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Adaptive and plastic responses of Quercus petraea populations to climate across Europe ArchiMer
Saenz-romero, Cuauhtemoc; Lamy, Jean-baptiste; Ducousso, Alexis; Musch, Brigitte; Ehrenmann, Francois; Delzon, Sylvain; Cavers, Stephen; Chalupka, Wladyslaw; Dagdas, Said; Hansen, Jon Kehlet; Lee, Steve J.; Liesebach, Mirko; Rau, Hans-martin; Psomas, Achilleas; Schneck, Volker; Steiner, Wilfried; Zimmermann, Niklaus E.; Kremer, Antoine.
How temperate forests will respond to climate change is uncertain; projections range from severe decline to increased growth. We conducted field tests of sessile oak (Quercus petraea), a widespread keystone European forest tree species, including more than 150,000 trees sourced from 116 geographically diverse populations. The tests were planted on 23 field sites in six European countries, in order to expose them to a wide range of climates, including sites reflecting future warmer and drier climates. By assessing tree height and survival, our objectives were twofold: (1) to identify the source of differential population responses to climate (genetic differentiation due to past divergent climatic selection versus plastic responses to ongoing climate...
Tipo: Text Palavras-chave: Climatic change; Climatic transfer distance; Mixed model; Quercus petraea; Survival; Tree growth.
Ano: 2017 URL: http://archimer.ifremer.fr/doc/00358/46967/46882.pdf
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Effects of using phenotypic means and genotypic values in GGE biplot analyses on genotype by environment studies on tropical maize (Zea mays). Repositório Alice
GRANATO, I. S. C.; FRITSCHE-NETO, R.; RESENDE, M. D. V. de; SILVA, F. F..
The objective of this study was to examine the effects of the type and intensity of nutritional stress, and of the statistical treatment of the data, on the genotype x environment (G x E) interaction for tropical maize (Zea mays). For this purpose, 39 hybrid combinations were evaluated under low- and high-nitrogen and -phosphorus availability. The plants were harvested at the V6 stage, and the shoot dry mass was estimated. The variance components and genetic values were assessed using the restricted maximum likelihood/best linear unbiased prediction method, and subsequently analyzed using the GGE biplot method. We observed differences in the performances of the hybrids depending on both the type and intensity of nutritional stress. The results of...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Maize; Nitrogen-use efficiency; Phosphorous-use efficiency; Mixed model; Principal component; Modelo mixto; Zea mays; Milho; Nutriente mineral; Corn; Nutrient use efficiency.
Ano: 2016 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1072717
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Estimadores de componentes de variancia em delineamento de blocos aumentados com tratamentos novos de uma ou mais populacoes. Repositório Alice
DUARTE, J.B.; VENCOVSKY, R.; DIAS, C.T. dos S..
O objetivo do trabalho foi comparar, por meio de simulação, as estimativas de componentes de variância produzidas pelos métodos ANOVA (análise da variância), ML (máxima verossimilhança), REML (máxima verossimilhança restrita) e MIVQUE(0) (estimador quadrático não viesado de variância mínima), no delineamento de blocos aumentados com tratamentos adicionais (progênies) de uma ou mais procedências (cruzamentos). Os resultados indicaram superioridade relativa do método MIVQUE(0). O método ANOVA, embora não tendencioso, apresentou as estimativas de menor precisão. Os métodos de máxima verossimilhança, sobretudo ML, tenderam a subestimar a variância do erro experimental () e a superestimar as variâncias genotípicas (), em especial nos experimentos de menor...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Modelo misto; Melhoramento vegetal; Selecao recorrente; Autogamas; Parametros geneticos; Mixed model; Plant breeding; Recurrent selection; Self-pollinated crop; Genetic parameters.
Ano: 2001 URL: http://www.alice.cnptia.embrapa.br/handle/doc/104010
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Flowering traits in tetraploid Brachiaria ruziziensis breeding. Repositório Alice
SIMEÃO, R. M.; SILV, A. S.; VALLE, C. B. do.
Tetraploid Brachiaria ruziziensis genotypes which reproduce sexually are essential for the breeding of other species of the Brachiaria genus which reproduce by apomixis. Aiming at studying the available phenotypic and genetic variability in the breeding population of B. ruziziensis, it was estimated the parameters heritability and genetic and phenotypic correlations between the traits associated with flowering, and the traits responsible for forage yield and nutritional quality. Seventeen traits in 1180 individuals from 59 open pollinated families were studied, and the data were analyzed by mixed model methods. Individuals with sparse flowering presented higher breeding values for total dry matter, yield, and total number of panicles per plant than...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Flowering phenology; Grass forage; Mixed model; Genetic variation; Urochloa platyphylla.
