Functional mapping for quantitative trait loci governing growth rates: A parametric model

Physiological Genomics

Volumn 14, Issue , 2003, Pages 241-249

  Wu, Rongling ^a,b   Ma, Chang Xing ^a   Zhao, Wei ^a   Casella, George ^a  

^a University of Florida ^*  (United States)

^b ZHEJIANG A F UNIVERSITY   (China)

Author keywords

Growth curve; Growth rate curve; Maximum likelihood; Poplar; Richards function

Indexed keywords

AGE; ALGORITHM; ARTICLE; BREEDING METHOD; COVARIANCE; DEVELOPMENTAL BIOLOGY; EVOLUTION; EVOLUTIONARY BIOLOGY; GENETIC LINKAGE; GROWTH RATE; MATHEMATICAL ANALYSIS; MAXIMUM LIKELIHOOD METHOD; NONHUMAN; PARAMETRIC TEST; PLANT STEM; PRIORITY JOURNAL; QUANTITATIVE TRAIT LOCUS; STATISTICAL MODEL; TREE; VARIANCE; ASPEN; BIOLOGICAL MODEL; CHIMERA; CHROMOSOME MAP; COMPUTER SIMULATION; GENE; GENETICS; GENOTYPE; GROWTH, DEVELOPMENT AND AGING; METHODOLOGY; PLANT CHROMOSOME; STATISTICS;

ANIMALIA; POPULUS BEROLINENSIS;

AGE FACTORS; CHIMERA; CHROMOSOME MAPPING; CHROMOSOMES, PLANT; COMPUTER SIMULATION; GENES, PLANT; GENOTYPE; LIKELIHOOD FUNCTIONS; LINKAGE (GENETICS); MODELS, GENETIC; MODELS, STATISTICAL; POPULUS; QUANTITATIVE TRAIT LOCI;

EID: 0242270686     PISSN: 15312267     EISSN: None     Source Type: Journal    
DOI: 10.1152/physiolgenomics.00013.2003     Document Type: Article

References (40)

