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Feltes GL, Campos GS, Raidan FSS, Feres LFR, Ribeiro VMP, Cobuci JA. Comparing Bayesian models for the genetic evaluation of oocytes and embryo counts in Dairy Gir cattle. J Appl Genet 2024:10.1007/s13353-024-00862-3. [PMID: 38570427 DOI: 10.1007/s13353-024-00862-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2023] [Revised: 02/08/2024] [Accepted: 03/21/2024] [Indexed: 04/05/2024]
Abstract
Count traits are usually explored in livestock breeding programs, and they usually do not fit into normal distribution, requiring alternatives to adjust the phenotype to estimate accurate genetic parameters and breeding values. Alternatively, distribution such as Poisson can be used to evaluate count traits. This study aimed to compare and discuss the genetic evaluation for oocyte and embryo counts considering Gaussian (untransformed variable - LIN; transformed by logarithm - LOG; transformed by Anscombe - ANS) and Poisson (POI) distributions. The data comprised 11,343 total oocytes (TO), viable oocytes (VO), cleaved embryos (CE), and viable embryo (VE) records of ovum pick-up from 1740 Dairy Gir heifers and cows. The genetic parameters and breeding values were estimated by the MCMCglmm package of the R software. The posterior means of heritability varied from 0.40 (LIN) to 0.49 (POI) for TO, 0.39 (LIN) to 0.49 (POI) for VO, 0.30 (LOG) to 0.41 (POI) for cleaved embryos, and 0.19 (LIN) to 0.32 (POI) for viable embryos. The posterior means of repeatability varied from 0.56 (LIN) to 0.65 (POI) for TO, 0.53 (LOG) to 0.63 (POI) for VO, 0.44 (LOG) to 0.60 (POI) for CE, and 0.36 (LOG) to 0.56 (POI) for VE. Deviance information criterion and mean squared residuals indicated that POI model should be used for the genetic evaluation of embryo and oocyte count traits. Spearman's rank correlation between estimated breeding value (EBV) for embryo and oocyte count traits computed by POI, LOG, and ANS models was high (ranging from 0.77 to 0.99), indicating little reranking among the best animals. The POI model is the most adequate for genetic evaluation, resulting in more reliable EBV of oocyte and embryo count traits for Dairy Gir cattle.
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Affiliation(s)
- Giovani Luis Feltes
- Departamento de Zootecnia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, 7712 Agronomia, Porto Alegre, RS, CEP 91509-900, Brazil
| | - Gabriel Soares Campos
- Departamento de Zootecnia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, 7712 Agronomia, Porto Alegre, RS, CEP 91509-900, Brazil
| | | | | | | | - Jaime Araújo Cobuci
- Departamento de Zootecnia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, 7712 Agronomia, Porto Alegre, RS, CEP 91509-900, Brazil.
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Feltes GL, Negri R, Raidan FSS, Viana AFP, Feres LFR, Ribeiro VMP, Cobuci JA. Impact of heat stress on genetic evaluation of oocyte and embryo production in Gir dairy cattle. Trop Anim Health Prod 2023; 56:7. [PMID: 38063913 DOI: 10.1007/s11250-023-03850-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2023] [Accepted: 11/27/2023] [Indexed: 12/18/2023]
Abstract
Identifying and selecting genotypes tolerant to heat stress might improve reproductive traits in dairy cattle, including oocyte and embryo production. The temperature-humidity index (THI) was used, via random regression models, to investigate the impact of heat stress on genetic parameters and breeding values of oocyte and embryo production in Gir dairy cattle. We evaluated records of total oocytes (TO), viable oocytes (VO), cleaved embryos (CE), and viable embryos (VE) from dairy Gir donors. Twenty-four models were tested, considering age at ovum pick-up (AOPU) and THI means as a regressor in the genetic evaluation. We computed THI in eight periods, from 0 to 112 days before ovum pick-up, which were adjusted by different orders of Legendre polynomials (second, third, and fourth). The best-fit model according to Akaike's information criterion (AIC) and Model Posterior Probabilities (MPP) considered Legendre polynomials of third order and THI means of 112 days for TO, fourth order and 56 days for VO, second order and 28 days for CE, and second order and 42 days for VE, respectively. The heritability (h2) estimates across AOPU and THI scales ranged from 0.34 to 0.62 for TO, 0.31 to 0.58 for VO, 0.26 to 0.39 for CE, and 0.15 to 0.26 for VE, respectively. The fraction of the phenotypic variance explained by the permanent environment in different AOPU and THI scales ranged from 0.03 to 0.25 for TO, 0.05 to 0.26 for VO, 0.09 to 0.36 for CE, and 0.15 to 0.27 for VE, respectively. Spearman's rank correlation between the estimated breeding values in different AOPU and THI scale from the top 5% sires and females ranged from 0.18 to 0.90 for TO, 0.31 to 0.95 for VO, 0.14 to 0.85 for CE, and 0.47 to 0.94 for VE, respectively. The h2 estimates for all evaluated traits varied from moderate to high magnitude across AOPU and THI scales, indicating that genetic selection can result in rapid genetic progress for the evaluated traits. There was a reranking among the best animals in different AOPU and THI. It is possible to select dairy Gir cattle tolerant to heat stress to improve oocyte and embryo production.