Ano: 2016 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1061848
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Genetic progress, adaptability and stability of maize cultivars for value of cultivation and use trials Agronomy
Uate, Joaquim Vicente; Nunvuga, Joel Jorge; Silva, Carlos Pereira da; Guimarães, Lauro Jose Moreira; Pinho, Renzo Garcia Von; Balestre, Marcio.
Maize breeding programs conduct multi-environment trials every year to assess the performance of new cultivars in pre-releasing tests. The data are combined across sites and seasons to perform a joint analysis in order to obtain information that will help breeders to select the best cultivars for different environments. Beyond this, it is essential to understand the different factors that can hamper the selection and genetic progress (i.e., genetic variability, selection intensity and genotype-by-environment interactions). In this study, the genetic progress (GP) was estimated and the adaptability and stability of 81 maize genotypes were evaluated in a series of trials for the value of cultivation and use (VCU) between the 2010/11 and 2014/15 growing...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Mixed model; Genetic gain; Biplot..
Ano: 2019 URL: http://periodicos.uem.br/ojs/index.php/ActaSciAgron/article/view/42624
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Genetic progress, adaptability and stability of maize cultivars for value of cultivation and use trials Agronomy
Uate, Joaquim Vicente; Nunvuga, Joel Jorge; Silva, Carlos Pereira da; Guimarães, Lauro Jose Moreira; Pinho, Renzo Garcia Von; Balestre, Marcio.
Maize breeding programs conduct multi-environment trials every year to assess the performance of new cultivars in pre-releasing tests. The data are combined across sites and seasons to perform a joint analysis in order to obtain information that will help breeders to select the best cultivars for different environments. Beyond this, it is essential to understand the different factors that can hamper the selection and genetic progress (i.e., genetic variability, selection intensity and genotype-by-environment interactions). In this study, the genetic progress (GP) was estimated and the adaptability and stability of 81 maize genotypes were evaluated in a series of trials for the value of cultivation and use (VCU) between the 2010/11 and 2014/15 growing...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Mixed model; Genetic gain; Biplot..
Ano: 2019 URL: http://periodicos.uem.br/ojs/index.php/ActaSciAgron/article/view/42624
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Genetic progress after cycles of upland rice recurrent selection Scientia Agricola
Morais Júnior,Odilon Peixoto de; Melo,Patrícia Guimarães Santos; Morais,Orlando Peixoto de; Castro,Adriano Pereira de; Breseghello,Flávio; Utumi,Marley Marico; Pereira,José Almeida; Wruck,Flávio Jesus; Colombari Filho,José Manoel.
Periodic assessment of the genetic progress made in recurrent selection programs is essential for assessing the evolution of the programs and identifying the main factors that have contributed to this progress. This study aimed to estimate genetic progress in grain yield, plant height and days-to-flowering achieved in the CNA6 population of upland rice (Oryza sativa L.), after four cycles of recurrent selection; and evaluate the genetic potential of this population to generate superior inbred lines after each selection cycle. The experimental data were obtained from progeny yield trials of each recurrent selection cycle. These trials were carried out in two or three locations per cycle, and consisted of S0:2 progenies and at least three checks. Federer’s...
Tipo: Info:eu-repo/semantics/article Palavras-chave: BLUE; BLUP; Mixed model; Population breeding.
Ano: 2015 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0103-90162015000400297
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Genomic prediction for additive and dominance effects of censored traits in pigs. Repositório Alice
SANTOS, V. S.; MARTINS FILHO, S.; RESENDE, M. D. V. de; AZEVEDO, C. F.; LOPES, P. S.; GUIMARÃES, S. E. F.; SILVA, F. F..
Age at the time of slaughter is a commonly used trait in animal breeding programs. Since studying this trait involves incomplete observations (censoring), analysis can be performed using survival models or modified linear models, for example, by sampling censored data from truncated normal distributions. For genomic selection, the greatest genetic gains can be achieved by including non-additive genetic effects like dominance. Thus, censored traits with effects on both survival models have not yet been studied under a genomic selection approach. We aimed to predict genomic values using the Cox model with dominance effects and compare these results with the linear model with and without censoring. Linear models were fitted via the maximum likelihood method....
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: GBLUP; Modelo mixto; Censored data; Mixed model; Survival models; Porco; Suíno; Swine; Animal breeding.
Ano: 2016 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1072712
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Genomic selection for slaughter age in pigs using the Cox frailty model. Repositório Alice
SANTOS, V. S.; MARTINS FILHO, S.; RESENDE, M. D. V. de; AZEVEDO, C. F.; LOPES, P. S.; GUIMARAES, S. E. F.; GLORIA, L. S.; SILVA, F. F..
