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de Oliveira Bussiman F, Carvalho RSB, E Silva FF, Ventura RV, Ferraz JBS, Mattos EC, Eler JP, Balieiro JCDC. Reduced rank analysis of morphometric and functional traits in Campolina horses. J Anim Breed Genet 2021; 139:231-246. [PMID: 34841593 DOI: 10.1111/jbg.12658] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2021] [Revised: 10/21/2021] [Accepted: 11/13/2021] [Indexed: 11/28/2022]
Abstract
Multitrait models can increase the accuracy of breeding value prediction and reduce bias due to selection by using traits measured before and after it has occurred. However, as the number of traits grows, a similar trend is expected for the number of parameters to be estimated, which directly affects the computing power and the amount of data required. The aim of the present study was to apply reduced rank (principal components model-PCM) and factor analytical models (FAM), to estimate (co)variance components for nineteen traits, jointly evaluated in a single analysis in Campolina horses. A total of 18 morphometric traits (MT) and one gait visual score (GtS), along with genealogical records of 48,806 horses, were analysed under a restricted maximum likelihood framework. Nine PCM, nine FAM and one standard multitrait model (MTM) were fitted to the data and compared to find the best suitable model. Based on Bayesian information criterion, the best model was the FAM option, considering five common factors (FAM5). After performing an intraclass analysis, none of MT were genetically negatively correlated, whereas GtS was negatively related to all MT, except for the genetic correlations among GtS and BLL, and between GtS and BLLBL (0.01 and 0.10 respectively). From all MT, two traits were derived computing ratios involving other traits, those had negative correlations with others MT, but all favourable for selection. Similar patterns were observed between the genetic parameters obtained from MTM and FAM5 respectively. The heritability estimates ranged from 0.09 (head width) to 0.47 (height at withers). Our results indicated that FAM was efficient to reduce the multitrait analysis dimensionality, and therefore, traits can be combined based on the first three eigenvectors from the additive genetic (co)variance matrix. In addition, there was sufficient genetic variation for selection, benefiting its potential implementation in a breeding program.
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Affiliation(s)
- Fernando de Oliveira Bussiman
- Bioinformatic and Animal Breeding Lab., Department of Animal Nutrition and Production, College of Veterinary Medicine and Animal Science, University of São Paulo (BIOMA-VNP/FMVZ-USP), Pirassununga, Brazil
| | - Rachel Santos Bueno Carvalho
- Department of Basic Sciences, College of Animal Science and Food Engineering, University of São Paulo (ZAB/FZEA-USP), Pirassununga, Brazil
| | | | - Ricardo Vieira Ventura
- Bioinformatic and Animal Breeding Lab., Department of Animal Nutrition and Production, College of Veterinary Medicine and Animal Science, University of São Paulo (BIOMA-VNP/FMVZ-USP), Pirassununga, Brazil
| | - José Bento Sterman Ferraz
- Group of Animal Breeding and Biotechnology, Department of Veterinary Medicine, College of Animal Science and Food Engineering, University of São Paulo (GMAB-ZMV/FZEA-USP), Pirassununga, Brazil
| | - Elisângela Chicaroni Mattos
- Group of Animal Breeding and Biotechnology, Department of Veterinary Medicine, College of Animal Science and Food Engineering, University of São Paulo (GMAB-ZMV/FZEA-USP), Pirassununga, Brazil
| | - Joanir Pereira Eler
- Group of Animal Breeding and Biotechnology, Department of Veterinary Medicine, College of Animal Science and Food Engineering, University of São Paulo (GMAB-ZMV/FZEA-USP), Pirassununga, Brazil
| | - Júlio Cesar de Carvalho Balieiro
- Bioinformatic and Animal Breeding Lab., Department of Animal Nutrition and Production, College of Veterinary Medicine and Animal Science, University of São Paulo (BIOMA-VNP/FMVZ-USP), Pirassununga, Brazil
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