Retrospective study of yield response to environmental conditions in winter wheat cultivars using combined AMMI and cluster analysis to incomplete data: genetic progress for adaptability
Jakub Paderewski
jakub_paderewski@sggw.edu.plKatedra Doświadczalnictwa i Bioinformatryki SGGW w Warszawie (Poland)
Wiesław Mądry
Katedra Doświadczalnictwa i Bioinformatryki SGGW w Warszawie (Poland)
Wiesław Pilarczyk
Katedra Metod Matematycznych i Statystycznych Uniwersytetu Przyrodniczego w Poznaniu (Poland)
Tadeusz Drzazga
Hodowla Roślin Rolniczych "Nasiona Kobierzyc" Sp. z o.o. w Kobierzycach (Poland)
Abstract
Data for winter wheat grain yield which were analyzed in the paper come from 14 multiple-environment trials (METs), called pre-registration trials, done across the years 1991–2004. Each year, new tested cultivars entered the trials network but some entries and check-cultivars retained in the network for a few year period. Among them 21 tested and check cultivars, evaluated across at least 3 years period, were taken to these considerations. The entries were released during the years the 1982 to 2004. Adjusted means of grain yield for cultivars in locations across years using BLUE estimator in REML method were calculated. These means constituted an incomplete GL classification. Some missing means in the classification were approximated by the EM-AMMI procedure. The AMMI analysis based on additive main effects and multiplicative interaction fixed model. In the second step of the statistical procedure cluster analysis was performed taking into account estimates of GL interaction effects. This method enables grouping cultivars with similar profiles of GL interaction effects and also similar genotypic means of grain yield. In this way different types of yield response of homogenous cultivar group of winter wheat to variable environmental conditions in locations (types of adaptations) were distinguished. The combined AMMI and cluster analysis including specific modifications for incomplete data was efficient to study patterns of yield response to environmental conditions in winter wheat cultivars using data from incomplete GLY classification obtained in pre-registration trials. As a result of the study, genetic progress was estimated with regard to both yield and its stability and then wide adaptability.
Keywords:
winter wheat, AMMI analysis, cluster analysis, cultivars, adaptation, grain yieldReferences
Alagarswamy G., Chandra S. 1998. Pattern analysis of international sorghum multi-environment trials for grain-yield adaptation. Theor. Appl. Genet. 96: 397 — 405.
Google Scholar
Allard R. W., Bradshaw A. D. 1964. Implications of genotype-environmental interactions in applied plant breeding. Crop Sci. 4: 503 — 508.
Google Scholar
Annicchiarico P. 1997 a. Additive main effects and multiplicative interaction (AMMI) analysis of genotype location interaction in variety trials repeated over years. Theor. Appl. Genet. 94: 1072 — 1077.
Google Scholar
Annicchiarico P. 1997 b. Joint regression vs. AMMI analysis of genotype-environment interactions for cereals in Italy. Euphytica 94: 53 — 62.
Google Scholar
Annicchiarico P. 2002 a. Defining adaptation strategies and yield stability targets in breeding programmers’. 165–183. W Kang M.S. (Ed.) Quantitative genetics, genomics and plant breeding. CABI, Wallingford, UK.
Google Scholar
Annicchiarico P. 2002 b. Genotype-environment interactions: challenges and opportunities for plant breeding and cultivar recommendations. FAO Plant Production and Protection Paper No. 174. Food and Agriculture Organization, Rome.
Google Scholar
Annicchiarico P., Perenzin M. 1994. Adaptation Patterns and Definition of Macro-environments for Selection and Recommendation of Common-wheat Genotypes in Italy. Plant Breeding 113: 197 — 205.
Google Scholar
Austin R. B. 1999. Yield of wheat in the United Kingdom: recent advances and prospects. Crop Sci. 39: 1604 — 610.
Google Scholar
Bänziger M., Cooper M. 2001. Breeding for low input conditions and consequences for participatory plant breeding: Examples from tropical maize and wheat. Euphytica 122: 503 — 519.
Google Scholar
Benesi I. R. M., Labuschagne M. T., Herselman L., Mahungu N. M., Saka J. K. 2008. The effect of genotype, location and season on cassava starch extraction. Euphytica 160: 59 — 74.
Google Scholar
Brancourt-Hulmel M., Doussinault G., Lecomte C., Bérard P., Le Buanec B., Trottet M. 2003. Genetic improvement of agronomic traits of winter wheat cultivars released in France from 1946 to 1992. Crop Sci. 43:37 — 45.
