; 319(1): 299 - 307.
[Abstract] [Full Text] [PDF]

J. B. C. H. M. van Kaam, M. C. A. M. Bink, D. O. Maizon, J. A. M. van Arendonk, and R. L. Quaas
Bayesian reanalysis of a quantitative trait locus accounting for multiple environments by scaling in broilers
J Anim Sci, August 1, 2006; 84(8): 2009 - 2021.
[Abstract] [Full Text] [PDF]

R. Yang, Q. Tian, and S. Xu
Mapping Quantitative Trait Loci for Longitudinal Traits in Line Crosses
Genetics, August 1, 2006; 173(4): 2339 - 2356.
[Abstract] [Full Text] [PDF]

J. Kucerova, M. S. Lund, P. Sorensen, G. Sahana, B. Guldbrandtsen, V. H. Nielsen, B. Thomsen, and C. Bendixen
Multitrait quantitative trait Loci mapping for milk production traits in danish Holstein cattle.
J Dairy Sci, June 1, 2006; 89(6): 2245 - 2256.
[Abstract] [Full Text] [PDF]

M. Gonzalo, T. J. Vyn, J. B. Holland, and L. M. McIntyre
Mapping Density Response in Maize: A Direct Approach for Testing Genotype and Treatment Interactions
Genetics, May 1, 2006; 173(1): 331 - 348.
[Abstract] [Full Text] [PDF]

M. C. Hall, C. J. Basten, and J. H. Willis
Pleiotropic Quantitative Trait Loci Contribute to Population Divergence in Traits Associated With Life-History Variation in Mimulus guttatus
Genetics, March 1, 2006; 172(3): 1829 - 1844.
[Abstract] [Full Text] [PDF]

J. M. Burke, S. J. Knapp, and L. H. Rieseberg
Genetic Consequences of Selection During the Evolution of Cultivated Sunflower
Genetics, December 1, 2005; 171(4): 1933 - 1940.
[Abstract] [Full Text] [PDF]

T. M. Stearns, J. E. Beever, B. R. Southey, M. Ellis, F. K. McKeith, and S. L. Rodriguez-Zas
Evaluation of approaches to detect quantitative trait loci for growth, carcass, and meat quality on swine chromosomes 2, 6, 13, and 18. II. Multivariate and principal component analyses
J Anim Sci, November 1, 2005; 83(11): 2471 - 2481.
[Abstract] [Full Text] [PDF]

S. Macgregor, S. A. Knott, I. White, and P. M. Visscher
Quantitative Trait Locus Analysis of Longitudinal Quantitative Trait Data in Complex Pedigrees
Genetics, November 1, 2005; 171(3): 1365 - 1376.
[Abstract] [Full Text] [PDF]

F. Breseghello, P. L. Finney, C. Gaines, L. Andrews, J. Tanaka, G. Penner, and M. E. Sorrells
Genetic Loci Related to Kernel Quality Differences between a Soft and a Hard Wheat Cultivar
Crop Sci., August 1, 2005; 45(5): 1685 - 1695.
[Abstract] [Full Text] [PDF]

Y. Cui and R. Wu
Mapping genome-genome epistasis: a high-dimensional model
Bioinformatics, May 15, 2005; 21(10): 2447 - 2455.
[Abstract] [Full Text] [PDF]

X. Yin, P. C. Struik, F. A. van Eeuwijk, P. Stam, and J. Tang
QTL analysis and QTL-based prediction of flowering phenology in recombinant inbred lines of barley
J. Exp. Bot., March 1, 2005; 56(413): 967 - 976.
[Abstract] [Full Text] [PDF]

C. Xu, Z. Li, and S. Xu
Joint Mapping of Quantitative Trait Loci for Multiple Binary Characters
Genetics, February 1, 2005; 169(2): 1045 - 1059.
[Abstract] [Full Text] [PDF]

R. Wu, Z. Wang, W. Zhao, and J. M. Cheverud
A Mechanistic Model for Genetic Machinery of Ontogenetic Growth
Genetics, December 1, 2004; 168(4): 2383 - 2394.
[Abstract] [Full Text] [PDF]

