Hostname: page-component-78c5997874-mlc7c Total loading time: 0 Render date: 2024-11-08T15:33:23.508Z Has data issue: false hasContentIssue false
  • English
  • Français

Pedigree analysis and inbreeding effects over morphological traits in Campolina horse population

Published online by Cambridge University Press:  22 February 2018

F. O. Bussiman ,
B. C. Perez ,
R. V. Ventura ,
M. G. C. D. Peixoto ,
R. A. Curi  and
J. C. C. Balieiro
F. O. Bussiman*
Affiliation:
Department of Animal Science, College of Animal Science and Food Engineering, University of São Paulo (FZEA/USP), Av. Duque de Caxias Norte, 225, Campus Fernando Costa, Pirassununga, São Paulo, 13.635-900, Brazil
B. C. Perez
Affiliation:
Department of Animal Science, College of Animal Science and Food Engineering, University of São Paulo (FZEA/USP), Av. Duque de Caxias Norte, 225, Campus Fernando Costa, Pirassununga, São Paulo, 13.635-900, Brazil
R. V. Ventura
Affiliation:
Department of Animal Science, College of Animal Science and Food Engineering, University of São Paulo (FZEA/USP), Av. Duque de Caxias Norte, 225, Campus Fernando Costa, Pirassununga, São Paulo, 13.635-900, Brazil Beef Improvement Opportunities (BIO - AgSights), 294 East Mill Street, Suite 209, Elora, ON, Canada N0B 1S0 Department of Animal and Poultry Science, University of Guelph, 50 Stone Road East, Guelph, ON, Canada N1G 2W1
M. G. C. D. Peixoto
Affiliation:
National Centre of Research on Dairy Cattle, Brazilian Agricultural Research Corporation (CNPGL/EMBRAPA), Rua Eugênio do Nascimento, 610, Dom Bosco, Juiz de Fora, Minas Gerais, 36.038-330, Brazil
R. A. Curi
Affiliation:
Department of Animal Improvement and Nutrition, College of Veterinary Medicine and Animal Science, São Paulo State University (FMVZ/UNESP), Rua José Barbosa de Barros, 1780, Fazenda Experimental Lageado, 18.618-307, Botucatu, São Paulo, Brazil
J. C. C. Balieiro
Affiliation:
Department of Animal Nutrition and Production, College of Veterinary Medicine and Animal Science, University of São Paulo (FMVZ/USP), Av. Duque de Caxias Norte, 225, Campus Pirassununga, Pirassununga, São Paulo, 13.635-900, Brazil
*
†E-mail: [email protected]
Get access

Abstract

Genetic improvement, without control of inbreeding, can go to loss of genetic variability, reducing the potential for genetic gains in the domestic populations. The aim of this study was to analyze the population structure and the inbreeding depression in Campolina horses. Phenotype information from 43 465 individuals was analyzed, data provided by the Campolina Breeders Association. A pedigree file containing 107 951 horses was used to connected the phenotyped individuals. The inbreeding coefficient was performed by use of the diagonal of the relationship matrix and the genealogical parameters were computed using proper softwares. The effective population size was estimated based on the rate of inbreeding and census information, and the stratification of the population was verified by the average relationship coefficient between animals born in different regions of Brazil. The effects of inbreeding on morphological traits were made by the use of inbreeding coefficient as a covariate in the model of random regression. The inbreeding coefficient increased from 1990 on, impacting effective population size and, consequently, shrinking genetic variability. The paternal inbreeding was greater than maternal, which may be attributed to the preference for inbred animals in reproduction. The average genetic relationship coefficient of animals born in different states was lower than individuals born within the same state. The increase in the inbreeding coefficient was negatively associated with all studied traits, showing the importance to avoid genetic losses in the long term. Although results do not indicate a severe narrowing of the population until the present date, the average relationship coefficient shows signs of increase, which could cause a drastic reduction in genetic variability if inbred mating is not successfully controlled in the Campolina horse population.