The aim of this study was to compare genomic selection methodologies using a linear mixed model and the Cox survival model. We used data from an F2 population of pigs, in which the response variable was the time in days from birth to the culling of the animal and the covariates were 238 markers [237 single nucleotide polymorphism (SNP) plus the halothane gene]. The data were corrected for fixed effects, and the accuracy of the method was determined based on the correlation of the ranks of predicted genomic breeding values (GBVs) in both models with the corrected phenotypic values. The analysis was repeated with a subset of SNP markers with largest absolute effects. The results were in agreement with the GBV prediction and the estimation of marker effects...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Dado censurado; Modelo mixto; Polimorfismo; Censured data; Mixed model; Polymorphism.
Ano: 2015 URL: http://dx.doi.org/10.4238/2015.October.19.5
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Identification of QTL underlying agronomic, morphological and physiological traits in barley under rainfed conditions using SNP markers Agronomy
Arriagada, Osvin; Mora, Freddy; Quitral, Yerko; Del Pozo, Alejandro.
Barley (Hordeum vulgare L.) is considered a good genetic model for evaluating mechanisms of drought tolerance, and it is the most important threat to crop production worldwide. This study aimed to identify single-nucleotide polymorphisms (SNPs) associated with agronomic, morphological and physiological traits in a population of 137 recombinant chromosome substitution lines (RCSL) of barley, which were evaluated under rainfed conditions, in Cauquenes, southern Chile (35°58’ S, 72°17’ W). The annual precipitation was 299 mm during the growing season. Fifty-two significant QTLs were detected for the studied traits, which explained between 5% and 13.8% of the phenotypic variation. A genomic region on chromosome 1H (that comprises SNPs 2711-234 and 1923-265)...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Hordeum vulgare; Mixed model; Recombinant chromosome substitution lines; Segregation distortion.
Ano: 2017 URL: http://periodicos.uem.br/ojs/index.php/ActaSciAgron/article/view/32612
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Mehr-Ebenen-Modelle in der Analyse agrarstruktureller Entwicklungen – Methodik und Implikationen AgEcon
Margarian, Anne.
Until now empirical analyses have not succeeded in the determination of a general upon agreed bunch of the most important driving forces of structural change in agriculture beyond the level of the national economy. It will be argued that the sometimes contradictory results of different studies are caused by the endogenous dynamics of structural change as well as by mixing up different levels of causality. The influence of single causes, therefore, is not necessarily characterised by linearity, symmetry and independence of other causes, of the location or of time. Multi-level-models are being presented as a method with the capability to cope with these problems by modelling hierarchical relations and dynamics in time simultaneously. The flexibility of the...
Tipo: Journal Article Palavras-chave: Structural change; Multi-level-model; Mixed model; Hierarchical causation; Endogenous restrictions; Community/Rural/Urban Development.
Ano: 2007 URL: http://purl.umn.edu/96764
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Multiple imputation procedures allow the rescue of missing data: An application to determine serum tumor necrosis factor (TNF) concentration values during the treatment of rheumatoid arthritis patients with anti-TNF therapy Biol. Res.
SCHIATTINO,IRENE; VILLEGAS,RODRIGO; CRUZAT,ANDREA; CUENCA,JIMENA; SALAZAR,LORENA; ARAVENA,OCTAVIO; PESCE,BÁRBARA; CATALÁN,DIEGO; LLANOS,CAROLINA; CUCHACOVICH,MIGUEL; AGUILLÓN,JUAN C.
Longitudinal studies aimed at evaluating patients clinical response to specific therapeutic treatments are frequently summarized in incomplete datasets due to missing data. Multivariate statistical procedures use only complete cases, deleting any case with missing data. MI and MIANALYZE procedures of the SAS software perform multiple imputations based on the Markov Chain Monte Carlo method to replace each missing value with a plausible value and to evaluate the efficiency of such missing data treatment. The objective of this work was to compare the evaluation of differences in the increase of serum TNF concentrations depending on the ­308 TNF promoter genotype of rheumatoid arthritis (RA) patients receiving anti-TNF therapy with and without multiple...
Tipo: Journal article Palavras-chave: Multiple imputation; Mixed model; TNF polymorphism.
Ano: 2005 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602005000100002
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Selection index based on phenotypic and genotypic values predicted by REML/BLUP in Papaya Rev. Bras. Frutic.
Moreira,Sarah Ola; Kuhlcamp,Karin Tesch; Barros,Fabíola Lacerda de Souza; Zucoloto,Moises; Godinho,Tiago de Oliveira.
