Genetic Polymorphism of Calpastatin (CAST) Gene in Pasundan Cattle

Slamet Diah Volkandari(1*), Aina Nadila(2), Nani Radiastuti(3), Endang Tri Margawati(4)

(1) Research Center for Biotechnology, The Indonesian Institute of Sciences (LIPI) Cibinong, Bogor, 16911, Indonesia
(2) Syarif Hidayatullah Islamic State University Jakarta, Banten, 15412, Indonesia
(3) Syarif Hidayatullah Islamic State University Jakarta, Banten, 15412, Indonesia
(4) Research Center for Biotechnology, The Indonesian Institute of Sciences (LIPI) Cibinong, Bogor, 16911, Indonesia
(*) Corresponding Author


The aim of this study was to determine genetic diversity of Calpastatin gene (CAST) in Pasundan cattle. Forty-four fresh blood samples were collected from UPTD BPPT Beef Cattle Ciamis West Java. Genomic DNA samples were extracted using High Salt method. A 523 bp fragment of Calpastatin gene was successfully amplified using PCR method. Genotyping of CAST gene was conducted by PCR-RFLP method using RsaI restriction enzyme (GT^AC). Genotypes and alleles were analyzed using software Cervus 3.0.7. Parameters were observed i.e genotypes and alleles frequencies, heterozygosity observed (Ho) and expected (He), Hardy Weinberg Equilibrium (HWE), and Polymorphic Information Content (PIC). Result showed that three variant genotypes of GG, GC and CC were found and two variant alleles of G and C. Allele G was found higher (0.77) than allele C (0.23). Population of Pasundan cattle was found polymorphism and in the Hardy Weinberg Equilibrium. Polymorphic Information Content (PIC) value showed in a moderate (0.290) condition. Values of Heterozygosity observed and expected were 0.409 and 0.355 respectively. This research concludes that there is polymorphism of CAST gene in Pasundan cattle population and has genetic diversity. This result could be used as early genetic information in exploration of Pasundan cattle.


Beef cattle; Calpastatin gene; Pasundan cattle; Polymorphism; West Java

Full Text:



Agriculture Ministry. 2014. Decree of Agriculture Ministry: Pasundan Cattle. Agriculture Ministry, Jakarta.

Arifin, J., S. B. Komar, E. Y. Setyowati, U. Yunasaf, A. Anang, Indrijani, and Sulasmi. 2015. The gene distribution, equilibrium low, and effective population size post migration of Pasundan cattle at Majalengka Regency. Jurnal Ilmu Ternak 15: 1-7.

Baharun, A. 2015. Reproductive potentials and freezing capability of Pasundan bull semen using tris egg yolk and tris soy extender. Thesis. Bogor Agricultural University, Bogor.

Barendse, W., B. E. Harrison, R. J. Hawken, D. M. Ferguson, J. M. Thompson, M. B. Thomas, and R. J. Bunch. 2007. Epistasis between calpain 1 and its inhibitor Calpastatin within breeds of cattle. Genetics 176: 2601–2610. http://doi: 10.1534/genetics.107.074328.

Bishop, M. D., M. Koohmaraie, J. Killefer, and S. Kappes. 1993. Rapid communication: Restriction fragment length polymorphisms in the bovine calpastatin gene. J. Anim. Sci. 71: 2277.

Botstein, D., R. L. White, M. Skolnick, and R. W. Davis. 1980. Construction of a genetic linkage map in man using restriction fragment length polymorphism. Am. J. Hum. Genet. 32: 314-331.

Bressan, M. C., E. C. Rodrigues, L. V. Rossato, E. M. Ramos, and L. T. da Gama. 2011. Physichemical properties of meat from Bos taurus and Bos indicus. R. Bras. Zootech. 40: 1250-1259.

Calvo, J. H., L. P. Iguácel, J. K. Kirinus, M. Serrano, G. Ripoli, I. Casasús, M. Joy, L. Pérez-Velasco, P. Sarto, P. Albertí, and M. Blanco. 2017. A new single nucleotide polymorphism in the calpastatin (CAST) gene associated with beef tenderness. Meat Sci. 96: 775-782. http://doi: 10.1016/j.meatsci.2013.10.003.

Chesnokov, Y. V. and A. M. Artemyeva. 2015. Evaluation of the measure of polymorphism information of genetic diversity. Agricultural Biology 50: 571-578. http://doi: 10.15389/agrobiology.2015.5.57.

Corva, P., L. Soria, A. Schor, E. Villarreal, M. P. Cenci, M. Motter, C. Mezzadra, L. Melucci, C. Miquel, E. Pavan, G. Depetris, F. Santini, and J. G. Naon. 2007. Association of CAPN1 and CAST gene polymorphisms with meat tenderness in Bos taurus beef cattle from Argentina. Genet. Mol. Biol. 30: 1064–1069.

Crouse, J., L. V. Cundiff, R. M. Koch, M. Koohmaraie, and S. C. Seideman. 1989. Comparisons of Bos indicus and Bos taurus inheritance for carcass beef characteristic and meat palatability. Roman L. Hruska U.S. Meat Animal Research Center (USMARC) 121: 125-127.

du Toit, E and J. W. Oguttu. 2013. Calpain and Calpastatin activity post mortem and meat tenderness: are the two related?. J.Anim. Vet. Adv. 12: 683-688.

Garcia, M. D., J. J. Michal, C. T. Gaskins, J. J. Reeves, T. L. Ott, Y. Liu, and Z. Jiang. 2006. Significant association of the calpastatin gene with fertility and longevity in dairy cattle. Anim. Genet. 37: 304-305.

