scholarly journals Deterministic Imputation in Multienvironment Trials

ISRN Agronomy ◽  
2013 ◽  
Vol 2013 ◽  
pp. 1-17 ◽  
Author(s):  
Sergio Arciniegas-Alarcón ◽  
Marisol García-Peña ◽  
Wojtek Janusz Krzanowski ◽  
Carlos Tadeu dos Santos Dias
Keyword(s):  
Missing Values ◽  
Interaction Model ◽  
Environmental Parameters ◽  
Real Data ◽  
Original Data ◽  
Genotype By Environment Interaction ◽  
Environment Interaction ◽  
Data Set ◽  
Value Decomposition ◽  
Main Effects

This paper proposes five new imputation methods for unbalanced experiments with genotype by-environment interaction (G×E). The methods use cross-validation by eigenvector, based on an iterative scheme with the singular value decomposition (SVD) of a matrix. To test the methods, we performed a simulation study using three complete matrices of real data, obtained from G×E interaction trials of peas, cotton, and beans, and introducing lack of balance by randomly deleting in turn 10%, 20%, and 40% of the values in each matrix. The quality of the imputations was evaluated with the additive main effects and multiplicative interaction model (AMMI), using the root mean squared predictive difference (RMSPD) between the genotypes and environmental parameters of the original data set and the set completed by imputation. The proposed methodology does not make any distributional or structural assumptions and does not have any restrictions regarding the pattern or mechanism of missing values.

scholarly journals An alternative methodology for imputing missing data in trials with genotype-by-environment interaction: some new aspects

2014 ◽  
Vol 51 (2) ◽  
pp. 75-88 ◽  
Author(s):  
Sergio Arciniegas-Alarcón ◽  
Marisol García-Peña ◽  
Wojtek Janusz Krzanowski ◽  
Carlos Tadeu dos Santos Dias
Keyword(s):  
Missing Values ◽  
Mean Squared Error ◽  
Real Data ◽  
Genotype By Environment Interaction ◽  
Environment Interaction ◽  
Simple Imputation ◽  
Alternative Methodology ◽  
Complete Set ◽  
Rank Approximation ◽  
Value Decomposition

Abstract A common problem in multi-environment trials arises when some genotypeby- environment combinations are missing. In Arciniegas-Alarcón et al. (2010) we outlined a method of data imputation to estimate the missing values, the computational algorithm for which was a mixture of regression and lower-rank approximation of a matrix based on its singular value decomposition (SVD). In the present paper we provide two extensions to this methodology, by including weights chosen by cross-validation and allowing multiple as well as simple imputation. The three methods are assessed and compared in a simulation study, using a complete set of real data in which values are deleted randomly at different rates. The quality of the imputations is evaluated using three measures: the Procrustes statistic, the squared correlation between matrices and the normalised root mean squared error between these estimates and the true observed values. None of the methods makes any distributional or structural assumptions, and all of them can be used for any pattern or mechanism of the missing values.

scholarly journals Genotype by environment interaction for physiological traits in sugar beet (Beta vulgaris L.) parents and hybrids using additive main effects and multiplicative interaction model

2021 ◽  
Author(s):  
Zahra Abbasi ◽  
Jan Bocianowski
Keyword(s):  
Sugar Beet ◽  
Beta Vulgaris ◽  
Interaction Model ◽  
Genotype By Environment Interaction ◽  
Physiological Traits ◽  
Environment Interaction ◽  
Extraction Coefficient ◽  
Multiplicative Interaction ◽  
Genotype By Environment ◽  
Main Effects

AbstractThe objective of this study was to assess genotype by environment interaction for 21 physiological traits in sugar beet (Beta vulgaris L.) parents and hybrids grown in Rodasht Agricultural Research Station in Iran by the additive main effects and multiplicative interaction model. The study comprised of 51 sugar beet genotypes [10 multigerm pollen parents, four monogerm seed parents and 36 F1 hybrids], evaluated at four environments in a randomized complete block design, with three replicates. The additive main effects and multiplicative interaction analyses revealed significant environment main effects with respect to all observed traits, except extraction coefficient of sugar. The additive main effects and multiplicative interaction stability values ranged from 0.009 (G17 for leaf Ca2+) to 9.698 (G09 for extraction coefficient of sugar). The parental forms 2 7233-P.29 (G38) and C CMS (G49) as well as hybrids 2(6)*C (G27) and 5*C (G33) are recommended for further inclusion in the breeding programs because of their stability and good average values of observed traits.

scholarly journals Genotype by environment interaction for seeds yield in pea (Pisum sativum L.) using additive main effects and multiplicative interaction model

