BLUP for phenotypic selection in plant breeding and variety testing

Piepho, Hans‐Peter; Möhring, Jens; Melchinger, Albrecht E.; Büchse, A.

doi:10.1007/s10681-007-9449-8

Cited by 602 publications

(574 citation statements)

References 129 publications

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“…(iv) A great deal of information that may assist future decisions of breeders may be assessed, as, for example, comparing the interactions of progenies × years and progenies × locations. Various alternatives for analyses may be assessed, as, for example, use of the least square method and the mixed model method, especially the BLUP [23], moving averages [33,34], sequential analysis with the use of BLUP [35], and others. In this case, moreover, genealogy may be used as an additional criteria, as was mentioned previously.…”

Section: Strategies For Perennial Plant Breeding In Thementioning

confidence: 99%

Perspectives for the Use of Quantitative Genetics in Breeding of Autogamous Plants

2013

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With the increased demand for food, the use of methods and alternatives that increase efficiency in selection of inbred lines is necessary. e use of quantitative genetics plays an important role in this respect, especially when the pedigree method is used in autogamous plants. is study proposes the inclusion of relationship information among progenies using the best linear unbiased predictor (BLUP) to obtain the breeding values of greater accuracy and, consequently, increase genetic gains from the selection. A strategy is proposed that aims to accelerate the program of obtaining perennial plant inbreds and use the greatest amount of information possible in selection so as to attain maximum accuracy. In that way, it would be possible to make inbreds available which are better than the existing ones, with greater frequency, meeting the agribusiness demand involved in production of perennial plants.

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Section: Strategies For Perennial Plant Breeding In Thementioning

confidence: 99%

Perspectives for the Use of Quantitative Genetics in Breeding of Autogamous Plants

2013

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“…Multivariate analysis is a good tool for identification of the best performance genotypes for the interest trait (Bosetti et al 2012), because this analysis summarize the information from several traits into a reduced set of variables. On the other hand, BLUP is a method of statistical analysis for estimate random-effects based in a mixed-model (Piepho et al 2008). One of the most important characteristic of BLUP is shrinkage to the mean, which improved the estimates of means of traits increasing accuracy (Hill & Rosenberger 1985, Piepho et al 2008.…”

Section: Introductionmentioning

confidence: 99%

“…On the other hand, BLUP is a method of statistical analysis for estimate random-effects based in a mixed-model (Piepho et al 2008). One of the most important characteristic of BLUP is shrinkage to the mean, which improved the estimates of means of traits increasing accuracy (Hill & Rosenberger 1985, Piepho et al 2008. BLUP values for traits have showed a good predictive accuracy compared with other methodologies (Piepho et al 2008).…”

Section: Introductionmentioning

confidence: 99%

“…One of the most important characteristic of BLUP is shrinkage to the mean, which improved the estimates of means of traits increasing accuracy (Hill & Rosenberger 1985, Piepho et al 2008. BLUP values for traits have showed a good predictive accuracy compared with other methodologies (Piepho et al 2008). Despite their usefulness for phenotypic selection, BLUP selection has been underutilized by plant breeders (Heffner et al 2009).…”

Section: Introductionmentioning

confidence: 99%

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Cold tolerance evaluation of temperate rice (Oryza sativa L. ssp. japonica) genotypes at seedling stage

