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Volumn 56, Issue 9, 2005, Pages 883-894

Statistical models for genotype by environment data: From conventional ANOVA models to eco-physiological QTL models

Author keywords

AMMI model; Crop growth model; Factorial regression; Genotype by environment interaction; Multi environment trial; QTL by environment interaction

Indexed keywords

ENVIRONMENTAL FACTOR; GENOTYPE; GERMPLASM; GROWTH MODELING;

EID: 27644585818     PISSN: 00049409     EISSN: None     Source Type: Journal    
DOI: 10.1071/AR05153     Document Type: Article
Times cited : (92)

References (52)
  • 1
    • 0036811709 scopus 로고    scopus 로고
    • A penalized likelihood method for mapping epistatic quantitative trait loci with one-dimensional genome searches
    • Boer MP, ter Braak CJF, Jansen RC (2002) A penalized likelihood method for mapping epistatic quantitative trait loci with one-dimensional genome searches. Genetics 162, 951-960.
    • (2002) Genetics , vol.162 , pp. 951-960
    • Boer, M.P.1    Ter Braak, C.J.F.2    Jansen, R.C.3
  • 2
    • 0034101401 scopus 로고    scopus 로고
    • Genotype by environment interactions affecting grain sorghum. I. Characteristics that confound interpretation of hybrid yield
    • doi: 10.1071/AR99020
    • Chapman SC, Cooper M, Butler DG, Henzell RG (2000a) Genotype by environment interactions affecting grain sorghum. I. Characteristics that confound interpretation of hybrid yield. Australian Journal of Agricultural Research 51, 197-207. doi: 10.1071/AR99020
    • (2000) Australian Journal of Agricultural Research , vol.51 , pp. 197-207
    • Chapman, S.C.1    Cooper, M.2    Butler, D.G.3    Henzell, R.G.4
  • 3
    • 0036212932 scopus 로고    scopus 로고
    • Using crop simulation to generate genotype by environment interaction effects for sorghum in water-limited environments
    • doi: 10.1071/AR01070
    • Chapman SC, Cooper M, Hammer GL (2002) Using crop simulation to generate genotype by environment interaction effects for sorghum in water-limited environments. Australian Journal of Agricultural Research 53, 379-389. doi: 10.1071/AR01070
    • (2002) Australian Journal of Agricultural Research , vol.53 , pp. 379-389
    • Chapman, S.C.1    Cooper, M.2    Hammer, G.L.3
  • 4
    • 0034098073 scopus 로고    scopus 로고
    • Genotype by environment interactions affecting grain sorghum. II. Frequencies of different seasonal patterns of drought stress are related to location effects on hybrid yields
    • doi: 10.1071/AR99021
    • Chapman SC, Cooper M, Hammer GL, Butler DG (2000b) Genotype by environment interactions affecting grain sorghum. II. Frequencies of different seasonal patterns of drought stress are related to location effects on hybrid yields. Australian Journal of Agricultural Research 51, 209-221. doi: 10.1071/AR99021
    • (2000) Australian Journal of Agricultural Research , vol.51 , pp. 209-221
    • Chapman, S.C.1    Cooper, M.2    Hammer, G.L.3    Butler, D.G.4
  • 5
    • 0037262224 scopus 로고    scopus 로고
    • Evaluating plant breeding strategies by simulating gene action and dryland environment effects
    • Chapman SC, Cooper M, Podlich D, Hammer GL (2003) Evaluating plant breeding strategies by simulating gene action and dryland environment effects. Agronomy Journal 95, 99-113.
