Genetic diversity of Calpain 1 gene in Bolivian Creole, Nellore and Brahman bovine breeds in Bolivia

  • Juan Antonio Pereira Facultad de Ciencias Veterinarias, Universidad Autónoma Gabriel René Moreno,Santa Cruz de la Sierra, Departamento de Santa Cruz, Bolivia https://orcid.org/0000-0001-5898-9761
  • Agustin H. Falomir-Lockhart IGEVET – Instituto de Genética Veterinaria “Ing. Fernando N. Dulout” (UNLP-CONICET LA PLATA), Facultad de Ciencias Veterinarias, Universidad Nacional de La Plata. https://orcid.org/0000-0002-7597-9140
  • Ariel J Loza Facultad de Ciencias Veterinarias, Universidad Autónoma Gabriel René Moreno,Santa Cruz de la Sierra, Departamento de Santa Cruz, Bolivia https://orcid.org/0000-0003-0192-5243
  • Egle E. Villegas-Castagnasso IGEVET – Instituto de Genética Veterinaria “Ing. Fernando N. Dulout” (UNLP-CONICET LA PLATA), Facultad de Ciencias Veterinarias, Universidad Nacional de La Plata.
  • Pedro Rojas Facultad de Ciencias Veterinarias, Universidad Autónoma Gabriel René Moreno,Santa Cruz de la Sierra, Departamento de Santa Cruz, Bolivia
  • Monica H. Carino IGEVET – Instituto de Genética Veterinaria “Ing. Fernando N. Dulout” (UNLP-CONICET LA PLATA), Facultad de Ciencias Veterinarias, Universidad Nacional de La Plata.
  • Rodrigo Hoyos Facultad de Ciencias Veterinarias, Universidad Autónoma Gabriel René Moreno,Santa Cruz de la Sierra, Departamento de Santa Cruz, Bolivia
  • Andres Rogberg-Muñoz IGEVET – Instituto de Genética Veterinaria “Ing. Fernando N. Dulout” (UNLP-CONICET LA PLATA), Facultad de Ciencias Veterinarias, Universidad Nacional de La Plata.
  • Guillermo Giovambattista Universidad Nacional de La Plata https://orcid.org/0000-0001-8365-3303
Keywords: Criollo Boliviano, Brahman, Nelore, terneza, calpaína, SNPs.

Abstract

In Bolivia, beef production is mainly based on two genotypes, Bos taurus (Creole cattle) and B. indicus (zebu), being weight gain the main selection criteria used by farmers. However, meat quality and especially tenderness must be incorporated in the selection process. Meat tenderness is partly determined by the calpain (CAPN1)/calpastatin (CAST) protein system. Thus, the objective of the present work was to determine and compare the genetic variability of the CAPN1 gene in Creole (CreBo), Brahman (BraBo) and Nellore (NelBo) breeds in Bolivia. DNA was extracted from blood samples from 147 CreBo, 59 BraBo and 93 NelBo, and three polymorphisms were genotyped using ARMS-PCR (CAPN1-316 and CAPN1-4751) and PCR-RFLP (CAPN1-530). Furthermore, CAPN1-316 and CAPN1-4751 were analyzed with Axiom™ Bos 1 Genotyping Array r3. Allele frequencies associated with higher tenderness in CreBo, BraBo and NelBo were 0.22, 0 and 0.09 (CAPN1-316 C), 0.76, 0.16 and 0.08 (CAPN1-4751 C), and 0.77, 0.92 and 0.94 (CAPN1-530 G). Linkage disequilibrium (LD) analysis revealed the presence of two LD blocks. Our results evidence that CreBo has a higher frequency of alleles associated with higher meat tenderness than the analyzed zebu breeds. These markers could be used in breeding programs to improve Bolivian cattle herd meat quality either by selection within Creole breeds or crosses with zebu cattle.

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References

Avilés, C., F. Peña, O. Polvillo, M. Barahona, M. Campo, C. Sañudo, M. Juárez, A. Horcada, M.J. Alcalde, A. Molina. 2015. Association between functional candidate genes and organoleptic meat traits in intensively-fed beef. Meat Science, 107: 33–38. https://www.sciencedirect.com/science/article/pii/S0309174015001023
Barendse, W., B. Harrison, R. Bunch, M. Thomas. 2008. Variation at the Calpain 3 gene is associated with meat tenderness in zebu and composite breeds of cattle. BMC Genetics, 9: 41. https://link.springer.com/article/10.1186/1471-2156-9-41
Barrett, J., B. Fry, J. Maller, M. Daly. 2005. Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics, 21: 263–265. https://academic.oup.com/bioinformatics/article/21/2/263/186662
Bouzat, J., G. Giovambattista, C. Golijow, M. Lojo, F. Dulout. 1998. Genética de la conservación de razas autóctonas: El ganado criollo argentino. Interciencia, 23: 151–157.