Google Scholar
Caliński T, Corsten L. C. A. 1985. Clustering Means in ANOVA by Simultaneous Testing. Biometrics 41: 39 — 48.
Google Scholar
Caliński T., Czajka S., Denis J. B., Kaczmarek Z. 1992. EM and ALS algorithms applied to estimation of missing data in series of variety trials. Biul. Oceny Odmian 24–25: 7 — 31.
Google Scholar
Caliński T., Czajka S., Kaczmarek Z. 1987 a. A model for the analysis of a series of experiments repeated at several places over a period of years. I. Theory. Biul. Oceny Odmian 17–18: 7 — 33.
Google Scholar
Caliński T., Czajka S., Kaczmarek Z. 1987 b. A model for the analysis of a series of experiments repeated at several places over a period of years. II. Example. Biul. Oceny Odmian 17 — 18:35 — 71.
Google Scholar
Carr P. M., Kandel H. J., Porter P. M., Horsley R. D., Zwinger S. F. 2006. Wheat cultivar performance on certified organic fields in Minnesota and North Dakota. Crop Sci. 46: 1963 — 1971.
Google Scholar
Casler M.D., van Santen E. 2000. Patterns of variation in a collection of meadow fescue accessions. Crop Sci. 40: 248 — 255.
Google Scholar
Charakterystyka i technologia uprawy odmian pszenicy ozimej. 2003. IHAR Radzików.
Google Scholar
Chauhan Y. S., Wallace D. H., Johansen C., Singh L. 1998. Genotype-by-environment interaction effect on yield and its physiological bases in short-duration pigeonpea. Field Crops Research 59: 141 — 150.
Google Scholar
Cornelius P. L. 1993. Statistical tests and retention of terms in the additive main effects and multiplicative interaction model for cultivar trials. Crop Sci. 33: 1186 — 1193.
Google Scholar
Cornelius P. L., Crossa J., Seyedsadr M. 1996 Statistical tests and estimators of multiplicative models for genotype-by-environment interaction. W Kang M. S., Gauch H. G. (Eds.), Genotype by Environment Interaction. CRC Press, Boca Raton: 199 — 234.
Google Scholar
DeLacy, I. H., K. E. Basford, M. Cooper J. K., Bull C.G., McLaren. 1996 a. Analysis of multi-environment trials — an historical perspective. In M. Cooper and G. L. Hammer (ed.) Plant adaptation and crop improvement. CAB International. Wallingford, UK: 39 — 124.
Google Scholar
DeLacy, I. H., K. E. Basford, M. Cooper, Fox P.N. 1996 b. Retrospective analysis of historical data sets from multi-environment trials–theoretical development. In: M. Cooper and G.L. Hammer (ed.) Plant adaptation and crop improvement. CAB International. Wallingford, UK: 243 — 267.
Google Scholar
de la Vega A. J., Chapman S.C., Hall A. J. 2001. Genotype by environment interaction and indirect selection for yield in sunflower I. Two-mode pattern analysis of oil and biomass yield across environments in Argentina. Field Crops Res. 72: 17 — 38.
Google Scholar
de la Vega A.J., DeLacy I.H., Chapman S.C. 2007a. Changes in agronomic traits of sunflower hybrids over 20 years of breeding in central Argentina. Field Crops Res. 100:73 — 81.
Google Scholar
de la Vega A.J., DeLacy I.H., Chapman S.C. 2007b. Progress over 20 years of sunflower breeding in central Argentina. Field Crops Res.100:61 — 72.
Google Scholar
De Vita P., Li Destri O., Nigro F., Platani C., Riefolo C., Di Fonzo N., Cattivelli L. 2007. Breeding progress in morpho-physiological, agronomical and qualitative traits of durum wheat cultivars released in Italy during the 20th century. Europ. J. Agronomy 26: 39 — 53.
Google Scholar
Donmez E., Sears R. G., Shroyer J. P., Paulsen G. M. 2001. Genetic gain in yield attributes of winter wheat in the Great Plains. Crop Sci. 41: 1412 — 1419.
Google Scholar
Elandt R. 1964. Statystyka matematyczna w zastosowaniu do doświadczalnictwa rolniczego. PWN, Warszawa.
Google Scholar
Fufa H., Baenziger P.S., Beecher B. S., Graybosch R. A., Eskridge K. M., Nelson L. A. 2005. Genetic improvement trends in agronomic performances and end-use quality characteristics among hard red winter wheat cultivars in Nebraska. Euphytica 144:187 — 198.
Google Scholar
Gauch H. G. 1992. Statistical analysis of regional yield trials. AMMI analysis of factorial designs. Elsevier Science, New York.
