Skip to main content Accessibility help
×
Home

Count Bayesian models for genetic analysis of in vitro embryo production traits in Guzerá cattle

  • B. C. Perez (a1), F. F Silva (a2), R. V. Ventura (a3) (a4), F. A. T Bruneli (a5), J. C. C. Balieiro (a6) and M. G. D. C. Peixoto (a5)...

Abstract

Four models for in vitro embryo production traits in Guzerá cattle were compared: Gaussian (untransformed variable – LIN and transformed in logarithmic scale – LOG), Poisson (POI) and zero-inflated Poisson (ZIP). Data consisted of 5716 ovum pick-up and in vitro fertilization records performed in 1205 cows from distinct regions of Brazil. Analyzed count traits were the number of viable oocytes (NOV), number of grade I oocytes (NGI), number of degenerated oocytes (NDG), number of cleaved embryos (NCLV) and number of viable produced embryos (NEMB). Heritability varied from 0.17 (LIN) to 0.25 (POI) for NOV; 0.08 (LOG) to 0.18 (ZIP) for NGI; 0.12 (LIN) to 0.20 (POI) for NDG; 0.13 (LIN) to 0.19 (POI) for NCLV; 0.10 (LIN) to 0.20 (POI) for NEMB depending on the considered model. The estimated repeatability varied from 0.53 (LOG) to 0.63 (POI) for NOV; 0.22 (LOG) to 0.39 (ZIP) for NGI; 0.29 (LIN) to 0.42 (ZIP) for NDG; 0.42 (LIN) to 0.59 (POI) for NCLV; 0.36 (LIN) to 0.51 (POI) for NEMB. The goodness of fit, measured by deviance information criterion and mean squared residuals, suggested superiority of POI and ZIP over Gaussian models. Estimated breeding values (EBV) obtained by different models were highly correlated, varying from 0.92 for NOV (between LIN-POI) and 0.99 for NGI (between POI-ZIP). The number of coincident animals on the 10% top EBV showed lower similarities. We recommend POI and ZIP models as the most adequate for genetic analysis of in vitro embryo production traits in Guzerá cattle.