Abstract Selection of superior genotypes based on the simultaneous responses to different characteristics is a fundamental strategy in plant breeding. This study aimed to compare the efficiency of four selection index constructed using phenotypic and genotypic values in a segregating population of the cultivar Rubi Incaper 511. Eight morpho-agronomic variates and the severity of black-spot and phoma-spot were evaluated under field conditions. The classical selection index were calculated based on non-standardized phenotypic means (NSM), standardized means (SM), and genotypic values predicted by REML/BLUP (GVP), using predetermined economic weights. Additionally, the rank sum (RS) was obtained on the basis of the classification of individuals in these...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Carica papaya L.; Selection criteria; Mixed model; Selection differential.
Ano: 2019 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-29452019000100802
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Simulation of mixed models in augmented block design Scientia Agricola
Santos,Aladir Horacio; Bearzoti,Eduardo; Ferreira,Daniel Furtado; Silva Filho,João Luís da.
The augmented block design is widely used in breeding programs, with non-replicated treatments generally being selection units, and replicated treatments being standard cultivars. Originally, an intrablock analysis (fixed model) was proposed. Although non-replicated treatments and/or blocks can be considered of random nature, mixed linear models could be used instead. This work evaluated such an approach, using computer simulation. Populations consisted of sets of randomly generated inbred lines. Molecular marker data were also simulated to allow the estimation of the genetic covariance matrix. Different conditions were considered, varying heritability and the coefficient b of Smith of soil heterogeneity. For each condition 100 simulations were performed,...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Augmented design; Mixed model; Molecular marker.
Ano: 2002 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0103-90162002000300012
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Spatial statistical analysis and selection of genotypes in plant breeding. Repositório Alice
DUARTE, J.B.; VENCOVSKY, R..
The objective of this study was to evaluate the efficiency of spatial statistical analysis in the selection of genotypes in a plant breeding program and, particularly, to demonstrate the benefits of the approach when experimental observations are not spatially independent. The basic material of this study was a yield trial of soybean lines, with five check varieties (of fixed effect) and 110 test lines (of random effects), in an augmented block design. The spatial analysis used a random field linear model (RFML), with a covariance function estimated from the residuals of the analysis considering independent errors. Results showed a residual autocorrelation of significant magnitude and extension (range), which allowed a better discrimination among genotypes...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Augmented design; Mixed model; Information recovery; Autocorrelation; Correlated data; Geostatistics; Delineamento aumentado; Modelo misto; Recuperação de informação; Autocorrelação; Dados correlacionados; Geoestatística.
Ano: 2005 URL: http://www.alice.cnptia.embrapa.br/handle/doc/113848
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Spatial statistical analysis and selection of genotypes in plant breeding PAB
Duarte,João Batista; Vencovsky,Roland.
The objective of this study was to evaluate the efficiency of spatial statistical analysis in the selection of genotypes in a plant breeding program and, particularly, to demonstrate the benefits of the approach when experimental observations are not spatially independent. The basic material of this study was a yield trial of soybean lines, with five check varieties (of fixed effect) and 110 test lines (of random effects), in an augmented block design. The spatial analysis used a random field linear model (RFML), with a covariance function estimated from the residuals of the analysis considering independent errors. Results showed a residual autocorrelation of significant magnitude and extension (range), which allowed a better discrimination among genotypes...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Augmented design; Mixed model; Information recovery; Autocorrelation; Correlated data; Geostatistics.
Ano: 2005 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-204X2005000200002
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Sweet potato clone selection by REML/BLUP procedure - doi: 10.4025/actasciagron.v32i4.4837 Agronomy
Borges, Vanderley; UFAL; Ferreira, Paulo Vanderlei; UFAL; Soares, Laílton; UFAL; Santos, Gilcilene Martins; UFAL; Santos, Amanda Maria Marcelino; UFAL.
The objective of this work was to classify and select sweet potato clones, using the REML/BLUP methodology. The study was carried out in Rio Largo, Alagoas State, located 127 m above sea level, 9°27’S and 35°27’W. Five clones were evaluated (CL-2, CL-3, CL-4, CL-6 and CL-8) in a randomized complete blocks design with eight replications. The analyzed variables were number of commercial roots (NCR), number of non-commercial roots (NNCR), total number of roots (TNR), aerial part weight (APW), average weight of non-commercial roots (AWNCR), commercial root length (CRL), average weight of commercial roots (AWCR), and diameter of commercial roots (DCR). The analysis of deviance showed that the clones differ statistically for NNCR, TNR, AWNCR,...
Palavras-chave: 5.01.03.00-8 Ipomoea batatas; Modelo misto; Análise de deviance; Classificação genotípica FITOTECNIA Ipomoea batatas; Mixed model; Analysis of deviance; Genotypic classification.
Ano: 2010 URL: http://periodicos.uem.br/ojs/index.php/ActaSciAgron/article/view/4837
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