Keywords

population structurecoancestryeffective population sizeinbreeding depressiongaited horse
Type
Research Article
Information
animal , Volume 12 , Issue 11 , November 2018 , pp. 2246 - 2255
Copyright
© The Animal Consortium 2018 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Bergmann, JAG, Costa, MD, Mourão, GB and Houri Neto, M 1997. Formation and breeding structure of the Brasileira pony breed. Arquivo Brasileiro de Medicina Veterinária e Zootecnia 49, 251–259.Google Scholar
Boichard, D 2002. Pedig: a Fortran package for pedigree analysis suited for large populations. In Proceedings of 7th World Congress on Genetics Applied Livestock Production, 19–23 August, Montpellier, France, pp. 775–756.Google Scholar
Boichard, D, Maignel, L and Verrier, É 1997. The value of using probabilities of gene origin to measure genetic variability in a population. Genetics Selection Evolution 29, 5–23.Google Scholar
Caballero, A and Toro, MA 2000. Interrelations between effective population size and other pedigree tools for the management of conserved populations. Genetics Research 75, 331–343.Google Scholar
Cervantes, L, Goyache, F, Molina, A, Valera, M and Gutiérrez, JP 2010. Estimation of effective population size from the rate of coancestry in pedigree populations. Journal of Animal Breeding and Genetics 128, 56–63.Google Scholar
Collins, CW, Songsasen, NS, Vick, MM, Wolfe, BA, Weiss, RB, Keefer, CL and Monfort, SL 2012. Abnormal reproductive patterns in Przewalski’s mares are associated with a loss in gene diversity. Molecular Biology Reports 86, 1–10.Google Scholar
Druml, T, Baumung, R and Sölkner, J 2009. Pedigree analysis in the Austrian Noriker draught horse: genetic diversity and the impact of breeding for coat colour on population structure. Journal of Animal Breeding and Genetics 126, 348–356.Google Scholar
Duru, S 2017. Pedigree analysis of the Turkish Arab horse population: structure, inbreeding and genetic variability. Animal 11, 1449–1456.Google Scholar
Falconer, DS and Mackay, TFC 1996. Introduction to quantitative genetics, 4th edition. Longman Group Ltd, Edinburgh, UK.Google Scholar
Frankham, R, Ballou, JD and Briscoe, DA 2010. Introduction to conservation genetics, 2th edition. Cambridge University Press, Cambridge, England.Google Scholar
Gandini, GC, Bagnato, A and Miglior, F 1992. Inbreeding in the Italian Haflinger horse. Journal of Heredity 109, 433–443.Google Scholar
Geweke, J 1992. Evaluating the accuracy of sampling-based approaches to the calculation of posterior moments. In Bayesian statistics 4: proceedings of the fourth Valencia international meeting (ed. JM Bernardo, JO Berger, AP Dawid and AFM Smith), pp. 169–193. Clarendon Press, Oxford, UK.Google Scholar
Gómez, MD, Valera, M, Molina, A, Gutiérrez, JP and Goyache, F 2009. Assessment of inbreeding depression for body measurements in Spanish Purebred (Andalusian) horses. Livestock Science 122, 149–155.Google Scholar
Gonçalves, RW, Costa, MD, Rezende, ASC, Rocha Júnior, VR and Leite, JRA 2012. Effect of inbreeding on morphometric traits in Mangalarga Marchador horses. Arquivo Brasileiro de Medicina Veterinária e Zootecnia 2, 419–426.Google Scholar
Hasler, H, Flury, C, Menet, S, Haase, B, Leeb, T, Simianer, H, Poncet, PA and Rieder, S 2011. Genetic diversity in an indigenous horse breed – implications for mating strategies and the control of future inbreeding. Journal of Animal Breeding and Genetics 128, 394–406.Google Scholar
Jönsson, l, Näsholm, A, Roepstorff, L, Egenvall, A, Dalin, G and Philipsson, J 2014. Conformation traits and their genetic and phenotypic associations with health status in young Swedish warmblood riding horses. Livestock Science 163, 12–25.Google Scholar