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Affiliation(s)
- Giovani Luis Feltes
- Departamento de Zootecnia, Faculdade de Agronomia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, no 7.712, Porto Alegre, RS, CEP 91540-000, Brazil
| | - Renata Negri
- Associação Brasileira dos Criadores de Girolando, Uberaba, MG, Brasil
| | | | - Alexandra Fabielle Pereira Viana
- Departamento de Zootecnia, Faculdade de Agronomia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, no 7.712, Porto Alegre, RS, CEP 91540-000, Brazil
| | | | | | - Jaime Araújo Cobuci
- Departamento de Zootecnia, Faculdade de Agronomia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, no 7.712, Porto Alegre, RS, CEP 91540-000, Brazil.
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Huang Y, Zhang H, Mei C, Yang M, Zhao S, Zhu H, Wang Y. Phenotypic and Genetic Analyses of In Vitro Embryo Production Traits in Chinese Holstein Cattle. Animals (Basel) 2023; 13:3539. [PMID: 38003156 PMCID: PMC10668646 DOI: 10.3390/ani13223539] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2023] [Revised: 11/03/2023] [Accepted: 11/08/2023] [Indexed: 11/26/2023] Open
Abstract
Ovum pick up and in vitro embryo production (OPU-IVEP) is an essential technique in the dairy industry. The production efficiency of OPU-IVEP is significantly influenced by various factors, and phenotypic and genetic characteristics are highly variable in different populations. The objectives of this study were (1) to reveal the phenotypic characteristics, including population distribution, and impacts of donor age and month on in vitro embryo production and (2) to estimate genetic parameters for five in vitro embryo production traits in Chinese Holstein cattle. A total of 7311 OPU-IVEP records of 867 Holstein heifers from August 2021 to March 2023 were collected in this study. Five in vitro embryo production traits were defined, including the number of cumulus-oocyte complexes (NCOC), the number of cleaved embryos (NCLV), the number of grade I embryos (NGE), and the proportion of NCLV to NCOC (PCLV) and NGE to NCOC (PGE). A univariate repeatability animal model was employed to estimate heritability and repeatability, and a bivariate repeatability animal model was employed to estimate the genetic correlations among five in vitro embryo production traits. It was found that the in vitro embryo production traits were significantly influenced by season, as the NGE and PGE were significantly decreased from June to August. In addition, the production efficiency of OPU-IVEP was also influenced by donor age. On the observed scale, the estimates of heritability were 0.33 for NCOC, 0.24 for NCLV, 0.16 for NGE, 0.06 for PCLV, and 0.10 for PGE, respectively. On the log-transformed scale, the estimates of heritability of NCOC, NCLV, and NGE were 0.34, 0.18, and 0.13. The genetic correlations among NCOC, NCLV, and NGE ranged from 0.61 (NCLV and NGE) to 0.95 (NCOC and NCLV), considering both scales. However, there were low genetic correlations between NCOC and proportion traits (PCLV and PGE) on both the observed scale and the log-transformed scale. In the end, the variation in Chinese Holstein cattle was found to be considerable. The EBV value and average NCOC, NGE, and PGE for the top 10% donors presented extreme differences to those for the bottom 10% donors for NCOC (24.02 versus 2.60), NGE (3.42 versus 0.36), and PGE (30.54% versus 3.46%). Overall, the results of this study reveal that in vitro embryo production traits are heritable with low to high heritability, and the count traits (NCOC, NCLV, and NGE) and proportion traits (PCLV and PGE) reflect different aspects of in vitro embryo production and should be incorporated into genetic selection for improving the embryo production efficiency of dairy cattle.