Bonilla, C., M. Rubio, A. Sifuentes, G. Parra-Bracamonte, V. Arellano, M. Méndez, J.M. Berruecos, R. Ortiz. 2010. Association of CAPN1 316, CAPN1 4751 and TG5 markers with bovine meat quality traits in Mexico. Genetics and Molecular Research, 9: 2395–2405. https://www.geneticsmr.com/year2010/vol9-4/pdf/gmr959.pdf
Casas, E., S. White, T. Wheeler, S. Shackelford, M. Koohmaraie, D. Riley, C.C. Chase, D.D. Johnson, T.P.L. Smith. 2006. Effects of calpastatin and micro-calpain markers in beef cattle on tenderness traits. Journal of Animal Science, 84: 520–525. https://academic.oup.com/jas/article-abstract/84/3/520/4778411
Castro, S., M. Ríos, Y. Ortiz, C. Manrique, A. Jiménez, F. Ariza. 2016. Association of single nucleotide polymorphisms in CAPN1, CAST and MB genes with meat color of Brahman and crossbreed cattle. Meat Science, 117: 44–49. https://www.sciencedirect.com/science/article/pii/S0309174016300389
Chase, C.C., Jr A.C. Hammond, T.A. Olson, C.N. Murphy, A. Tewolde, J.L. Griffin. 1997. Introduction and evaluation of Romosinuano in the USA. Razas bovinas creadas en Latinoamérica y el Caribe, 57-71. https://ojs.alpa.uy/index.php/ojs_files/article/view/223/216
Chung, H., S. Shin, E. Chung. 2014. Effects of genetic variants for the bovine calpain gene on meat tenderness. Molecular Biology Reports, 41: 2963–2970. https://link.springer.com/article/10.1007%2Fs11033-014-3152-3
Corva, P., L. Soria, A. Schor, E. Villarreal, M. Cenci, M. Motter, C. Mezzadra, L. Melucci, C. Miquel, E. Paván, G. Depetris. 2007. Association of CAPN1 and CAST gene polymorphisms with meat tenderness in Bos taurus beef cattle from Argentina. Genetics and Molecular Biology, 30: 1064–1069. https://www.scielo.br/j/gmb/a/yRr9BRwCHcCr3XLgXLh4vRC
Cui, X., Y. Sun, X. Wang, C. Yang, Z. Ju, Q. Jiang, Y. Zhang, J. Huang, J. Zhong, M. Yin, C. Wang. 2016. A g.-1256 A>C in the promoter region of CAPN1 is associated with semen quality traits in Chinese Holstein bulls. Reproduction, 152: 101–109. https://europepmc.org/article/med/27107033
Curi, R., L. Chardulo, M. Mason, M. Arrigoni, A. Silveira, H. de Oliveira. 2009. Effect of single nucleotide polymorphisms of CAPN1 and CAST genes on meat traits in Nellore beef cattle (Bos indicus) and in their crosses with Bos taurus. Animal Genetics, 40; 456–462. https://onlinelibrary.wiley.com/doi/abs/10.1111/j.1365-2052.2009.01859.x
Curi, R., L. Chardulo, J. Giusti, A. Silveira, C. Martins, H. de Oliveira. 2010. Assessment of GH1, CAPN1 and CAST polymorphisms as markers of carcass and meat traits in Bos indicus and Bos taurus-Bos indicus cross beef cattle. Meat Science, 86: 915–920. https://www.sciencedirect.com/science/article/pii/S0309174010002950
de Alba, J. 2011. El libro de los bovinos criollos en América. Colegio de Postgraduados, Mexico. ISBN 9786077699118
Dekkers, J., F. Hospital. 2002. The Use of Molecular Genetics in the Improvement of Agricultural Populations. Nature Reviews Genetics, 3: 22–32. https://www.nature.com/articles/nrg701
Garriz, C., M. Gallinger, M. Zamorano, C. Mezzadra. 1993. Calidad de carne en novillos de raza criolla argentina y Aberdeen Angus puros y cruzas Criollos x Angus y Nelore x Angus. En: Ganado Bovino Criollo Tomo 3. Orientación Gráfica Editora. 178–197.
Gill, J., S. Bishop, C. McCorquodale, J. Williams, P. Wiener. 2009. Association of selected SNP with carcass and taste panel assessed meat quality traits in a commercial population of Aberdeen Angus-sired beef cattle. Genetics Selection Evolution, 41: 36. https://link.springer.com/article/10.1186/1297-9686-41-36
Goll, D., V. Thompson, R. Taylor, J. Christiansen. 1992. Role of the calpain system in muscle growth. Biochimie, 74: 225–237. https://www.sciencedirect.com/science/article/pii/030090849290121T
Guglielmone, A., A. Mangold, D. Aguirre, A. Bermúdez, A. Gaido. 1991. Comparación de la raza criolla con otros biotipos bovinos respecto al parasitismo por Boophilus microplus e infecciones naturales de Babesia bovis. Ganado Bovino Criollo Tomo 2. Orientación Gráfica Editora.