Google Scholar
Gauch H. G. 2006. Statistical analysis of yield trials by AMMI and GGE. Crop Sci. 46:1488 — 1500.
Google Scholar
Gauch H. G., Piepho H. P., Annicchiarico P. 2008. Statistical analysis of yield trials by AMMI and GGE: Further considerations. Crop Sci. 48: 866 — 889.
Google Scholar
GenStat. 2002. The guide to Genstat. Release 6.1. VSN International. Oxford, UK.
Google Scholar
Giunta F., Motzo R. Pruneddu G. 2007. Trends since 1900 in the yield potential of Italian-bred durum wheat cultivars. Europ. J. Agron. 27: 12 — 4.
Google Scholar
Gollob H. 1968. A statistical model which combines features of factor analytic and analysis of variance techniques. Psychometrika 33:73 — 115.
Google Scholar
Haussmann B. I. G., Obilana A. B., Ayiecho P. O., Blum A., Schipprack W., Geiger H. H. 2000. Yield and yield stability of four population types of grain sorghum in a semi-arid area of Kenya. Crop Sci. 40: 319 — 329.
Google Scholar
Kaya Y., Akcura M., Ayranci R., Taner S. 2006. Pattern analysis of multi-environment trials in bread wheat. Commun. Biometry and Crop Sci. 1:63 — 71.
Google Scholar
Lopez-Pereira M.L., Sadras V.O., Trapani, N. 1999. Genetic improvement of sunflower in Argentina between 1930 and 1995. I. Yield and its components. Field Crops Res. 62: 57 — 166.
Google Scholar
Mądry W., Talbot M., Ukalski K., Drzazga T., Iwańska M. 2006. Podstawy teoretyczne znaczenia efektów genotypowych i interakcyjnych w hodowli roślin na przykładzie pszenicy ozimej. Biul. IHAR 240/241: 13 — 31.
Google Scholar
McLaren C. G. 1996. Methods of data standardization used in pattern analysis and AMMI models for the analysis of international multi-environment variety trials. In: Cooper M., Hammer G. L., Eds. Plant adaptation and crop improvement. Wilingford, UK, CAB International: 225 — 242.
Google Scholar
Munoz P., Voltas J., Araus J. L., Igartua E., Romagosa I. 1998. Changes over time in the adaptation of barley releases in north-eastern Spain. Plant Breeding 117: 531 — 535.
Google Scholar
Patterson H. D. 1997. Analysis of series of variety trials. In R.A. Kempton, P.N. Fox (ed.) Statistical methods for plant variety evaluation. Chapman and Hall, London: 139 — 161.
Google Scholar
Patterson H. D., Thompson R. 1971. Recovery of inter-block information when block sizes are unequal. Biometrika 58: 545 — 554.
Google Scholar
Piepho, H. P., Möhring J. 2005. Best linear unbiased prediction of cultivar effects for subdivided target regions. Crop Sci. 45: 1151 — 1159.
Google Scholar
Piepho, H. P., Möhring J. 2006. Selection in cultivar trials — is it ignorable? Crop Sci. 46:192 — 201.
Google Scholar
Putto C., Patanothai A., Jogloy S., Pannangpetch K., Boote K. J., Hoogenboom G. 2008. Determination of efficient test sites for evaluation of peanut breeding lines using the CSM-CROPGRO-peanut model. Field Crops Research.
Google Scholar
R Development Core Team. 2007. R: A language and environment for statistical computing. R: Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0, URL http://www.R-project.org.
Google Scholar
Rodriguez M., Rau D., Papa R., Attene G. 2008. Genotype by environment interactions in barley (Hordeum vulgare L.): different responses of landraces, recombinant inbred lines and varieties to Mediterranean environment. Euphytica (w druku, Online 1573–5060).
Google Scholar
Samonte S.O., Wilson L.T., McClung A.M., Medley J.C. 2005. Targeting cultivars onto rice growing environments using AMMI and SREG GGE biplot analyses. Crop Sci. 45: 2414 — 2424.
Google Scholar
SAS Institute. 2001. SAS system for Windows. v. 8.2. SAS Inst., Cary, NC.
Google Scholar
Searle S. R. 1987. Linear models for unbalanced data. J. Wiley & Sons, New York.
Google Scholar
Searle S. R., Casella G., McCulloch C.E. 1992. Variance components. Wiley, New York.