Euphytica ◽  
2019 ◽  
Vol 215 (11) ◽  
Author(s):  
Jan Bocianowski ◽  
Jerzy Księżak ◽  
Kamila Nowosad
Keyword(s):  
Pisum Sativum ◽  
Block Design ◽  
Interaction Model ◽  
Genotype By Environment Interaction ◽  
Environment Interaction ◽  
Ge Interaction ◽  
Multiplicative Interaction ◽  
Genotype By Environment ◽  
Randomized Complete Block Design ◽  
Main Effects

Abstract The objective of this study was to evaluate the genotype by environment interaction using the additive main effects and multiplicative interaction model for seeds yield of pea cultivars grown in Poland. Twelve pea (Pisum sativum L.) cultivars: Bohun, Boruta, Cysterski, Ezop, Kavalir, Lasso, Medal, Santana, Tarchalska, Terno, Wenus and Zekon were evaluated in 20 environments (ten locations in 2 years). The experiment was laid out as randomized complete block design with three replicates. Seeds yield ranged from 26.10 dt ha−1 (for Wenus in Radostowo 2011) to 79.73 dt ha−1 (for Lasso in Słupia 2010), with an average of 50.70 dt ha−1. AMMI analyses revealed significant genotype and environmental effects as well as genotype-by-environment interaction with respect to seeds yield. In the analysis of variance, 89.19% of the total seeds yield variation was explained by environment, 1.65% by differences between genotypes, and 8.33% by GE interaction. The cultivar Terno is the highest stability. The cultivar Tarchalska is recommended for further inclusion in the breeding program because its stability and the highest averages of seeds yield.

scholarly journals Genotype-by-environment interaction for seed glucosinolate content in winter oilseed rape (Brassica napus L.) using an additive main effects and multiplicative interaction model

2018 ◽  
Vol 55 (1) ◽  
pp. 85-96 ◽  
Author(s):  
Jan Bocianowski ◽  
Kamila Nowosad ◽  
Alina Liersch ◽  
Wiesława Popławska ◽  
Agnieszka Łącka
Keyword(s):  
Block Design ◽  
Interaction Model ◽  
Genotype By Environment Interaction ◽  
Glucosinolate Content ◽  
Environment Interaction ◽  
Brassica Napus L ◽  
Multiplicative Interaction ◽  
Genotype By Environment ◽  
Winter Rapeseed ◽  
Main Effects

Summary The objective of this study was to assess genotype-by-environment interaction for seed glucosinolate content in winter rapeseed cultivars grown in western Poland using the additive main effects and multiplicative interaction model. The study concerned 25 winter rapeseed genotypes (15 F1 CMS ogura hybrids, parental lines and two European cultivars: open pollinated Californium and F1 hybrid Hercules), evaluated at five locations in a randomized complete block design with four replicates. The seed glucosinolate content of the tested genotypes ranged from 5.53 to 16.80 μmol∙g-1 of seeds, with an average of 10.26 μmol∙g-1. In the AMMI analyses, 48.67% of the seed glucosinolate content variation was explained by environment, 13.07% by differences between genotypes, and 17.56% by genotype-by-environment interaction. The hybrid PN66×PN07 is recommended for further inclusion in the breeding program due to its low average seed glucosinolate content; the restorer line PN18, CMS ogura line PN66 and hybrids PN66×PN18 and PN66×PN21 are recommended because of their stability and low seed glucosinolate content.

scholarly journals Genotype by environment interaction for area under the disease-progress curve (AUDPC) value in spring barley using additive main effects and multiplicative interaction model

2020 ◽  
Vol 49 (5) ◽  
pp. 525-529 ◽  
Author(s):  
Jan Bocianowski ◽  
Anna Tratwal ◽  
Kamila Nowosad
Keyword(s):  
Spring Barley ◽  
Interaction Model ◽  
Genotype By Environment Interaction ◽  
Environment Interaction ◽  
Multiplicative Interaction ◽  
Disease Progress Curve ◽  
Genotype By Environment ◽  
Disease Progress ◽  
Progress Curve ◽  
Main Effects

Abstract The objective of this study was to assess genotype by environment interaction for area under disease progress curve values in spring barley grown in South-West Poland by the additive main effects and multiplicative interaction model. The study comprised of 25 spring barley genotypes (five cultivars: Basza, Blask, Antek, Skarb and Rubinek as well as all possible 10 two-way mixtures and 10 three-way mixtures combinations), evaluated at two locations in 4 years (eight environments) in a randomized complete block design, with four replicates. Area under disease progress curve (AUDPC) value of the tested genotypes ranged from 75.3 to 614.3, with an average of 175.3. In the AMMI analyses, 13.43% of the AUDPC value variation was explained by environment, 37.85% by differences between genotypes, and 18.20% by genotype by environment interaction. The mixture Basza/Skarb is recommended for further inclusion in the breeding program due to its low average AUDPC value (98.8) and is stable (AMMI stability value = 6.65).

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