    • (2003) Agronomy Journal , vol.95 , pp. 99-113
    • Chapman, S.C.1    Cooper, M.2    Podlich, D.3    Hammer, G.L.4
  • 6
    • 0034061576 scopus 로고    scopus 로고
    • Genotype by environment interactions affecting grain sorghum. III. Temporal sequences and spatial patterns in the target population of environments
    • doi: 10.1071/AR99022
    • Chapman SC, Hammer GL, Butler DG, Cooper M (2000c) Genotype by environment interactions affecting grain sorghum. III. Temporal sequences and spatial patterns in the target population of environments. Australian Journal of Agricultural Research 51, 223-233. doi: 10.1071/AR99022
    • (2000) Australian Journal of Agricultural Research , vol.51 , pp. 223-233
    • Chapman, S.C.1    Hammer, G.L.2    Butler, D.G.3    Cooper, M.4
  • 7
    • 0002260057 scopus 로고
    • Quantitative genetics and the design of breeding programs
    • 16-21 August 1976. Iowa State University Press: Ames, IA
    • Comstock RE (1977) Quantitative genetics and the design of breeding programs. In 'Proceedings of the International Conference on Quantitative Genetics'. 16-21 August 1976. pp. 705-718. (Iowa State University Press: Ames, IA)
    • (1977) Proceedings of the International Conference on Quantitative Genetics , pp. 705-718
    • Comstock, R.E.1
  • 12
    • 4544325042 scopus 로고    scopus 로고
    • Linear-bilinear models for the analysis of genotype-environment interaction
    • Ed. MS Kang CAB International: Wallingford, UK
    • Crossa J, Cornelius P (2002) Linear-bilinear models for the analysis of genotype-environment interaction. In 'Quantitative genetics, genomics and plant breeding'. (Ed. MS Kang) pp. 305-322. (CAB International: Wallingford, UK)
    • (2002) Quantitative Genetics, Genomics and Plant Breeding , pp. 305-322
    • Crossa, J.1    Cornelius, P.2
  • 13
    • 0003171535 scopus 로고
    • Two-way analysis using covariates
    • Denis J-B (1988) Two-way analysis using covariates. Statistics 19, 123-132.
    • (1988) Statistics , vol.19 , pp. 123-132
    • Denis, J.-B.1
  • 14
    • 0040062205 scopus 로고    scopus 로고
    • Asymptotic confidence regions for biadditive models: Interpreting genotype-environment interactions
    • Denis J-B, Gower JC (1996) Asymptotic confidence regions for biadditive models: interpreting genotype-environment interactions. Applied Statistics 45, 479-492.
    • (1996) Applied Statistics , vol.45 , pp. 479-492
    • Denis, J.-B.1    Gower, J.C.2
  • 16
    • 0028834035 scopus 로고
    • Linear and bilinear models for the analysis of multi-environment trials: I An inventory of models
    • doi: 10.1007/BF01677551
    • van Eeuwijk FA (1995a) Linear and bilinear models for the analysis of multi-environment trials: I An inventory of models. Euphytica 84, 1-7. doi: 10.1007/BF01677551
    • (1995) Euphytica , vol.84 , pp. 1-7
    • Van Eeuwijk, F.A.1
  • 17
    • 0029118493 scopus 로고
    • Multiplicative interaction in generalized linear models
    • van Eeuwijk FA (1995b) Multiplicative interaction in generalized linear models. Biometrics 51, 1017-1032.
    • (1995) Biometrics , vol.51 , pp. 1017-1032
    • Van Eeuwijk, F.A.1
  • 18
    • 0035700919 scopus 로고    scopus 로고
    • Some vocabulary and grammar for the analysis of multi-environment trials, as applied to the analysis of FPB and PPB trials
    • doi: 10.1023/A:1017591407285
    • van Eeuwijk FA, Cooper M, DeLacy IH, Ceccarelli S, Grando S (2001a) Some vocabulary and grammar for the analysis of multi-environment trials, as applied to the analysis of FPB and PPB trials. Euphytica 122, 477-490. doi: 10.1023/A:1017591407285
    • (2001) Euphytica , vol.122 , pp. 477-490
    • Van Eeuwijk, F.A.1    Cooper, M.2    DeLacy, I.H.3    Ceccarelli, S.4    Grando, S.5
  • 19
    • 27644493979 scopus 로고    scopus 로고
    • Variants of factorial regression for analysing QTL by environment interaction
    • Les colloques series 96. (Eds A Gallais, C Dillmann, I Goldringer) INRA Editions: Versailles, France