O. Ruppell, T. Pankiw, and R. E. Page Jr.
Pleiotropy, Epistasis and New QTL: The Genetic Architecture of Honey Bee Foraging Behavior
J. Hered., November 1, 2004; 95(6): 481 - 491.
[Abstract] [Full Text] [PDF]

S. Crepieux, C. Lebreton, B. Servin, and G. Charmet
Quantitative Trait Loci (QTL) Detection in Multicross Inbred Designs: Recovering QTL Identical-by-Descent Status Information From Marker Data
Genetics, November 1, 2004; 168(3): 1737 - 1749.
[Abstract] [Full Text] [PDF]

C. Schrooten, M. C. A. M. Bink, and H. Bovenhuis
Whole Genome Scan to Detect Chromosomal Regions Affecting Multiple Traits in Dairy Cattle
J Dairy Sci, October 1, 2004; 87(10): 3550 - 3560.
[Abstract] [Full Text] [PDF]

D. J. Wolyn, J. O. Borevitz, O. Loudet, C. Schwartz, J. Maloof, J. R. Ecker, C. C. Berry, and J. Chory
Light-Response Quantitative Trait Loci Identified with Composite Interval and eXtreme Array Mapping in Arabidopsis thaliana
Genetics, June 1, 2004; 167(2): 907 - 917.
[Abstract] [Full Text] [PDF]

M. C. Ungerer, S. S. Halldorsdottir, M. D. Purugganan, and T. F. C. Mackay
Genotype-Environment Interactions at Quantitative Trait Loci Affecting Inflorescence Development in Arabidopsis thaliana
Genetics, September 1, 2003; 165(1): 353 - 365.
[Abstract] [Full Text] [PDF]

H. Lan, J. P. Stoehr, S. T. Nadler, K. L. Schueler, B. S. Yandell, and A. D. Attie
Dimension Reduction for Mapping mRNA Abundance as Quantitative Traits
Genetics, August 1, 2003; 164(4): 1607 - 1614.
[Abstract] [Full Text] [PDF]

Y. Ronin, A. Korol, M. Shtemberg, E. Nevo, and M. Soller
High-Resolution Mapping of Quantitative Trait Loci by Selective Recombinant Genotyping
Genetics, August 1, 2003; 164(4): 1657 - 1666.
[Abstract] [Full Text] [PDF]

T. C. Lystig
Adjusted P Values for Genome-Wide Scans
Genetics, August 1, 2003; 164(4): 1683 - 1687.
[Abstract] [Full Text] [PDF]

J. Chung, H. L. Babka, G. L. Graef, P. E. Staswick, D. J. Lee, P. B. Cregan, R. C. Shoemaker, and J. E. Specht
The Seed Protein, Oil, and Yield QTL on Soybean Linkage Group I
Crop Sci., May 1, 2003; 43(3): 1053 - 1067.
[Abstract] [Full Text] [PDF]

D. Steinberger, D. S. Reynolds, P. Ferris, R. Lincoln, S. Datta, J. Stanley, A. Paterson, G. R. Dawson, and J. Flint
Genetic Mapping of Variation in Spatial Learning in the Mouse
J. Neurosci., March 15, 2003; 23(6): 2426 - 2433.
[Abstract] [Full Text] [PDF]

T. Hide, J. Hatakeyama, C. Kimura-Yoshida, E Tian, N. Takeda, Y. Ushio, T. Shiroishi, S. Aizawa, and I. Matsuo
Genetic modifiers of otocephalic phenotypes in Otx2 heterozygous mutant mice
Development, March 11, 2003; 129(18): 4347 - 4357.
[Abstract] [Full Text] [PDF]

G. Freyer, P. Sorensen, C. Kuhn, R. Weikard, and I. Hoeschele
Search for Pleiotropic QTL on Chromosome BTA6 Affecting Yield Traits of Milk Production
J Dairy Sci, March 1, 2003; 86(3): 999 - 1008.
[Abstract] [Full Text] [PDF]

