The clustering of locations based on multi-environment trials with different cultivars across years using the SEQRET package. Part I. Theoretical development of retrospective analysis
Anna Rajfura
anna_rajfura@sggw.edu.plKatedra Doświadczalnictwa i Bioinformatyki, Szkoła Główna Gospodarstwa Wiejskiego w Warszawie (Poland)
Wiesław Mądry
Katedra Doświadczalnictwa i Bioinformatyki, Szkoła Główna Gospodarstwa Wiejskiego w Warszawie (Poland)
Abstract
This work presents the theoretical development of retrospective analysis methods, which are appropriate to study unbalanced historical data sets from multi-environmental series of experiments carried out for many years. These methods are the first part of pattern analysis methods and they are used for clustering locations in the way by which they discriminate among genotypes. The paper describes an idea of calculating proximities between locations and averaging proximity matrices over years. These procedures were used in the SEQRET package, which has been exemplified in Part II of the work.
Keywords:
retrospective sequential pattern analysis, unbalanced historical databases, genotype × environment interactionReferences
DeLacy I. H., Basford K. E., Cooper M., Fox P. N. 1996. Retrospective analysis of historical data sets from multi-environment trials-Theoretical development. In: Cooper M., Hammer G.L. (eds) Plant Adaptation and Crop Improvement. CAB International: 243 — 267.
Google Scholar
DeLacy I. H., Cooper M., Lawrence P. K. 1990. Pattern analysis over years of regional variety trials: relationship among sites. In: Kang M.S. (ed.) Genotype-by-Environment Interaction and Plant Breeding. Louisiana State University, Baton Rouge, Louisiana (12-13 February): 189 — 213.
Google Scholar
DeLacy I.H., Fox P.N., Corbett J.D., Crossa J., Rajaram S., Fisher R.A. and van Ginkel M. 1994. Long-term association of locations for testing spring bread wheat. Euphytica 72: 95 — 106.
Google Scholar
DeLacy I. H., Cooper M., Basford K. E. 1996. Relationships among analytical methods used to study genotype-by-environment interactions and evaluation of their impact on response to selection. In: Kang, M. S., Gauch, H.G. (eds) Genotype-by-Environment Interaction: New Perspectives. CRC Press, Boca Raton, Florida: 51 — 84.
Google Scholar
DeLacy I. H., Basford K. E., Cooper M., Fox P. N. 1998. The SEQRET Package: Computer Programs for Retrospective Pattern Analysis, Version 1.1. The University of Queensland, Brisbane 4072, Australia.
Google Scholar
Fox P. N., Rosielle A. A. 1982. Reducing the influence of environmental main-effects on pattern analysis of plant breeding environments. Euphytica 31: 645 — 656.
Google Scholar
Gauch H. G., Zobel R. W. 1997. Identifying mega-environments and targeting genotypes. Crop Sci. 37: 311 — 326.
Google Scholar
Lawrence P. K. and DeLacy I. H. 1993. Classification of locations in regional cotton variety trials where trial entries change over years. Field Crops Research 34: 195 — 207.
Google Scholar
Mirzawan P. D. N., Cooper M., DeLacy I. H., Hogarth D. M. 1994. Retrospective analysis of the relationships among the test environments of the Southern Queensland sugarcane breeding program. Theoretical and Applied Genetics 88: 707 — 716.
Google Scholar
Williams W. T. 1976. Pattern Analysis in Agricultural Science. Elsevier Scientific Publishing Company, Amsterdam.
Google Scholar
Zhang Y., He Z., Zhang A., van Ginkel M., Ye G. 2006. Pattern analysis on grain yield of Chinese and CIMMYT spring wheat cultivars grown in China and CIMMYT. Euphytica 147: 409 — 420.
Google Scholar
Authors
Anna Rajfuraanna_rajfura@sggw.edu.pl
Katedra Doświadczalnictwa i Bioinformatyki, Szkoła Główna Gospodarstwa Wiejskiego w Warszawie Poland
Authors
Wiesław MądryKatedra Doświadczalnictwa i Bioinformatyki, Szkoła Główna Gospodarstwa Wiejskiego w Warszawie Poland
Statistics
Abstract views: 48PDF downloads: 13
License
Copyright (c) 2008 Anna Rajfura, Wiesław Mądry
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)
- Wiesław Mądry, Dariusz Gozdowski, Jan Rozbicki, Mirosław Pojmaj, Stanisław Samborski, Grain yield formation strategies in advanced lines of winter triticale grown in different environments , Bulletin of Plant Breeding and Acclimatization Institute: No. 244 (2007): Regular issue
- Wiesław Mądry, Barbara Roszkowska-Mądra , The beauty and importance of old traditional orchards , Bulletin of Plant Breeding and Acclimatization Institute: No. 299 (2023): Regular issue
- Marcin Studnicki, Wiesław Mądry, Tadeusz Śmiałowski, Comparison of statistical methods to development of a core collection for a spring wheat collection , Bulletin of Plant Breeding and Acclimatization Institute: No. 252 (2009): Regular issue
- Wiesław Mądry, Adriana Derejko, Statistical methods for data analysis in the complete classification Cultivar × Crop Management × Location × Year (G×M×L×Y) from PVTS , Bulletin of Plant Breeding and Acclimatization Institute: No. 273 (2014): Regular issue
- Dariusz Gozdowski, Wiesław Mądry, Zdzisław Wyszyński, Maria Kalinowska-Zdun, Characteristics and empirical comparison of simple and complex path analysis in grain yield determination by yield - related traits. Part II. Example on spring barley , Bulletin of Plant Breeding and Acclimatization Institute: No. 249 (2008): Regular issue
- Marcin Studnicki, Wiesław Mądry, Jan Schmidt, Multivariate analysis of genotypic diversity of agronomic traits in orchardgrass (Dactylis glomerata L.) germplasm collection , Bulletin of Plant Breeding and Acclimatization Institute: No. 263 (2012): Regular issue
- Wiesław Mądry, Marzena Iwańska, Usefulness of statistical methods and measures for evaluating cultivar stability and adaptation: an overview of research , Bulletin of Plant Breeding and Acclimatization Institute: No. 260/261 (2011): Regular issue
- Jakub Paderewski, Wiesław Mądry, Use of AMMI model in the analysis of cultivar responses to environments , Bulletin of Plant Breeding and Acclimatization Institute: No. 263 (2012): Regular issue
- Wiesław Mądry, Marzena Iwańska, Quantitative measures of the cultivar wide adaptation degree and their using in preliminary yield trials for winter wheat , Bulletin of Plant Breeding and Acclimatization Institute: No. 260/261 (2011): Regular issue
- Adriana Derejko, Wiesław Mądry, Overview of applications of statistical methods in the analysis of data from a series of experiments , Bulletin of Plant Breeding and Acclimatization Institute: No. 273 (2014): Regular issue