1. Atchley WR. Ontogeny, timing of development, and genetic variance-covariance structure. Am Nat 123: 519-540, 1984.
2. Atchley WR and Zhu J. Developmental quantitative genetics, conditional epigenetic variability and growth in mice. Genetics 147: 765-776, 1997.
3. Bertalanffy LV. Quantitative laws for metabolism and growth. Q Rev Biol 32: 217-231, 1957.
4. Bidanel JP, Milan D, Iannuccelli N, Amigues Y, Boscher MY, Bourgeois F, Caritez JC, Gruand J, Le Roy P, Lagant H, Quintanilla R, Renard C, Gellin J, Ollivier L, and Chevalet C. Detection of quantitative trait loci for growth and fatness in pigs. Genet Sel Evol 33: 289-309, 2001.
5. Bock R, Wainer H, Peterson A, Thissen D, Murray J, and Roche A. A parametrization for individual human growth curves. Ann Hum Biol 45: 63-80, 1973.
6. Cheverud JM, Routman EJ, Duarte FAM, van Swinderen Cothran K, and Perel C. Quantitative trait loci for murine growth. Genetics 142: 1305-1319, 1996.
7. Daniels MJ and Kass RE. Shrinkage estimators for covariance matrices. Biometrics 57: 1173-1184, 2001.
8. Davidian M and Giltinan DM. Nonlinear Models for Repeated Measurement Data. London: Chapman and Hall, 1995.
9. Dempster AP, Laird NM, and Rubin DB. Maximum likelihood from incomplete data via EM algorithm. J Roy Stat Soc Ser B 39: 1-38, 1977.
10. Diggle PJ and Verbyla AP. Nonparametric estimation of covariance structure in longitudinal data. Biometrics 54: 401-415, 1998.
11. Doerge RW and Churchill GA. Permutation tests for multiple loci affecting a quantitative character. Genetics 142: 285-294, 1996.
12. Gasser T, Kohler W, Muller H, Kneip A, Largo R, Molinari L, and Prader A. Velocity and acceleration of height growth using kernel estimation. Ann Hum Biol 11: 397-411, 1984.
13. Gasser T, Kneip A, and Kohler W. A flexible and fast method for automatic smoothing. J Am Stat Assoc 86: 643-652, 1991.
14. Gregorczyk A. Richards plant growth model. J Agron Crop Sci 181: 243-247, 1998.
15. Kirkpatrick M and Heckman N. A quantitative genetic model for growth, shape, reaction norms, and other infinite-dimensional characters. J Math Biol 27: 429-450, 1989.
16. Kirkpatrick M, Hill WG, and Thompson R. Estimating the covariance structure of traits during growth and aging, illustrated with lactation in dairy cattle. Genet Res 64: 57-69, 1994.
17. Kirkpatrick M, Lofsvold D, and Bulmer M. Analysis of the inheritance, selection and evolution of growth trajectories. Genetics 124: 979-993, 1990.
18. Laird NM and Ware JH. Random effects models for longitudinal data. Biometrics 38: 296-308, 1982.
19. Lander ES and Botstein D. Mapping Mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics 121: 185-199, 1989.
20. Liu XJ, Oliver F, Brown SDM, Denny P, and Keightley PD. High-resolution quantitative trait locus mapping for body weight in mice by recombinant progeny testing. Genet Res 77: 191-197, 2001.
21. Ma CX, Casella G, and Wu RL. Functional mapping of quantitative trait loci underlying the character process: a theoretical framework. Genetics 161: 1751-1762, 2002.
22. Mackay TFC. Quantitative trait loci in Drosophila. Nat Rev Genet 2: 11-20, 1999.
23. Mauricio R. Mapping quantitative trait loci in plants: uses and caveats for evolutionary biology. Nat Rev Genet 2: 370-381, 2001.
24. Nath SR and Moore FD III. Growth analysis by the first, second, and third derivatives of the Richards function. Growth Dev Aging 56: 237-247, 1992.
25. Niklas KL. Plant Allometry: The Scaling of Form and Process. Chicago, IL: University of Chicago, 1994.
26. Nunez-Anton V and Zimmerman DL. Modeling nonstationary longitudinal data. Biometrics 56: 699-705, 2000.
27. Pletcher SD and Geyer CJ. The genetic analysis of age-dependent traits: modeling the character process. Genetics 153: 825-835, 1999.
28. Richards FJ. A flexible growth function for empirical use. J Exp Bot 10: 290-300, 1959.
29. Rice SH. The analysis of ontogenetic trajectories: when a change in size or shape is not heterochrony. Proc Natl Acad Sci USA 94: 907-912, 1997.
30. Shang C. Electrophysiology of growth control and acupuncture. Life Sci 68: 1333-1342, 2001.
31. Vaughn TT, Pletscher LS, Peripato A, King-Ellison K, Adams E, Erikson C, and Cheverud JM. Mapping quantitative trait loci for murine growth: a closer look at genetic architecture. Genet Res 74: 313-322, 1999.
32. Verbeke G and Molenberghs G. Linear Mixed Models for Longitudinal Data. New York: Springer, 2000.
33. West GB, Brown JH, and Enquist BJ. A general model for the origin of allometric scaling laws in biology. Science 276: 122-126, 1997.
34. West GB, Brown JH, and Enquist BJ. The fourth dimension of life: fractal geometry and allometric scaling of organisms. Science 284: 1677-1679, 1999.
35. West GB, Brown JH, and Enquist BJ. A general model for ontogenetic growth. Nature 413: 628-631, 2001.
36. Wilkins AS. Past and present. In: Genetic Analysis of Animal Development. New York: Wiley-Liss, 1993, p. 1-15.
37. Wu RL, Wang MX, and Huang MR. Quantitative genetics of yield breeding for Populus short rotation culture. I. Dynamics of genetic control and selection models of yield traits. Can J Forest Res 22: 175-182, 1992.
38. Wu RL, Ma CM, Chang M, Littell RC, Wu SS, Huang M, Wang M, and Casella G. A logistic mixture model for detecting major genes governing growth trajectories. Genet Res 79: 235-245, 2002.
39. Wu WR, Li WM, Tang DZ, Lu HR, and Worland AJ. Time-related mapping of quantitative trait loci underlying tiller number in rice. Genetics 151: 297-303, 1999.
40. Yin TM, Zhang XY, Huang MR, Wang MX, Zhuge Q, Tu SM, Zhu LH, and Wu RL. The molecular linkage maps of the Populus genome. Genome 45: 541-555, 2002.