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URI permanente desta comunidadehttps://thoth.dti.ufv.br/handle/123456789/3352
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Resultados da Pesquisa
Item Genomic prediction of leaf rust resistance to Arabica coffee using machine learning algorithms(Escola Superior de Agricultura "Luiz de Queiroz", 2021) Sousa, Ithalo Coelho de; Nascimento, Moysés; Silva, Gabi Nunes; Nascimento, Ana Carolina Campana; Cruz, Cosme Damião; Silva, Fabyano Fonseca e; Almeida, Dênia Pires de; Pestana, Kátia Nogueira; Azevedo, Camila Ferreira; Zambolim, Laércio; Caixeta, Eveline TeixeiraGenomic selection (GS) emphasizes the simultaneous prediction of the genetic effects of thousands of scattered markers over the genome. Several statistical methodologies have been used in GS for the prediction of genetic merit. In general, such methodologies require certain assumptions about the data, such as the normality of the distribution of phenotypic values. To circumvent the non-normality of phenotypic values, the literature suggests the use of Bayesian Generalized Linear Regression (GBLASSO). Another alternative is the models based on machine learning, represented by methodologies such as Artificial Neural Networks (ANN), Decision Trees (DT) and related possible refinements such as Bagging, Random Forest and Boosting. This study aimed to use DT and its refinements for predicting resistance to orange rust in Arabica coffee. Additionally, DT and its refinements were used to identify the importance of markers related to the characteristic of interest. The results were compared with those from GBLASSO and ANN. Data on coffee rust resistance of 245 Arabica coffee plants genotyped for 137 markers were used. The DT refinements presented equal or inferior values of Apparent Error Rate compared to those obtained by DT, GBLASSO, and ANN. Moreover, DT refinements were able to identify important markers for the characteristic of interest. Out of 14 of the most important markers analyzed in each methodology, 9.3 markers on average were in regions of quantitative trait loci (QTLs) related to resistance to disease listed in the literature.Item Trait selection using procrustes analysis for the study of genetic diversity in Conilon coffee(Editora da Universidade Estadual de Maringá - EDUEM, 2020) Pontes, Daiana Salles; Rosado, Renato Domiciano Silva; Cruz, Cosme Damião; Nascimento, Moysés; Oliveira, Ana Maria Cruz; Pensky, Scott MichaelTrait selection is occasionally necessary to save money and time, as well as accelerate breeding program processes. This study aimed to propose two criteria to select traits based on a Procrustes analysis that are poorly explored in genetic breeding: Criterion 1 (backward algorithm) and Criterion 2 (exhaustive algorithm). Then, these two criteria were further compared with Jolliffe’s criterion, which has often been used to select traits in genetic diversity studies. Sixteen agronomic traits were considered, and 40 Conilon coffee (Coffea canephora) accessions were evaluated. This study showed that the flexibility in selecting traits by researcher preference, graphical visualization, and Procrustes statistic through criteria 1 and 2 is a fast and reliable alternative for decision-making. These decisions are based on the removal and addition of traits for phenotyping in studies of Conilon coffee diversity that can be applied to other crops. Other relevant aspects of selection traits criteria were also discussed.