Copyright

Corresponding author

E-mail: brunocpvet@gmail.com

References

Hide All
Abdolahi-Arpanahi, R, Peñagaricano, F, Aliloo, H, Ghiasi, H and Urioste, JI 2013. Comparison of Poisson, probit and linear models for genetic analysis of number of inseminations to conception and success at first insemination in Iranian Holstein cows. Livestock Science 153, 2026.
Ayres, DR, Pereira, RJ, Boligon, AA, Silva, FF, Schenkel, FS, Roso, VM and Albuquerque, LG 2013. Linear and Poisson models for genetic evaluation of tick resistance in cross-bred Hereford×Nellore cattle. Journal of Animal Breeding and Genetics 130, 417424.
Bols, PEJ, Goovaerts, IGF, Jorssen, EPA, Petro, EML, Langbeen, A and Leroy, JLMR 2012. New applications for bovine IVP technology: from ‘single oocyte culture’ to toxicity screening. Animal Reproduction 9, 388394.
Geweke, J 1992. Evaluating the accuracy of sampling-based approaches to the calculation of posterior moments. In Bayesian statistics 4 (ed. JM Bernardo, JO Berger, AP Dawid and AFM Smith), pp. 625631. Clarendon, Oxford.
Gianola, D and Rosa, GJM 2015. One hundred years of statistical developments in animal breeding. Annual Revenue of Animal Biosciences 3, 1956.
Hadfield, JD and Nakagawa, S 2010. General quantitative genetic methods for comparative biology: phylogenies, taxonomies and multi-trait models for continuous and categorical characters. Journal of Evolutionary Biology 23, 494508.
Heidelberger, P and Welch, PD 1983. Simulation run length control in the presence of an initial transient. Operations Research Landing 31, 11091144.
Jaton, C, Koeck, A, Sargolzaei, M, Malchiodi, F, Price, CA, Schenkel, FS and Miglior, F 2016. Genetic analysis of superovulatory response of Holstein cows in Canada. Journal of Dairy Science 99, 36123623.
König, S, Bosselmann, F, Von Borstel, U and Simianer, H 2007. Genetic analyses of traits affecting the success of embryo transfer in dairy cattle. Journal of Dairy Science 90, 39453954.
Lonergan, P 1992. Studies in the in vitro maturation, fertilization and cultivation of bovine follicular oocytes. Doctoral thesis, National University of Ireland.
Merton, JS, Ask, B, Oonkundi, DC, Mullaart, E, Collenbrander, B and Nielen, M 2009. Genetic parameters for oocyte number and embryo production within a bovine ovum pick-up-in vitro production embryo-production program. Theriogenology 72, 885893.
Naya, H, Urioste, JI, Chang, Y, Rodrigues-Motta, M, Kremer, R and Gianola, DA 2008. Comparison between Poison and zero-inflated Poisson regression models with application number of black spots in Corriedale sheep. Genetic Selection Evolution 40, 379394.
Peixoto, MG, Pereira, CS, Bergmann, JA, Penna, VM and Fonseca, CG 2004. Genetic parameters of multiple ovulation traits in Nellore females. Theriogenology 62, 14591464.
Peñagaricano, F, Urioste, JI, Naya, H, De Los Campos, G and Gianola, D 2010. Assessment of Poisson, probit and linear models for genetic analysis of presence and number of black spots in Corriedale sheep. Journal of Animal Breeding and Genetics 128, 105113.
Perez, BC, Peixoto, MGCD, Bruneli, FT, Ramos, PVB and Balieiro, JCC 2016. Genetic analysis of oocyte and embryo production traits in Guzerá breed donors and their associations with age at first calving. Genetics and Molecular Research 15, gmr.15027583.
Pérez-Cabal, MA, De Los Campos, G, Vazquez, AI, Gianola, D, Rosa, GJ, Weigel, KA and Alenda, R 2009. Genetic evaluation of susceptibility to clinical mastitis in Spanish Holstein cows. Journal of Dairy Science 92, 34723480.
Plummer, M, Best, N, Cowles, K and Vines, K 2006. CODA: convergence diagnosis and output analysis for MCMC. R News 6, 711.
Raftery, AE and Lewis, LM 1992. Comment: one long run with diagnostics: implementation strategies for Markov Chain Monte Carlo. Statistical Science 7, 493497.
Seneda, MM, Esper, CR, Garcia, JM, Oliveira, JA and Vantini, R 2001. Relationship between follicle size and ultrasound-guided transvaginal oocyte recovery. Animal Reproduction Science 67, 3743.
Spiegelhalter, DJ, Best, NG, Carlin, BP and van der Linde, A 2002. Bayesian measures of model complexity and fit (with discussion). Journal of the Royal Statistical Society, Series B 64, 583639.
R Development Core Team 2016. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. Retrieved on 2nd of April 2016 from http://www.R-project.org.
Rodrigues, CFM 2015. Historical context of cattle embryo transfer technique in Brazil. Animal Reproduction 11, 137140.
Rodrigues-Motta, M, Gianola, D and Heringstad, B 2010. A mixed effects model for overdispersed zero inflated Poisson data with an application in animal breeding. Journal of Data Science 8, 379396.
Rodrigues-Motta, M, Gianola, D, Heringstad, B, Rosa, GJM and Chang, YM 2007. A zero-inflated Poisson model for genetic analysis of the number of mastitis cases in Norwegian red cows. Journal of Dairy Science 90, 53065315.
Tonhati, H, Lôbo, RB and Oliveira, HN 1999. Repeatability and heritability of response to superovulation in Holstein cows. Theriogenology 51, 11511156.
Varona, L and Sørensen, D 2010. A genetic analysis of mortality in pigs. Genetics 184, 277284.
Vazquez, AI, Pérez-Cabal, MA, Heringstad, B, Rodrigues-Motta, M, Rosa, GJ, Gianola, D and Weigel, KA 2012. Predictive ability of alternative models for genetic analysis of clinical mastitis. Journal of Animal Breeding and Genetics 129, 120128.
Vazquez, AI, Gianola, D, Bates, D, Weigel, KA and Heringstad, B 2009a. Assessment of Poisson, logit, and linear models for genetic analysis of clinical mastitis in Norwegian red cows. Journal of Dairy Science 92, 739748.
Vazquez, AI, Weigel, KA, Gianola, D, Bates, DM, Perez-Cabal, MA, Rosa, GJ and Chang, YM 2009b. Poisson versus threshold models for genetic analysis of clinical mastitis in US Holsteins. Journal of Dairy Science 92, 52395247.
Ventura, HT, Silva, FF, Varona, L, Figueiredo, EAP, Costa, EV, Silva, LP, Ventura, RV and Lopes, PS 2015. Comparing multi-trait Poisson and Gaussian Bayesian models for genetic evaluation of litter traits in pigs. Livestock Science 176, 4753.
Viana, JHM, Siqueira, LGB, Palhao, MP and Camargo, LSA 2012. Features and perspectives of the Brazilian in vitro embryo industry. Animal Reproduction 9, 1218.

Keywords

Type Description Title
PDF
Supplementary materials

Perez supplementary material
Perez supplementary material 1

 PDF (196 KB)
196 KB

Count Bayesian models for genetic analysis of in vitro embryo production traits in Guzerá cattle

  • B. C. Perez (a1), F. F Silva (a2), R. V. Ventura (a3) (a4), F. A. T Bruneli (a5), J. C. C. Balieiro (a6) and M. G. D. C. Peixoto (a5)...

Metrics

Altmetric attention score

Full text views

Total number of HTML views: 0
Total number of PDF views: 0 *
Loading metrics...

Abstract views

Total abstract views: 0 *
Loading metrics...

* Views captured on Cambridge Core between <date>. This data will be updated every 24 hours.

Usage data cannot currently be displayed