Genome-enabled prediction of indicator traits of resistance to gastrointestinal nematodes in sheep using parametric models and artificial neural networks.

Autor: Freitas LA; University of Sao Paulo, Department of Genetics, Ribeirão Preto, São Paulo 14049-900, Brazil; University of Wisconsin, Department of Animal and Dairy Sciences, Madison 53706, USA. Electronic address: luaraa.freitas@gmail.com., Savegnago RP; Michigan State University, Department of Animal Science, MI 48864, USA. Electronic address: rodrigopsa@yahoo.com.br., Alves AAC; University of Wisconsin, Department of Animal and Dairy Sciences, Madison 53706, USA. Electronic address: carvalhoalve@wisc.edu., Stafuzza NB; Sustainable Livestock Research Center, Animal Science Institute, São José do Rio Preto, São Paulo 15130-000, Brazil., Pedrosa VB; State University of Ponta Grossa, Ponta Grossa, Paraná 84030-900, Brazil. Electronic address: vbpedrosa@uepg.br., Rocha RA; State University of Ponta Grossa, Ponta Grossa, Paraná 84030-900, Brazil. Electronic address: raroliveira@uepg.br., Rosa GJM; University of Wisconsin, Department of Animal and Dairy Sciences, Madison 53706, USA. Electronic address: grosa@wisc.edu., Paz CCP; University of Sao Paulo, Department of Genetics, Ribeirão Preto, São Paulo 14049-900, Brazil; Sustainable Livestock Research Center, Animal Science Institute, São José do Rio Preto, São Paulo 15130-000, Brazil. Electronic address: claudiacristinaparopaz@gmail.com.
Jazyk: angličtina
Zdroj: Research in veterinary science [Res Vet Sci] 2024 Jan; Vol. 166, pp. 105099. Date of Electronic Publication: 2023 Nov 30.
DOI: 10.1016/j.rvsc.2023.105099
Abstrakt: This study aimed to assess the predictive ability of parametric models and artificial neural network method for genomic prediction of the following indicator traits of resistance to gastrointestinal nematodes in Santa Inês sheep: packed cell volume (PCV), fecal egg count (FEC), and Famacha© method (FAM). After quality control, the number of genotyped animals was 551 (PCV), 548 (FEC), and 565 (FAM), and 41,676 SNP. The average prediction accuracy (ACC) calculated by Pearson correlation between observed and predicted values and mean squared errors (MSE) were obtained using genomic best unbiased linear predictor (GBLUP), BayesA, BayesB, Bayesian least absolute shrinkage and selection operator (BLASSO), and Bayesian regularized artificial neural network (three and four hidden neurons, BRANN_3 and BRANN_4, respectively) in a 5-fold cross-validation technique. The average ACC varied from moderate to high according to the trait and models, ranging between 0.418 and 0.546 (PCV), between 0.646 and 0.793 (FEC), and between 0.414 and 0.519 (FAM). Parametric models presented nearly the same ACC and MSE for the studied traits and provided better accuracies than BRANN. The GBLUP, BayesA, BayesB and BLASSO models provided better accuracies than the BRANN_3 method, increasing by around 23% for PCV, and 18.5% for FEC. In conclusion, parametric models are suitable for genome-enabled prediction of indicator traits of resistance to gastrointestinal nematodes in sheep. Due to the small differences in accuracy found between them, the use of the GBLUP model is recommended due to its lower computational costs.
Competing Interests: Declaration of Competing Interest The authors Luara A. Freitas, Rodrigo P. Savegnago, Anderson A. C. Alves, Nedenia B. Stafuzza, Victor B. Pedrosa, Raquel A. Rocha, Guilherme J. M. Rosa, and Claudia C. P. Paz declare that we don't have any potential conflict of interest including any financial, personal or other relationships with other people or organizations within three years of beginning the work submitted that could inappropriately influence the present work.
(Copyright © 2023 Elsevier Ltd. All rights reserved.)
Databáze: MEDLINE
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