X. Yin, P. Stam, M. J. Kropff, and A. H. C. M. Schapendonk
Crop Modeling, QTL Mapping, and Their Complementary Role in Plant Breeding
Agron. J., January 1, 2003; 95(1): 90 - 98.
[Abstract] [Full Text] [PDF]

S. A. Flint-Garcia, M. D. McMullen, and L. L. Darrah
Genetic Relationship of Stalk Strength and Ear Height in Maize
Crop Sci., January 1, 2003; 43(1): 23 - 31.
[Abstract] [Full Text] [PDF]

M. S. Lund, P. Sorensen, B. Guldbrandtsen, and D. A. Sorensen
Multitrait Fine Mapping of Quantitative Trait Loci Using Combined Linkage Disequilibria and Linkage Analysis
Genetics, January 1, 2003; 163(1): 405 - 410.
[Abstract] [Full Text] [PDF]

O. Loudet, S. Chaillou, P. Merigout, J. Talbotec, and F. Daniel-Vedele
Quantitative Trait Loci Analysis of Nitrogen Use Efficiency in Arabidopsis
Plant Physiology, January 1, 2003; 131(1): 345 - 358.
[Abstract] [Full Text] [PDF]

C. Schrooten and H. Bovenhuis
Detection of Pleiotropic Effects of Quantitative Trait Loci in Outbred Populations Using Regression Analysis
J Dairy Sci, December 1, 2002; 85(12): 3503 - 3513.
[Abstract] [Full Text] [PDF]

C. L. Dilda and T. F. C. Mackay
The Genetic Architecture of Drosophila Sensory Bristle Number
Genetics, December 1, 2002; 162(4): 1655 - 1674.
[Abstract] [Full Text] [PDF]

C.-X. Ma, G. Casella, and R. Wu
Functional Mapping of Quantitative Trait Loci Underlying the Character Process: A Theoretical Framework
Genetics, August 1, 2002; 161(4): 1751 - 1762.
[Abstract] [Full Text] [PDF]

E. S. Jones, W. A. Breese, C. J. Liu, S. D. Singh, D. S. Shaw, and J. R. Witcombe
Mapping Quantitative Trait Loci for Resistance to Downy Mildew in Pearl Millet: Field and Glasshouse Screens Detect the Same QTL
Crop Sci., July 1, 2002; 42(4): 1316 - 1323.
[Abstract] [Full Text] [PDF]

P. Sorensen, R. Grochowska, L. Holm, M. Henryon, and P. Lovendahl
Polymorphism in the Bovine Growth Hormone Gene AffectsEndocrine Release in Dairy Calves
J Dairy Sci, July 1, 2002; 85(7): 1887 - 1893.
[Abstract] [Full Text] [PDF]

W. A. Pitman, R. Korstanje, G. A. Churchill, E. Nicodeme, J. J. Albers, M. C. Cheung, M. A. Staton, S. S. Sampson, S. Harris, and B. Paigen
Quantitative trait locus mapping of genes that regulate HDL cholesterol in SM/J and NZB/B1NJ inbred mice
Physiol Genomics, May 10, 2002; 9(2): 93 - 102.
[Abstract] [Full Text] [PDF]

J. O. Borevitz, J. N. Maloof, J. Lutes, T. Dabi, J. L. Redfern, G. T. Trainer, J. D. Werner, T. Asami, C. C. Berry, D. Weigel, et al.
Quantitative Trait Loci Controlling Light and Hormone Response in Two Accessions of Arabidopsis thaliana
Genetics, February 1, 2002; 160(2): 683 - 696.
[Abstract] [Full Text] [PDF]

C. Lange and J. C. Whittaker
Mapping Quantitative Trait Loci Using Generalized Estimating Equations
Genetics, November 1, 2001; 159(3): 1325 - 1337.
[Abstract] [Full Text] [PDF]

a. Sen and G. A. Churchill
A Statistical Framework for Quantitative Trait Mapping
Genetics, September 1, 2001; 159(1): 371 - 387.
[Abstract] [Full Text] [PDF]