Hansen, E. 1994. Ganadería bovina de raza criolla en el noroeste argentino. Universidad Nacional de Jujuy. ISBN: 950-721-030-X.
Huff-Lonergan, E., T. Mitsuhashi, D. Beekman, F. Parrish, D. Olson, R. Robson. 1996. Proteolysis of specific muscle structural proteins by mu-calpain at low pH and temperature is similar to degradation in postmortem bovine muscle. Journal of Animal Science, 74: 993–1008. https://academic.oup.com/jas/article-abstract/74/5/993/4639134
Juszczuk-Kubiak, E., T. Sakowski, K. Flisikowski, K. Wicinska, J. Oprzadek, S. Rosochacki. 2004. Bovine mu-calpain (CAPN1) gene: new SNP within intron 14. Journal of Applied Genetics, 5: 457–460. http://jag.igr.poznan.pl/2004-Volume-45/4/abstracts/235.html
Kavan, D., P. Man. 2011. MSTools—Web based application for visualization and presentation of HXMS data. International Journal of Mass Spectrometry, 302: 53–58. https://www.sciencedirect.com/science/article/pii/S1387380610002666
Koohmaraie, M. 1992. The role of Ca(2+)-dependent proteases (calpains) in post mortem proteolysis and meat tenderness. Biochimie, 74: 239–245. https://www.sciencedirect.com/science/article/pii/030090849290122U
Lee, S.H., S.C. Kim, H.H. Chai, S.H. Cho, H.C. Kim, D. Lim, B.H. Choi, C.G. Dang, A. Sharma, C. Gondro, B.S. Yang. 2014. Mutations in calpastatin and μ-calpain are associated with meat tenderness, flavor and juiciness in Hanwoo (Korean cattle): Molecular modeling of the effects of substitutions in the calpastatin/μ-calpain complex. Meat Science, 96: 1501–1508. https://www.sciencedirect.com/science/article/pii/S030917401300644X
Lirón, J.P., C. Bravi, P. Mirol, P. Peral-Garcia, G. Giovambattista. 2006a. African matrilineages in American Creole cattle: evidence of two independent continental sources. Animal Genetics, 37: 379–382. https://onlinelibrary.wiley.com/doi/abs/10.1111/j.1365-2052.2006.01452.x
Lirón, J.P., P. Peral-García, G. Giovambattista. 2006b. Genetic Characterization of Argentine and Bolivian Creole Cattle Breeds Assessed through Microsatellites. Journal of Heredity, 97: 331–339. https://academic.oup.com/jhered/article/97/4/331/2187667
López-Rojas, L., L. Patiño-Cadavid, A. López-Herrera, J. Echeverri-Zuluaga. 2017. Genotyping of SNPs associated with meat tenderness: comparison of two PCR-based methods. Genetics and Molecular Research, 16 (2). https://doi.org/10.4238/gmr16029635
MacNeil, M., M. Grosz. 2002. Genome-wide scans for QTL affecting carcass traits in Hereford x composite double backcross populations. Journal of Animal Science, 80: 2316–2324. https://academic.oup.com/jas/article-abstract/80/9/2316/4789691
Mazzucco, J., L. Melucci, E. Villarreal, C. Mezzadra, L. Soria, P. Corva, M.M. Motter, A. Schor, M.C. Miquel. 2010. Effect of ageing and μ-calpain markers on meat quality from Brangus steers finished on pasture. Meat Science, 86: 878–882. https://www.sciencedirect.com/science/article/pii/S0309174010002949
Mezzadra, C., L.M. Melucci. 2005. Experiencias en conservación, evaluación y utilización del bovino criollo argentino. Agrociencia, 9: 453-457. https://www.produccion-animal.com.ar/informacion_tecnica/raza_criolla/91-experiencias.pdf
Ng, P.C., S. Henikoff. 2006. Predicting the Effects of Amino Acid Substitutions on Protein Function. Annual Reviews of Genomics and Human Genetics, 7: 61–80. https://www.annualreviews.org/doi/abs/10.1146/annurev.genom.7.080505.115630
Ouali, A., A. Talmant. 1990. Calpains and calpastatin distribution in bovine, porcine and ovine skeletal muscles. Meat Science, 28: 331–348. https://www.sciencedirect.com/science/article/pii/030917409090047A