et al. 2015

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Cold is the most important abiotic factor that affect rice yield in Chile, which can alter the phenology and physiology of the rice at seedling stage. With the aim to increase the accuracy for cold tolerance evaluation in Chilean Rice Breeding Program of the Instituto de Investigaciones Agropecuarias (INIA), 109 experimental lines were evaluated to cold tolerance using morphological and physiological traits, at seedling stage. Cold treatment was achieved by placing seedlings at 5 °C on dark for 72 h and evaluations were made after seven days recovery. Leaf chlorosis based on the standard evaluation system scale (SES), Chlorophyll content (Chl), Malondialdehyde concentration (MDA) and maximum quantum yield of Photosystem II (Fv/Fm) were evaluated. Best linear unbiased prediction (BLUP) for all traits and multivariate analysis were made in order to determine the cold tolerant genotypes. Variability in cold tolerance among experimental lines was described by principal component and cluster analysis of BLUPs for all traits. The broad sense heritability calculated for SES scale was the highest (0.54), while for Fv/Fm was the lowest (0.10). Genotypes with high cold tolerance were Quila 242002 and Quila 241304, while more susceptible genotypes were Quila 64117, Quila 260312 and Quila 241607. The results suggest that the BLUPs and multivariate analysis allow adequate clustering of rice genotypes according to the degree of their cold tolerance. Finally, we suggest that SES scale and Chl content were the most suitable traits to evaluate cold tolerance for the rice genotypes studied and for the conditions evaluated. Keywords: Experimental lines, low temperatures, multivariate analysis, BLUP. RESUMENEl frío es el factor abiótico más importante que afecta los rendimientos del arroz en Chile, el cual puede alterar la fenología y la fisiología del arroz en estado de plántula. Con el objetivo de incrementar la precisión en la evaluación por tolerancia al frío en el Programa de Mejoramiento Genético de arroz del Instituto de Investigaciones Agropecuarias (INIA) de Chile, se evaluó la tolerancia al frío de 109 líneas experimentales en estado de plántula, utilizando atributos morfológicos y fisiológicos. El tratamiento por frío fue realizado sometiendo las plántulas a 5 °C por 72 h y las evaluaciones fueron realizadas después de siete días de recuperación. Se evaluó la clorosis foliar según la escala del sistema de evaluación estándar del IRRI (SES), el contenido de clorofila (Chl), la concentración de malondialdehido (MDA) y la eficiencia máxima fotoquímica del fotosistema II (Fv/Fm). El mejor predictor lineal insesgado (BLUP) para todos los atributos y un análisis multivariado fueron realizados con el fin de determinar los genotipos tolerantes al frío. La variabilidad de la tolerancia al frío entre las líneas experimentales fue descrita mediante componentes principales y un análisis de conglomerado utilizando los BLUPs para cada atributo. La heredabilidad en sentido amplio calculada para la escala SES fue la mayor (0,54)...

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“…However, beyond that general statement, there seem to be no formal methods for estimating genetic variation for plant parameters in PBMs. This stands in contrast to the use of classical mixed models for inferring genetic parameters from selection experiments, which originated in the animal breeding literature of the 1950s (Sorensen 2009), was later introduced in plant breeding (Piepho et al 2008) and for which both least squares and MCMC estimation methods are in use (Sorensen et al 1994).…”

Section: Cultivar-specific Parameter Estimationmentioning

confidence: 99%

Toward a Bayesian procedure for using process-based models in plant breeding, with application to ideotype design

Oijen

Höglind

2015

Euphytica

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Process-based grassland models (PBMs) simulate growth and development of vegetation over time. The models tend to have a large number of parameters that represent properties of the plants. To simulate different cultivars of the same species, different parameter values are required. Parameter differences may be interpreted as genetic variation for plant traits. Despite this natural connection between PBMs and plant genetics, there are only few examples of successful use of PBMs in plant breeding. Here we present a new procedure by which PBMs can help design ideotypes, i.e. virtual cultivars that optimally combine properties of existing cultivars. Ideotypes constitute selection targets for breeding. The procedure consists of four steps: (1) Bayesian calibration of model parameters using data from cultivar trials, (2) Estimating genetic variation for parameters from the combination of cultivar-specific calibrated parameter distributions, (3) Identifying parameter combinations that meet breeding objectives, (4) Translating model results to practice, i.e. interpreting parameters in terms of practical selection criteria. We show an application of the procedure to timothy (Phleum pratense L.) as grown in different regions of Norway.Keywords BASGRA Á Cold tolerance Á Genotype-environment interaction Á Plant breeding Á Process-based modelling Á Yield stability Terminology This paper aims to bridge two different plant disciplines, i.e. process-based modelling and breeding, so terms need to be defined. In modelling, we distinguish between plant parameters, which are genotype-specific constants, and output variables, which are plant characteristics that are predicted by the model and that vary between environments. Process-based models (PBMs) are dynamic models that represent physiological and morphological processes in plants, and their interaction with the environment. Simulation is the process of specifying environment and parameter values followed by running the PBM to calculate the output variables. In plant breeding, traits are measurable properties of plants that arise from the interaction between the genotype and its environment (G 9 E). The influence of the environment may be large for some traits (e.g. yield) or small (e.g. flower size). A quantitative trait is a property measured on a Electronic supplementary material The online version of this article

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BLUP for phenotypic selection in plant breeding and variety testing

Cited by 602 publications

References 129 publications

Perspectives for the Use of Quantitative Genetics in Breeding of Autogamous Plants

Perspectives for the Use of Quantitative Genetics in Breeding of Autogamous Plants

Cold tolerance evaluation of temperate rice (Oryza sativa L. ssp. japonica) genotypes at seedling stage

Toward a Bayesian procedure for using process-based models in plant breeding, with application to ideotype design

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