D. C. Airey, L. Lu, and R. W. Williams
Genetic Control of the Mouse Cerebellum: Identification of Quantitative Trait Loci Modulating Size and Architecture
J. Neurosci., July 15, 2001; 21(14): 5099 - 5109.
[Abstract] [Full Text] [PDF]

M. G. Turri, N. D. Henderson, J. C. DeFries, and J. Flint
Quantitative Trait Locus Mapping in Laboratory Mice Derived From a Replicated Selection Experiment for Open-Field Activity
Genetics, July 1, 2001; 158(3): 1217 - 1226.
[Abstract] [Full Text] [PDF]

R. Nakamichi, Y. Ukai, and H. Kishino
Detection of Closely Linked Multiple Quantitative Trait Loci Using a Genetic Algorithm
Genetics, May 1, 2001; 158(1): 463 - 475.
[Abstract] [Full Text]

T. A. DRAKE, E. SCHADT, K. HANNANI, J. M. KABO, K. KRASS, V. COLINAYO, L. E. GREASER III, J. GOLDIN, and A. J. LUSIS
Genetic loci determining bone density in mice with diet-induced atherosclerosis
Physiol Genomics, April 27, 2001; 5(4): 205 - 215.
[Abstract] [Full Text] [PDF]

A. B. Korol, Y. I. Ronin, A. M. Itskovich, J. Peng, and E. Nevo
Enhanced Efficiency of Quantitative Trait Loci Mapping Analysis Based on Multivariate Complexes of Quantitative Traits
Genetics, April 1, 2001; 157(4): 1789 - 1803.
[Abstract] [Full Text]

C. I Amos and M. de Andrade
Genetic linkage methods for quantitative traits
Statistical Methods in Medical Research, February 1, 2001; 10(1): 3 - 25.
[Abstract] [PDF]

T. Juenger, M. Purugganan, and T. F. C. Mackay
Quantitative Trait Loci for Floral Morphology in Arabidopsis thaliana
Genetics, November 1, 2000; 156(3): 1379 - 1392.
[Abstract] [Full Text]

				C. Schmidt, N. P. Gonzaludo, S. Strunk, S. Dahm, J. Schuchhardt, F. Kleinjung, S. Wuschke, H.-G. Joost, and H. Al-Hasani A meta-analysis of QTL for diabetes-related traits in rodents Physiol Genomics, June 10, 2008; 34(1): 42 - 53. [Abstract] [Full Text] [PDF]

				C.-X. Ma, Q. Yu, A. Berg, D. Drost, E. Novaes, G. Fu, J. S. Yap, A. Tan, M. Kirst, Y. Cui, et al. A Statistical Model for Testing the Pleiotropic Control of Phenotypic Plasticity for a Count Trait Genetics, May 1, 2008; 179(1): 627 - 636. [Abstract] [Full Text] [PDF]

				J. N. Sampson and S. G. Self Identifying trait clusters by linkage profiles: application in genetical genomics Bioinformatics, April 1, 2008; 24(7): 958 - 964. [Abstract] [Full Text] [PDF]

				J. Yang, W. Wu, and J. Zhu Mapping Interspecific Genetic Architecture in a Host-Parasite Interaction System Genetics, March 1, 2008; 178(3): 1737 - 1743. [Abstract] [Full Text] [PDF]

				B. Liu, A. de la Fuente, and I. Hoeschele Gene Network Inference via Structural Equation Modeling in Genetical Genomics Experiments Genetics, March 1, 2008; 178(3): 1763 - 1776. [Abstract] [Full Text] [PDF]

				M. Maccaferri, M. C. Sanguineti, S. Corneti, J. L. A. Ortega, M. B. Salem, J. Bort, E. DeAmbrogio, L. F. G. del Moral, A. Demontis, A. El-Ahmed, et al. Quantitative Trait Loci for Grain Yield and Adaptation of Durum Wheat (Triticum durum Desf.) Across a Wide Range of Water Availability Genetics, January 1, 2008; 178(1): 489 - 511. [Abstract] [Full Text] [PDF]