Lacy, RC 1989. Analysis of founder representation in pedigrees: founder equivalents and founder genome equivalents. Zoo Biology 8, 111–123.Google Scholar
Maignel, L, Boichard, D and Verrier, É 1996. Genetic variability of French dairy breeds estimated from pedigree information. Interbull Bulletin 14, 49–54.Google Scholar
Misztal, I, Tsuruta, S, Strabel, T, Auvray, B, Druet, T and Lee, DH 2002. BLUPF90 and related programs (BGF90). In Proceedings of 7th World Congress on Genetics Applied Livestock Production, 19–23 August, Montpellier, France, pp. 743–744.Google Scholar
Plummer, M, Best, N, Cowles, K and Vines, K 2006. CODA: Convergence Diagnosis and Output Analysis for MCMC, R News, v. 6, pp. 7–11.Google Scholar
Procópio, AM, Bergmann, JAG and Costa, MD 2003. Formation and demographic structure of the Campolina horse breed. Arquivo Brasileiro de Medicina Veterinária e Zootecnia 55, 361–365.Google Scholar
R Development Core Team 2016. R A language and environment for statistical computing. R–Foundation for Statistical Computing, Vienna, Austria. Retrieved on 6 February 2016 from http://www.r-project.org/ Google Scholar
Rezende, ASC and Moura, RS 2004. Raças de equídeos no Brasil. Escola de Veterinária, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil.Google Scholar
Roos, L, Hinrichs, D, Nissen, T and Krieter, J 2015. Investigation into genetic variability in Holstein horse breed using pedigree data. Livestock Science 177, 25–35.Google Scholar
Santana, JRML and Bignardi, AB 2015. Status of the genetic diversity and population structure of the Pêga donkey. Tropical Animal Health Production 47, 1573–1580.Google Scholar
Sargolzaei, M, Iwaisaki, H and Colleau, J 2006. CFC: a tool for monitoring genetic diversity. In Proceedings of 8th World Congress on Genetics Applied to Livestock Production, 13–18 August, Belo Horizonte, Brazil, pp. 27–28.Google Scholar
Sevinga, M, Vrijenhoek, T, Hesselink, JW, Barkema, HW and Groen, AF 2014. Effect of inbreeding on the incidence of retained placenta in Friesian horses. Journal of Animal Science 82, 982–986.Google Scholar
Sonesson, AK and Meuwissen, THE 2000. Mating schemes for optimum contribution selection with constrained rates of inbreeding. Genetics Selection Evolution 32, 231–248.Google Scholar
Teegen, R, Edel, C and Thaller, G 2009. Population structure of the Trakehner Horse breed. Animal 3, 6–15.Google Scholar
Valera, M, Molina, A, Gutiérrez, JP, Gómez, J and Goyache, F 2005. Pedigree analysis in the Andalusian horse: population structure, genetic variability and influence of the Carthusian strain. Livestock Production Science 95, 57–66.Google Scholar
Vieira, ER, de Rezende, ASC, Lana, AMQ, Barcelos, KMC, Santiago, JM, Lage, J, Fonseca, MG and Bergmann, JAG 2015. Characterization of equidae breeding in Minas Gerais state. Arquivo Brasileiro de Medicina Veterinária e Zootecnia 67, 319–323.Google Scholar
Wolc, A and Balińska, K 2010. Inbreeding effects on exterior traits in Polish Konik horses. Achiv Tierzucht 53, 1–8.Google Scholar
Yamashita, J, Oki, H, Hasegawa, T, Honda, T and Nomura, T 2010. Demographic analysis of breeding structure in Japanese Thoroughbred population. Journal of Equine Science 21, 11–16.Google Scholar
Zechner, P, Solkner, J, Bodo, I, Druml, T, Baumung, R, Achmann, R, Marti, E, Habe, F and Brem, G 2002. Analysis of diversity and population structure in the Lipizzan horse breed based on pedigree information. Livestock Production Science 77, 137–146.Google Scholar