Google Scholar
Sharma R. C., Ortiz-Ferrara G., Crossa J., Bhatta M. R., Sufian M. A., Shoran J., Joshi A. K., Chand R. Singh G., Ortiz R. 2007. Wheat grain yield and stability assessed through regional trials in the Eastern Gangetic Plains of South Asia. Euphytica 157: 457 — 464.
Google Scholar
Sipaseuth Basnayake J., Fukai S., Inthapanya P., Changphengxay M. 2009. Consistency of genotypic performance of lowland rice in wet and dry season in Lao PDR. Field Crops Research 111: 47 — 54.
Google Scholar
Sivapalan S., O’Brien L., Ortiz-Ferrera G., Hollamby G. J., Barclay I., Martin P. J. 2000. An adaptation analysis of Australian and CIMMYT/ICARDA wheat germplasm in Australian production environments. Aust. J. Agric. Res. 51: 903 — 915.
Google Scholar
Slafer G. A., Satorre E. H., Andrade F. H. 1993. Increases in grain yield in wheat from breeding and associated physiological changes. In: Slafer, G. A. (Ed.). Genetic Improvement of Field Crops. Marcel Dekker, New York: 1 — 68.
Google Scholar
Smith A. B., Cullis B. R., Thompson R. 2005. The analysis of crop cultivar breeding and evaluation trials: an overview of current mixed model approaches. J. Agr. Sci. Cam. 143: 449 — 462.
Google Scholar
Tinker N. A., Yan W. 2006. Information systems for crop performance data. Can. J. Plant Sci. 86: 647 — 662.
Google Scholar
Tollenaar M., Lee E. A. 2002. Yield potential yield, yield stability and stress tolerance in maize. Field Crops Research 75: 161 — 170.
Google Scholar
Trethowan R. M., van Ginkel M., Rajaram S. 2002. Progress in breeding wheat for yield and adaptation in global drought affected environments. Crop Sci. 42: 1441 — 1446.
Google Scholar
van Eeuwijk F. A. 1995. Linear and bilinear models for the analysis of multi-environment trials: I. An inventory of models. Euphytica 84: 1 — 7.
Google Scholar
Voltas J., Romagosa I., Lafarga A., Armesto A.P., Sombrero A., Araus J. L. 1999. Genotype by environment interaction for grain yield and carbon isotope discrimination of barley in Mediterranean Spain. Australian Journal of Agricultural Research 50: 1263 — 1271.
Google Scholar
Zhang Y., He Z., Zhang A., van Ginkel M., Ye G. 2006 a. Pattern analysis on grain yield of Chinese and CIMMYT spring wheat cultivars grown in China and CIMMYT. Euphytica 147: 409 — 420.
Google Scholar
Zhang Y., He Z., Zhang A., van Ginkel M., Pena R. J., Ye G. 2006 b. Pattern analysis on protein properties of Chinese and CIMMYT spring wheat cultivars sown in China and CIMMYT. Australian Journal of Agricultural Research 57: 811 — 822.
Google Scholar
Zobel R. W., Wright M. J., Gauch H. G. 1988. Statistical analysis of a yield trial. Agron. J. 80: 388 — 393.
Google Scholar
Authors
Jakub Paderewskijakub_paderewski@sggw.edu.pl
Katedra Doświadczalnictwa i Bioinformatryki SGGW w Warszawie Poland
Authors
Wiesław MądryKatedra Doświadczalnictwa i Bioinformatryki SGGW w Warszawie Poland
Authors
Wiesław PilarczykKatedra Metod Matematycznych i Statystycznych Uniwersytetu Przyrodniczego w Poznaniu Poland
Authors
Tadeusz DrzazgaHodowla Roślin Rolniczych "Nasiona Kobierzyc" Sp. z o.o. w Kobierzycach Poland
Statistics
Abstract views: 257PDF downloads: 20
License
Copyright (c) 2008 Jakub Paderewski, Wiesław Mądry, Wiesław Pilarczyk, Tadeusz Drzazga
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.
Upon submitting the article, the Authors grant the Publisher a non-exclusive and free license to use the article for an indefinite period of time throughout the world in the following fields of use:
- Production and reproduction of copies of the article using a specific technique, including printing and digital technology.
- Placing on the market, lending or renting the original or copies of the article.
- Public performance, exhibition, display, reproduction, broadcasting and re-broadcasting, as well as making the article publicly available in such a way that everyone can access it at a place and time of their choice.
- Including the article in a collective work.
- Uploading an article in electronic form to electronic platforms or otherwise introducing an article in electronic form to the Internet or other network.
- Dissemination of the article in electronic form on the Internet or other network, in collective work as well as independently.
