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| Fortes,Marina Rufino Salinas; Enculescu,Charmaine; Porto Neto,Laercio R.; Lehnert,Sigrid A.; McCulloch,Russell; Hayes,Ben. |
| ABSTRACT In this study, we aimed to provide a wet laboratory validation for a set of single nucleotide polymorphisms (SNP), which had been identified as candidate functional variants in silico. Genotyping for candidate SNP was performed in Brahman and Tropical Composite cattle. After quality control, 29 SNP were first investigated individually for their association with female reproductive traits and then used as a panel for genomic predictions. The reproductive traits studied were age at first corpus luteum (AGECL; days), post-partum anoestrus interval (PPAI; days), and a binary trait that described if the cow had ovulated before weaning the first calf or not (PW, 0-1). Single nucleotide polymorphisms in six genes (FOXA2, TRAF4, IRF2, IRF1, BPTF, and... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Anoestrus; BayesR; Candidate genes; Genomic prediction; Heifer puberty. |
| Ano: 2018 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-35982018000100412 |
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| Suela,Matheus Massariol; Lima,Leísa Pires; Azevedo,Camila Ferreira; Resende,Marcos Deon Vilela de; Nascimento,Moysés; Silva,Fabyano Fonseca e. |
| ABSTRACT: Rice cultivation has great national and global importance, being one of the most produced and consumed cereals in the world and the primary food for more than half of the world’s population. Because of its importance as food, developing efficient methods to select and predict genetically superior individuals in reference to plant traits is of extreme importance for breeding programs. The objective of this research was to evaluate and compare the efficiency of the Delta-p, G-BLUP (Genomic Best Linear Unbiased Predictor), BayesCpi, BLASSO (Bayesian Least Absolute Shrinkage and Selection Operator), Delta-p/G-BLUP index, Delta-p/BayesCpi index, and Delta-p/BLASSO index in the estimation of genomic values and the effects of single nucleotide... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Genomic prediction; Selection index; Genetic gain. |
| Ano: 2019 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0103-84782019000600404 |
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| Hanna,Lauren L. Hulsman; Garrick,Dorian J.; Gill,Clare A.; Herring,Andy D.; Sanders,James O.; Riley,David G.. |
| The objectives of this study were to 1) compare four models for breeding value prediction using genomic or pedigree information and 2) evaluate the impact of fixed effects that account for family structure. Comparisons were made in a Nellore-Angus population comprising F2, F3 and half-siblings to embryo transfer F2 calves with records for overall temperament at weaning (TEMP; n = 769) and Warner-Bratzler shear force (WBSF; n = 387). After quality control, there were 34,913 whole genome SNP markers remaining. Bayesian methods employed were BayesB ( π = 0.995 or 0.997 for WBSF or TEMP, respectively) and BayesC (π = 0 and π), where π is the ideal proportion of markers not included. Direct genomic values (DGV) from single trait Bayesian analyses were compared... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Bayesian inference; Crossbred cattle; Genomic prediction; Model comparison. |
| Ano: 2014 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572014000500005 |
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| Lima,Leísa Pires; Azevedo,Camila Ferreira; Resende,Marcos Deon Vilela de; Silva,Fabyano Fonseca e; Suela,Matheus Massariol; Nascimento,Moysés; Viana,José Marcelo Soriano. |
| ABSTRACT: Genome-wide selection (GWS) is based on a large number of markers widely distributed throughout the genome. Genome-wide selection provides for the estimation of the effect of each molecular marker on the phenotype, thereby allowing for the capture of all genes affecting the quantitative traits of interest. The main statistical tools applied to GWS are based on random regression or dimensionality reduction methods. In this study a new non-parametric method, called Delta-p was proposed, which was then compared to the Genomic Best Linear Unbiased Predictor (G-BLUP) method. Furthermore, a new selection index combining the genetic values obtained by the G-BLUP and Delta-p, named Delta-p/G-BLUP methods, was proposed. The efficiency of the proposed... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Genomic prediction; Selection index; Genetic gain; Asian rice. |
| Ano: 2019 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0103-90162019001400290 |
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| Silveira,Fernanda Gomes da; Duarte,Darlene Ana Souza; Chaves,Lucas Monteiro; Silva,Fabyano Fonseca e; Filho,Ivan Carvalho; Duarte,Marcio de Souza; Lopes,Paulo Sávio; Guimarães,Simone Eliza Facioni. |
| ABSTRACT: The main application of genomic selection (GS) is the early identification of genetically superior animals for traits difficult-to-measure or lately evaluated, such as meat pH (measured after slaughter). Because the number of markers in GS is generally larger than the number of genotyped animals and these markers are highly correlated owing to linkage disequilibrium, statistical methods based on dimensionality reduction have been proposed. Among them, the partial least squares (PLS) technique stands out, because of its simplicity and high predictive accuracy. However, choosing the optimal number of components remains a relevant issue for PLS applications. Thus, we applied PLS (and principal component and traditional multiple regression)... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: SNP; Genomic prediction; Meat quality. |
| Ano: 2017 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0103-84782017000100652 |
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| Lima,Leísa Pires; Azevedo,Camila Ferreira; Resende,Marcos Deon Vilela de; Silva,Fabyano Fonseca e; Viana,José Marcelo Soriano; Oliveira,Eder Jorge de. |
| ABSTRACT: Genome-wide selection (GWS) is currently a technique of great importance in plant breeding, since it improves efficiency of genetic evaluations by increasing genetic gains. The process is based on genomic estimated breeding values (GEBVs) obtained through phenotypic and dense marker genomic information. In this context, GEBVs of N individuals are calculated through appropriate models, which estimate the effect of each marker on phenotypes, allowing the early identification of genetically superior individuals. However, GWS leads to statistical challenges, due to high dimensionality and multicollinearity problems. These challenges require the use of statistical methods to approach the regularization of the estimation process. Therefore, we aimed to... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: G-BLUP; BLASSO; Genomic prediction; Genomic heritability. |
| Ano: 2019 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0103-90162019001500368 |
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