    • van Eeuwijk FA, Crossa J, Vargas M, Ribaut JM (2001b) Variants of factorial regression for analysing QTL by environment interaction. In 'Eucarpia, quantitative genetics and breeding methods: the way ahead'. Les colloques series 96. (Eds A Gallais, C Dillmann, I Goldringer) pp. 107-116. (INRA Editions: Versailles, France)
    • (2001) Eucarpia, Quantitative Genetics and Breeding Methods: The Way Ahead , pp. 107-116
    • Eeuwijk, F.A.1    Crossa, J.2    Vargas, M.3    Ribaut, J.M.4
  • 20
    • 4444374229 scopus 로고    scopus 로고
    • Analysing QTL by environment interaction by factorial regression, with an application to the CIMMYT drought and low nitrogen stress programme in maize
    • Ed. MS Kang CAB International: Wallingford, UK
    • van Eeuwijk FA, Crossa J, Vargas M, Ribaut J-M (2002) Analysing QTL by environment interaction by factorial regression, with an application to the CIMMYT drought and low nitrogen stress programme in maize. In 'Quantitative genetics, genomics and plant breeding'. (Ed. MS Kang) pp. 245-256. (CAB International: Wallingford, UK)
    • (2002) Quantitative Genetics, Genomics and Plant Breeding , pp. 245-256
    • Eeuwijk, F.A.1    Crossa, J.2    Vargas, M.3    Ribaut, J.-M.4
  • 21
    • 0001787692 scopus 로고    scopus 로고
    • Incorporating additional information on genotypes and environments in models for two-way genotype by environment tables
    • Eds MS Kang, HG Gauch CRC Press: Boca Raton, FL
    • van Eeuwijk FA, Denis J-B, Kang MS (1996) Incorporating additional information on genotypes and environments in models for two-way genotype by environment tables. In 'Genotype-by-environment interaction'. (Eds MS Kang, HG Gauch) pp. 15-50. (CRC Press: Boca Raton, FL)
    • (1996) Genotype-by-environment Interaction , pp. 15-50
    • Eeuwijk, F.A.1    Denis, J.-B.2    Kang, M.S.3
  • 22
    • 84970558538 scopus 로고
    • The analysis of adaptation in a plant breeding programme
    • doi: 10.1071/AR9630742
    • Finlay KW, Wilkinson GN (1963) The analysis of adaptation in a plant breeding programme. Australian Journal of Agricultural Research 14, 742-754. doi: 10.1071/AR9630742
    • (1963) Australian Journal of Agricultural Research , vol.14 , pp. 742-754
    • Finlay, K.W.1    Wilkinson, G.N.2
  • 23
    • 0000930139 scopus 로고
    • Least squares approximation of matrices by additive and multiplicative models
    • Gabriel KR (1978) Least squares approximation of matrices by additive and multiplicative models. Journal of the Royal Statistical Society: Series B 40, 186-196.
    • (1978) Journal of the Royal Statistical Society: Series B , vol.40 , pp. 186-196
    • Gabriel, K.R.1
  • 24
    • 0347463291 scopus 로고    scopus 로고
    • Generalised bilinear regression
    • doi: 10.1093/biomet/85.3.689
    • Gabriel KR (1998) Generalised bilinear regression. Biometrika 85, 689-700. doi: 10.1093/biomet/85.3.689
    • (1998) Biometrika , vol.85 , pp. 689-700
    • Gabriel, K.R.1
  • 25
    • 0018546040 scopus 로고
    • Lower rank approximations of matrices by least squares with any choice of weights
    • Gabriel KR, Zamir S (1979) Lower rank approximations of matrices by least squares with any choice of weights. Technometrics 21, 489-498.
    • (1979) Technometrics , vol.21 , pp. 489-498
    • Gabriel, K.R.1    Zamir, S.2
  • 26
    • 0000502954 scopus 로고
    • Model selection and validation for yield trials with interaction
    • Gauch HG (1988) Model selection and validation for yield trials with interaction. Biometrics 44, 705-715.
    • (1988) Biometrics , vol.44 , pp. 705-715
    • Gauch, H.G.1
  • 27
    • 0014265599 scopus 로고
    • A statistical model which combines features of factor analysis and analysis of variance techniques
    • Gollob HF (1968) A statistical model which combines features of factor analysis and analysis of variance techniques. Psychometrika 33, 73-115.
    • (1968) Psychometrika , vol.33 , pp. 73-115
    • Gollob, H.F.1
  • 28
    • 33646942472 scopus 로고
    • A simple regression method for mapping quantitative trait loci in line crosses using flanking markers
    • Haley CS, Knott SA (1992) A simple regression method for mapping quantitative trait loci in line crosses using flanking markers. Heredity 69, 315-324.