- Making the article available in an electronic version in such a way that everyone can access it at a place and time of their choice, in particular via the Internet.
Authors by sending a request for publication:
- They consent to the publication of the article in the journal,
- They agree to give the publication a DOI (Digital Object Identifier),
- They undertake to comply with the publishing house's code of ethics in accordance with the guidelines of the Committee on Publication Ethics (COPE), (http://ihar.edu.pl/biblioteka_i_wydawnictwa.php),
- They consent to the articles being made available in electronic form under the CC BY-SA 4.0 license, in open access,
- They agree to send article metadata to commercial and non-commercial journal indexing databases.
Most read articles by the same author(s)
- Maciej Majka, Magdalena Gawłowska, Adriana Twardawska, Marek Korbas, Jakub Danielewicz, Tomasz Góral, Bogusława Ługowska, Jolanta Belter, Edward Witkowski, Tadeusz Drzazga, Przemysław Matysik, Urszula Woźna-Pawlak, Halina Wiśniewska, Use of molecular and phenotypic markers to identify wheat eyespot resistance genes caused by Oculimacula yallundae and O. acuformis , Bulletin of Plant Breeding and Acclimatization Institute: No. 288 (2020): Regular issue
- Tomasz Góral, Halina Wiśniewska, Piotr Ochodzki, Dorota Walentyn-Góral, Iga Grzeszczak, Jolanta Belter, Maciej Majka, Jerzy Bogacki, Tadeusz Drzazga, Bogusława Ługowska, Przemysław Matysik, Edward Witkowski, Krzysztof Rubrycki, Urszula Woźna-Pawlak, Fuzarioza kłosów oraz akumulacja toksyn fuzaryjnych w ziarnie rodów hodowlanych pszenicy ozimej , Bulletin of Plant Breeding and Acclimatization Institute: No. 282 (2017): Regular issue
- Wiesław Mądry, Dariusz Gozdowski, A history of the development of statistical methods for designing and analyzing agricultural experiments in the world and in Poland , Bulletin of Plant Breeding and Acclimatization Institute: No. 288 (2020): Regular issue
- Katarzyna Ambroży, Ewa Bakinowska, Jan Bocianowski, Anna Budka, Wiesław Pilarczyk, Bogna Zawieja, Statistical support of selection decisions at early stage of cereal breeding. Part II. Empirical comparison of treatment effects estimation methods , Bulletin of Plant Breeding and Acclimatization Institute: No. 250 (2008): Regular issue
- Joanna Ukalska, Krzysztof Ukalski, Tadeusz Śmiałowski, Wiesław Mądry, An examination of diversity and interrelationships among traits in a winter wheat (Triticum aestivum L.) germplasm collection by multivariate methods. Part II. Principal component analysis using the phenotypic and genotypic correlation matrix , Bulletin of Plant Breeding and Acclimatization Institute: No. 249 (2008): Regular issue
- Dariusz Gozdowski, Wiesław Mądry, Zdzisław Wyszyński, Analysis of correlation and path coefficients in evaluation of relationships between grain yield and its components of two spring barley cultivars , Bulletin of Plant Breeding and Acclimatization Institute: No. 248 (2008): Regular issue
- Krzysztof Ukalski, Joanna Ukalska, Tadeusz Śmiałowski, Wiesław Mądry, An examination of diversity and interrelationships among traits in a winter wheat (Triticum aestivum L.) germplasm collection by multivariate methods. Part I. Phenotypic and genotypic correlations , Bulletin of Plant Breeding and Acclimatization Institute: No. 249 (2008): Regular issue
- Marcin Studnicki, Wiesław Mądry, Tadeusz Śmiałowski, Multivariate analysis of phenotypic diversity in Polish spring wheat collection , Bulletin of Plant Breeding and Acclimatization Institute: No. 252 (2009): Regular issue
- Katarzyna Ambroży, Ewa Bakinowska, Jan Bocianowski, Anna Budka, Wiesław Pilarczyk, Bogna Zawieja, Statistical support of selection decisions at early stage of cereal breeding. Part I. Methods of estimation of treatment effects , Bulletin of Plant Breeding and Acclimatization Institute: No. 250 (2008): Regular issue
- Adriana Derejko, Wiesław Mądry, Dariusz Gozdowski, Jan Rozbicki, Jan Golba, Mariusz Piechociński, Marcin Studnicki, The influence of cultivar, location, crop management intensities, and their interactions on winter wheat yield in post-registration multi-environment trials (PDO) , Bulletin of Plant Breeding and Acclimatization Institute: No. 259 (2011): Regular issue