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Affiliation(s)
- Yuechuan Huang
- State Key Laboratory of Farm Animal Biotech Breeding, National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproductive of Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China; (Y.H.); (H.Z.)
- College of Animal Science and Technology, Xinjiang Agricultural University, Urumqi 830052, China
| | - Hailiang Zhang
- State Key Laboratory of Farm Animal Biotech Breeding, National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproductive of Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China; (Y.H.); (H.Z.)
| | - Cheng Mei
- Dongying Auatasia Modern Animal Husbandry Co., Ltd., Dongying 257300, China; (C.M.); (M.Y.)
| | - Minglu Yang
- Dongying Auatasia Modern Animal Husbandry Co., Ltd., Dongying 257300, China; (C.M.); (M.Y.)
| | - Shanjiang Zhao
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China;
| | - Huabin Zhu
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China;
| | - Yachun Wang
- State Key Laboratory of Farm Animal Biotech Breeding, National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproductive of Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China; (Y.H.); (H.Z.)
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Bayesian estimation of genetic parameters for superovulatory response traits in Japanese Black donor cows using count data models. Theriogenology 2022; 190:38-45. [DOI: 10.1016/j.theriogenology.2022.07.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2022] [Revised: 07/08/2022] [Accepted: 07/09/2022] [Indexed: 11/20/2022]
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Oliveira TVVB, Silva HT, Filho IC, Ramos PVB, Santana TEZ, Guimarães JD, Guimarães SEF, Lopes PS, Fonseca e Silva F, Veroneze R. Alternative bayesian models for genetic evaluation of biometrical, physical, and morphological reproductive traits in nelore bulls. Livest Sci 2021. [DOI: 10.1016/j.livsci.2020.104313] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Vizoná RG, da Costa Perez B, Campolina Diniz Peixoto MG, Viana JHM, Ventura RV, Vercesi Filho AE, de Carvalho Balieiro JC. Genetic analysis of in-vitro embryo production traits in Dairy Gir cattle. Theriogenology 2020; 148:149-161. [PMID: 32182523 DOI: 10.1016/j.theriogenology.2020.02.014] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2019] [Revised: 02/06/2020] [Accepted: 02/08/2020] [Indexed: 11/26/2022]
Abstract
The potential of dams as oocyte donors can be a selection criterion for animal breeding programs, but also an involuntary driver of the process. In both cases, it is important to determine genetic components influencing the outcome of in vitro embryo production (IVEP). The objective of the present study was to perform a detailed genetic analysis for in vitro embryo production traits in Dairy Gir cows. A dataset containing 11,450 records of ovum pick-up (OPU) and in vitro fertilization (IVF) procedures from 2684 Dairy Gir donors was evaluated. Analyzed traits were number (NOV) and percentage (POV) of viable oocytes; number (NGI) and percentage (PGI) of grade I oocytes; number (NEMB) and percentage (PEMB) of viable embryos. All analyzes were performed using animal models by a Bayesian framework. Heritability estimates varied from 0.16 to 0.32 for count traits and from 0.01 to 0.06 for percentage traits. The proportion of the total variation represented by the additive genetic effect of sire (semen used in IVF) for NEMB and PEMB was 7% and 5% respectively. Associations between estimated breeding values from progeny tested bulls for IVEP traits, milk production, age at first calving and conformation traits were mainly low or close to zero. Results indicate that selection for IVEP traits is possible in Dairy Gir cattle and would not impair genetic progress for traits already considered as selection criteria. The NOV seems to be a promising target trait. However, a selection index could help to avoid the use of sires with negative genetic merit for percentage traits, minimizing possible deterioration in the long term.
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Affiliation(s)
- Rafael Guimarães Vizoná
- Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, Pirassununga, SP, Brazil.
| | - Bruno da Costa Perez
- Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, Pirassununga, SP, Brazil
| | | | | | - Ricardo Vieira Ventura
- Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, Pirassununga, SP, Brazil
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