				M. S. Lund, G. Sahana, L. Andersson-Eklund, N. Hastings, A. Fernandez, N. Schulman, B. Thomsen, S. Viitala, J. L. Williams, A. Sabry, et al. Joint Analysis of Quantitative Trait Loci for Clinical Mastitis and Somatic Cell Score on Five Chromosomes in Three Nordic Dairy Cattle Breeds J Dairy Sci, November 1, 2007; 90(11): 5282 - 5290. [Abstract] [Full Text] [PDF]

				A. E. Melchinger, H. F. Utz, H.-P. Piepho, Z.-B. Zeng, and C. C. Schon The Role of Epistasis in the Manifestation of Heterosis: A Systems-Oriented Approach Genetics, November 1, 2007; 177(3): 1815 - 1825. [Abstract] [Full Text] [PDF]

				B. Kusterer, H.-P. Piepho, H. F. Utz, C. C. Schon, J. Muminovic, R. C. Meyer, T. Altmann, and A. E. Melchinger Heterosis for Biomass-Related Traits in Arabidopsis Investigated by Quantitative Trait Loci Analysis of the Triple Testcross Design With Recombinant Inbred Lines Genetics, November 1, 2007; 177(3): 1839 - 1850. [Abstract] [Full Text] [PDF]

				Z. Tang, X. Wang, Z. Hu, Z. Yang, and C. Xu Genetic Dissection of Cytonuclear Epistasis in Line Crosses Genetics, September 1, 2007; 177(1): 669 - 672. [Abstract] [Full Text] [PDF]

				M. C. Hall, I. Dworkin, M. C. Ungerer, and M. Purugganan Genetics of microenvironmental canalization in Arabidopsis thaliana PNAS, August 21, 2007; 104(34): 13717 - 13722. [Abstract] [Full Text] [PDF]

				N. Yi, S. Banerjee, D. Pomp, and B. S. Yandell Bayesian Mapping of Genomewide Interacting Quantitative Trait Loci for Ordinal Traits Genetics, July 1, 2007; 176(3): 1855 - 1864. [Abstract] [Full Text] [PDF]

				E. Frascaroli, M. A. Cane, P. Landi, G. Pea, L. Gianfranceschi, M. Villa, M. Morgante, and M. E. Pe Classical Genetic and Quantitative Trait Loci Analyses of Heterosis in a Maize Hybrid Between Two Elite Inbred Lines Genetics, May 1, 2007; 176(1): 625 - 644. [Abstract] [Full Text] [PDF]

				M. T. Brewer, J. B. Moyseenko, A. J. Monforte, and E. van der Knaap Morphological variation in tomato: a comprehensive study of quantitative trait loci controlling fruit shape and development J. Exp. Bot., April 1, 2007; 58(6): 1339 - 1349. [Abstract] [Full Text] [PDF]

				J.-M. Ribaut and M. Ragot Marker-assisted selection to improve drought adaptation in maize: the backcross approach, perspectives, limitations, and alternatives J. Exp. Bot., January 1, 2007; 58(2): 351 - 360. [Abstract] [Full Text] [PDF]

				K. M. Nichols, K. W. Broman, K. Sundin, J. M. Young, P. A. Wheeler, and G. H. Thorgaard Quantitative Trait Loci x Maternal Cytoplasmic Environment Interaction for Development Rate in Oncorhynchus mykiss Genetics, January 1, 2007; 175(1): 335 - 347. [Abstract] [Full Text] [PDF]

				B. Bennett, P. Carosone-Link, N. R. Zahniser, and T. E. Johnson Confirmation and Fine Mapping of Ethanol Sensitivity Quantitative Trait Loci, and Candidate Gene Testing in the LXS Recombinant Inbred Mice J. Pharmacol. Exp. Ther., October 1, 2006; 319(1): 299 - 307. [Abstract] [Full Text] [PDF]