    • (1992) Heredity , vol.69 , pp. 315-324
    • Haley, C.S.1    Knott, S.A.2
  • 30
    • 0031423792 scopus 로고    scopus 로고
    • Mapping quantitative trait loci with dominant and missing markers in various crosses from two inbred lines
    • doi: 10.1023/A:1018394410659
    • Jiang C, Zeng Z-B (1997) Mapping quantitative trait loci with dominant and missing markers in various crosses from two inbred lines. Genetica 101, 47-58. doi: 10.1023/A:1018394410659
    • (1997) Genetica , vol.101 , pp. 47-58
    • Jiang, C.1    Zeng, Z.-B.2
  • 31
    • 5144221069 scopus 로고    scopus 로고
    • Linkage disequilibrium mapping of yield and yield stability in modern spring barley cultivars
    • doi: 10.1534/genetics.104.026831
    • Kraakman ATW, Niks RE, van den Berg PMMM, Stam P, van Eeuwijk FA (2004) Linkage disequilibrium mapping of yield and yield stability in modern spring barley cultivars. Genetics 168, 435-446. doi: 10.1534/genetics.104.026831
    • (2004) Genetics , vol.168 , pp. 435-446
    • Kraakman, A.T.W.1    Niks, R.E.2    Van Den Berg, P.M.M.M.3    Stam, P.4    Van Eeuwijk, F.A.5
  • 33
    • 0036671301 scopus 로고    scopus 로고
    • Functional mapping of quantitative trait loci underlying the character process: A theoretical framework
    • Ma CX, Casella G, Wu R (2002) Functional mapping of quantitative trait loci underlying the character process: a theoretical framework. Genetics 161, 1751-1762.
    • (2002) Genetics , vol.161 , pp. 1751-1762
    • Ma, C.X.1    Casella, G.2    Wu, R.3
  • 34
    • 4544317910 scopus 로고    scopus 로고
    • Mixed models including environmental variables for studying QTL by environment interaction
    • doi: 10.1023/B:EUPH.0000040511.46388.ef
    • Malosetti M, Voltas J, Romagosa I, Ullrich SE, van Eeuwijk FA (2004) Mixed models including environmental variables for studying QTL by environment interaction. Euphytica 137, 139-145. doi: 10.1023/B:EUPH.0000040511.46388.ef
    • (2004) Euphytica , vol.137 , pp. 139-145
    • Malosetti, M.1    Voltas, J.2    Romagosa, I.3    Ullrich, S.E.4    Van Eeuwijk, F.A.5
  • 36
    • 0034536309 scopus 로고    scopus 로고
    • A mixed model approach to mapping quantitative trait loci in barley on the basis of multiple environment data
    • Piepho HP (2000) A mixed model approach to mapping quantitative trait loci in barley on the basis of multiple environment data. Genetics 156, 2043-2050.
    • (2000) Genetics , vol.156 , pp. 2043-2050
    • Piepho, H.P.1
  • 37
    • 4544294219 scopus 로고    scopus 로고
    • Mixed modelling for QTL x environment interaction analysis
    • doi: 10.1023/B:EUPH.0000040512.84025.16
    • Piepho HP, Pillen K (2004) Mixed modelling for QTL x environment interaction analysis. Euphytica 137, 147-153. doi: 10.1023/B:EUPH.0000040512. 84025.16
    • (2004) Euphytica , vol.137 , pp. 147-153
    • Piepho, H.P.1    Pillen, K.2
  • 38
    • 0037322869 scopus 로고    scopus 로고
    • Combining QTL analysis and an ecophysiological model to analyse the genetic variability of the responses of maize leaf growth to temperature and water deficit
    • doi: 10.1104/pp.013839
    • Reymond M, Muller B, Leonardi A, Charcosset A, Tardieu F (2003) Combining QTL analysis and an ecophysiological model to analyse the genetic variability of the responses of maize leaf growth to temperature and water deficit. Plant Physiology 131, 664-675. doi: 10.1104/pp.013839
    • (2003) Plant Physiology , vol.131 , pp. 664-675
    • Reymond, M.1    Muller, B.2    Leonardi, A.3    Charcosset, A.4    Tardieu, F.5
  • 42
    • 0032811862 scopus 로고    scopus 로고
    • Using AMMI, factorial regression, and partial least squares regression models for interpreting genotype x environment interaction
    • Vargas M, Crossa J, van Eeuwijk FA, Ramírez ME, Sayre K (1999) Using AMMI, factorial regression, and partial least squares regression models for interpreting genotype x environment interaction. Crop Science 39, 955-967.