Goll, D. E., V. F. Thompson, H. Li, W. Wei, and J. Cong. 2003. The calpain system. Physiol.  Rev. 83: 731-801.

Ishak, A. B. L., C. Sumantri, R. R. Noor, and I. Arifiantini. 2011. Identification of polymorphism of FSH Beta-Subunit gene as sperm quality marker in Bali cattle using PCR-RFLP. J. Indonesian Tropic. Anim. Agric. 36: 221 – 227.

Jeleníková, J., P. Pipek, and L. Staruch. 2008. The influence of ante-mortem treatment on relationship between pH and tenderness of beef. Meat Sci. 80: 870-874. http://doi: 10.1016/j.meatsci.2008.04.004.

Kalinowski, S. T., M. L. Taper, and T. C. Marshall. 2007. Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol. Ecol.  16: 1099-1106.

Kemp, M. C., P. L. Sensky, R. G. Bardsley, P.J. Buttery, and T. Parr. 2010. Tenderness-An enzymatic view. Meat Sci. 84: 248-256. http://doi: 10.1016/j.meatsci.2009.06.008.

Kok, S., S. Atalay, M. Savasci, and H. S. Eken. 2013. Characterization of calpastatin gene in purebred and crossbred Turkish Grey Steppe cattle. Kafkas Univ. Vet. Fak. Derg. 19: 203 – 206.

Koohmaraie, M.1994. Muscle proteinases and meat aging. Meat Sci. 36: 93-104.

Koohmaraie, M. and G. H. Geesink. 2006. Contribution of postmortem muscle biochemistry to the delivery of consistent meat quality with particular focus on the calpain system. Meat Sci. 74: 34-43.

Li, J., L. P. Zhang, Q. F. Gan, J. Y. Li, H. J. Gao, Z. R. Yuan, X. Gao, J. B. Chen, and S. Z. Xu. 2010. Association of CAST gene polymorphisms with carcass and meat quality traits in Chinese Commercial Cattle Herds. Asian-Australas. J. Anim. Sci. 23: 1405–1411.

Lomiwes, D., M. M. Farouk, G. Wu, and O. A. Young. 2014. The development of meat tenderness is likely to be compartmentalized by ultimate pH. Meat Sci. 96: 646-651. http://doi: 10.1016/j.meatsci.2013.08.022.

Montgomery, G. W. and J. A. Sise. 1990. Extraction of DNA from sheep white blood cells. New Zeal. J. Agr. Res. 33: 437 – 441. http://doi: 10.1080/00288233.1990.10428440.

Noor, R. R. 2008. Animal Genetic. Ed 4. Penebar Swadaya, Bogor.

O’Connor, S. F., J. D. Tatum, D. M. Wulf, R. D. Green, and G. C. Smith. 1997. Genetic effects on beef tenderness in Bos indicus composite and Bos taurus cattle. J. Anim. Sci. 75: 1822-1830. 

O’Halloran, G. R., D. J. Troy, D. J. Buckley, and W. J. Reville. 1997. The role of endogenous protease in the tendernisation of fast glycolysing muscle. Meat Sci. 47: 187-210.

Parra-Bracamonte, G. M., J. C. Martínez-González, A. M. Sifuentes-Rincón, V. R. Moreno-Medina, and E. Ortega-Rivas. 2015. Meat tenderness genetic polymorphims occurrence and distribution in five Zebu breeds in Mexico. Electron. J.  Biotechn. 18: 365-367. http://doi: 10.1016/j.ejbt.2015.07.002.

Pinto, L. F. B., J. B. S. Ferraz, F. V. Meirelles, J. P. Eler, F. M. Rezende. M. E. Carvalho, H. B. Almeida, and R. C. G. Silva. 2010. Association of SNPs on CAPN1 and CAST genes with tenderness in Nellore cattle. Genet. Mol. Res. 9: 1431-1442. http://doi: 10.4238/vol9-3gmr881.

Said, S., W. P. B. Putra, S. Anwar, P. P. Agung, and H. Yuhani. 2017. Phenotypic, morphometric characterization and population structure of Pasundan cattle at West Java, Indonesia. BIODIVERSITAS, 18: 1638-1645.

Schenkel, F. S., S. P. Miller, Z. Jiang, I. B. Mandell, X. Ye, H. Li, and J. W. Wilton. 2006. Association of a single nucleotide polymorphism in the calpastatin gene with carcass and meat quality traits of beef cattle. J. Anim. Sci. 84: 291-299.

Sulasmi. 2016. Characteristics of Pasundan cattle based on morphometric and craniometric study. Thesis. Bogor Agricultural University, Bogor.

Sutarno and A. D. Setyawan. 2015. Review: Genetic diversity of local and exotic cattle and their crossbreeding impact on the quality of Indonesian cattle. BIODIVERSITAS 16: 327 – 354.

Varnam, A.H and J.P. Sutherland. 1996. Milk and milk products: technology, chemistry and microbilogy. 1st edn. Chapman and Hall. London.

Wheeler, T. L., J. W. Savell, H. R. Cross, D. K. Lunt, and S. B. Smith. 1990. Mechanisms associated with the variation in tenderness of meat from Brahman and Hereford cattle. J. Anim. Sci. 68: 4206-4220.

Wheeler, T. L., L. V. Cundiff, S. D. Shackelford, and M. Koohmaraie. 2010. Characterization of biological types of cattle (cycle VIII): carcass, yield, and longissimus palatability traits. J. Anim. Sci. 88: 3070-3083.


Article Metrics

Abstract views : 212 | views : 212


  • There are currently no refbacks.

Creative Commons License
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.

Buletin Peternakan (Bulletin of Animal Science) Indexed by:

 Harvard Library
Creative Commons License
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.