Page, B., E. Casas, M. Heaton, N. Cullen, D. Hyndman, C. Morris, A.M. Crawford, T.L. Wheeler, M. Koohmaraie, J.W. Keele, T.P. Smith. 2002. Evaluation of single-nucleotide polymorphisms in CAPN1 for association with meat tenderness in cattle. Journal of Animal Science, 80: 3077–3085. https://academic.oup.com/jas/article-abstract/80/12/3077/4789349
Page, B., E. Casas, R.L. Quaas, R.M. Thallman, T.L. Wheeler, S.D. Shackelford, M. Koohmaraie, S.N. White, G.L. Bennett, J.W. Keele, M.E. Dikeman. 2004. Association of markers in the bovine CAPN1 gene with meat tenderness in large crossbred populations that sample influential industry sires. Journal of Animal Science, 82: 3474–3481. https://academic.oup.com/jas/article-abstract/82/12/3474/4790167
Pinto, L., J. Ferraz, F. Meirelles, J. Eler, F. Rezende, M. Carvalho, H.B. Almeida, R.C.G. Silva. 2010. Association of SNPs on CAPN1 and CAST genes with tenderness in Nellore cattle. Genetics and Molecular Research, 9: 1431–1442. https://doi.org/10.4238/vol9-3gmr881
Pinto, L., J. Ferraz, V. Pedrosa, J. Eler, F. Meirelles, M. Bonin, F.M. Rezende, M.E. Carvalho, D.C. Cucco, R.C.G. Silva. 2011. Single nucleotide polymorphisms in CAPN and leptin genes associated with meat color and tenderness in Nellore cattle. Genetics and Molecular Research, 10: 2057–2064. https://doi.org/10.4238/vol10-3gmr1263
Primo, A. 1992. El ganado bovino ibérico en las Américas: 500 años después. Archivos de Zootecnia, 41: 421–432.
Purcell, S., B. Neale, K. Todd-Brown, L. Thomas, M. Ferreira, D. Bender, J. Maller, P. Sklar, P.I.W. de Bakker, M.J. Daly, P.C. Sham. 2007. PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses. American Journal of Human Genetics, 81: 559–575. https://www.sciencedirect.com/science/article/pii/S0002929707613524
Rincon, G., J. Medrano. 2003. Single nucleotide polymorphism genotyping of bovine milk protein genes using the tetra-primer ARMS-PCR. Journal of Animal Breeding and Genetics, 120: 331–337. https://onlinelibrary.wiley.com/doi/full/10.1046/j.1439-0388.2003.00405.x
Rincon, G., J. Medrano. 2006. Assays for genotyping single nucleotide polymorphisms in the bovine CAPN1 gene. Animal Genetics, 37: 294–295. https://doi.org/10.1111/j.1365-2052.2006.01430.x
Rousset, F. 2007. Inferences from Spatial Population Genetics. In: D.J. Balding, M. Bishop, C. Cannings (Eds.). Handbook of statistical genetics. John Wiley & Sons, Ltd. pp. 945–979. ISBN: 978-0-470-05830-5. https://onlinelibrary.wiley.com/doi/10.1002/9780470061619.ch28
Shackelford, S., T. Wheeler, M. Meade, J. Reagan, B. Byrnes, M. Koohmaraie. 2001. Consumer impressions of Tender Select beef. Journal of Animal Science, 79: 2605–2614. https://academic.oup.com/jas/article-abstract/79/10/2605/4683289
Soria, L., P. Corva, M. Huguet, S. Miño, M. Miquel. 2010. Bovine μ-calpain (CAPN1) gene polymorphisms in Brangus and Brahman bulls. Journal of Basic and Applied Genetics, 21: 61–69.
White, S., E. Casas, T. Wheeler, S. Shackelford, M. Koohmaraie, D. Riley, C.C. Chase, D.D. Johnson, J.W. Keele, T.P.L. Smith. 2005. A new single nucleotide polymorphism in CAPN1 extends the current tenderness marker test to include cattle of Bos indicus, Bos taurus, and crossbred descent. Journal of Animal Science, 83: 2001–2008. https://academic.oup.com/jas/article-abstract/83/9/2001/4790784
Published
2022-03-16
How to Cite
Pereira, Juan A.C., Agustin H. Falomir-Lockhart, Ariel J. Loza, Egle E. Villegas-Castagnasso, Pedro Rojas, Monica H. Carino, Rodrigo Hoyos, Andres Rogberg-Muñoz, and Guillermo Giovambattista. 2022. “Genetic Diversity of Calpain 1 Gene in Bolivian Creole, Nellore and Brahman Bovine Breeds in Bolivia”. Latin American Archives of Animal Production 30 (2), 121-32. https://doi.org/10.53588/alpa.300206.