				J. B. C. H. M. van Kaam, M. C. A. M. Bink, D. O. Maizon, J. A. M. van Arendonk, and R. L. Quaas Bayesian reanalysis of a quantitative trait locus accounting for multiple environments by scaling in broilers J Anim Sci, August 1, 2006; 84(8): 2009 - 2021. [Abstract] [Full Text] [PDF]

				R. Yang, Q. Tian, and S. Xu Mapping Quantitative Trait Loci for Longitudinal Traits in Line Crosses Genetics, August 1, 2006; 173(4): 2339 - 2356. [Abstract] [Full Text] [PDF]

				J. Kucerova, M. S. Lund, P. Sorensen, G. Sahana, B. Guldbrandtsen, V. H. Nielsen, B. Thomsen, and C. Bendixen Multitrait quantitative trait Loci mapping for milk production traits in danish Holstein cattle. J Dairy Sci, June 1, 2006; 89(6): 2245 - 2256. [Abstract] [Full Text] [PDF]

				M. Gonzalo, T. J. Vyn, J. B. Holland, and L. M. McIntyre Mapping Density Response in Maize: A Direct Approach for Testing Genotype and Treatment Interactions Genetics, May 1, 2006; 173(1): 331 - 348. [Abstract] [Full Text] [PDF]

				M. C. Hall, C. J. Basten, and J. H. Willis Pleiotropic Quantitative Trait Loci Contribute to Population Divergence in Traits Associated With Life-History Variation in Mimulus guttatus Genetics, March 1, 2006; 172(3): 1829 - 1844. [Abstract] [Full Text] [PDF]

				J. M. Burke, S. J. Knapp, and L. H. Rieseberg Genetic Consequences of Selection During the Evolution of Cultivated Sunflower Genetics, December 1, 2005; 171(4): 1933 - 1940. [Abstract] [Full Text] [PDF]

				T. M. Stearns, J. E. Beever, B. R. Southey, M. Ellis, F. K. McKeith, and S. L. Rodriguez-Zas Evaluation of approaches to detect quantitative trait loci for growth, carcass, and meat quality on swine chromosomes 2, 6, 13, and 18. II. Multivariate and principal component analyses J Anim Sci, November 1, 2005; 83(11): 2471 - 2481. [Abstract] [Full Text] [PDF]

				S. Macgregor, S. A. Knott, I. White, and P. M. Visscher Quantitative Trait Locus Analysis of Longitudinal Quantitative Trait Data in Complex Pedigrees Genetics, November 1, 2005; 171(3): 1365 - 1376. [Abstract] [Full Text] [PDF]

				F. Breseghello, P. L. Finney, C. Gaines, L. Andrews, J. Tanaka, G. Penner, and M. E. Sorrells Genetic Loci Related to Kernel Quality Differences between a Soft and a Hard Wheat Cultivar Crop Sci., August 1, 2005; 45(5): 1685 - 1695. [Abstract] [Full Text] [PDF]

				Y. Cui and R. Wu Mapping genome-genome epistasis: a high-dimensional model Bioinformatics, May 15, 2005; 21(10): 2447 - 2455. [Abstract] [Full Text] [PDF]

				X. Yin, P. C. Struik, F. A. van Eeuwijk, P. Stam, and J. Tang QTL analysis and QTL-based prediction of flowering phenology in recombinant inbred lines of barley J. Exp. Bot., March 1, 2005; 56(413): 967 - 976. [Abstract] [Full Text] [PDF]

				C. Xu, Z. Li, and S. Xu Joint Mapping of Quantitative Trait Loci for Multiple Binary Characters Genetics, February 1, 2005; 169(2): 1045 - 1059. [Abstract] [Full Text] [PDF]

				R. Wu, Z. Wang, W. Zhao, and J. M. Cheverud A Mechanistic Model for Genetic Machinery of Ontogenetic Growth Genetics, December 1, 2004; 168(4): 2383 - 2394. [Abstract] [Full Text] [PDF]