    • (1999) Crop Science , vol.39 , pp. 955-967
    • Vargas, M.1    Crossa, J.2    Van Eeuwijk, F.A.3    Ramírez, M.E.4    Sayre, K.5
  • 43
    • 1642524996 scopus 로고    scopus 로고
    • The analysis of quantitative trait loci in multi-environment trials using a multiplicative mixed model
    • doi: 10.1071/AR02239
    • Verbyla AP, Eckermann PJ, Thompson R, Cullis B (2003) The analysis of quantitative trait loci in multi-environment trials using a multiplicative mixed model. Australian Journal of Agricultural Research 54, 1395-1408. doi: 10.1071/AR02239
    • (2003) Australian Journal of Agricultural Research , vol.54 , pp. 1395-1408
    • Verbyla, A.P.1    Eckermann, P.J.2    Thompson, R.3    Cullis, B.4
  • 44
    • 0032954195 scopus 로고    scopus 로고
    • Integrating statistical and ecophysiological analysis of genotype by environment interaction for grain filling of barley in Mediterranean areas II. Grain growth
    • doi: 10.1016/S0378-4290(99)00007-6
    • Voltas J, van Eeuwijk FA, Araus JL, Romagosa I (1999b) Integrating statistical and ecophysiological analysis of genotype by environment interaction for grain filling of barley in Mediterranean areas II. Grain growth. Field Crops Research 62, 75-84. doi: 10.1016/S0378-4290(99)00007-6
    • (1999) Field Crops Research , vol.62 , pp. 75-84
    • Voltas, J.1    Van Eeuwijk, F.A.2    Araus, J.L.3    Romagosa, I.4
  • 45
    • 0032906213 scopus 로고    scopus 로고
    • Integrating statistical and ecophysiological analysis of genotype by environment interaction for grain filling of barley in Mediterranean areas I
    • doi: 10.1016/S0378-4290(99)00006-4
    • Voltas J, van Eeuwijk FA, Sombrero A, Lafarga A, Igartua E, Romagosa I (1999a) Integrating statistical and ecophysiological analysis of genotype by environment interaction for grain filling of barley in Mediterranean areas I. Individual grain weight. Field Crops Research 62, 63-74. doi: 10.1016/S0378-4290(99)00006-4
    • (1999) Individual Grain Weight. Field Crops Research , vol.62 , pp. 63-74
    • Voltas, J.1    Van Eeuwijk, F.A.2    Sombrero, A.3    Lafarga, A.4    Igartua, E.5    Romagosa, I.6
  • 47
  • 48
    • 0036950057 scopus 로고    scopus 로고
    • Mapping of quantitative trait loci based on growth models
    • doi: 10.1007/s00122-002-1052-8
    • Wu W, Zhou Y, Li W, Mao D, Chen Q (2002) Mapping of quantitative trait loci based on growth models. Theoretical and Applied Genetics 105, 1043-1049. doi: 10.1007/s00122-002-1052-8
    • (2002) Theoretical and Applied Genetics , vol.105 , pp. 1043-1049
    • Wu, W.1    Zhou, Y.2    Li, W.3    Mao, D.4    Chen, Q.5
  • 49
    • 0034463275 scopus 로고    scopus 로고
    • Coupling estimated effects of QTLs for physiological traits to a crop growth model: Predicting yield variation among recombinant inbred lines in barley
    • doi: 10.1046/j.1365-2540.2000.00790.x
    • Yin X, Chasalow S, Dourleijn CJ, Stam P, Kropff MJ (2000) Coupling estimated effects of QTLs for physiological traits to a crop growth model: predicting yield variation among recombinant inbred lines in barley. Heredity 85, 539-549. doi: 10.1046/j.1365-2540.2000.00790.x
    • (2000) Heredity , vol.85 , pp. 539-549
    • Yin, X.1    Chasalow, S.2    Dourleijn, C.J.3    Stam, P.4    Kropff, M.J.5
  • 51
    • 15944420929 scopus 로고    scopus 로고
    • QTL analysis and QTL-based prediction of flowering phenology in recombinant inbred lines of barley
    • doi: 10.1093/jxb/eri090
    • Yin X, Struik PC, van Eeuwijk FA, Stam P, Tang J (2005) QTL analysis and QTL-based prediction of flowering phenology in recombinant inbred lines of barley. Journal of Experimental Botany 56, 967-976. doi: 10.1093/jxb/eri090
    • (2005) Journal of Experimental Botany , vol.56 , pp. 967-976
    • Yin, X.1    Struik, P.C.2    Van Eeuwijk, F.A.3    Stam, P.4    Tang, J.5
  • 52
    • 4444268914 scopus 로고    scopus 로고
    • Role of crop physiology in predicting gene-to-phenotype relationships
    • doi: 10.1016/j.tplants.2004.07.007
    • Yin X, Struik PC, Kropff MJ (2004) Role of crop physiology in predicting gene-to-phenotype relationships. Trends in Plant Science 9, 426-432. doi: 10.1016/j.tplants.2004.07.007
    • (2004) Trends in Plant Science , vol.9 , pp. 426-432
    • Yin, X.1    Struik, P.C.2    Kropff, M.J.3


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