Phylogenetic relationships of Argentinean Creole with other Latin American Creole Cattle as revealed by a medium density SNP microarray
Abstract
The demographic history of the Criollo cattle in Argentina and in Latin America in general dates back to the time of Spanish colonization. The objective of this study was to investigate the potential use of a medium-density SNP microarray to describe animals from the most representative and oldest herds at the time the Argentine Association of Criollo Bovine Cattle Breeders was established and to explore the phylogenetic relationship with other Creole cattle from Latin America. With the genotypes of 51 animals in 34,008 autosomal SNPs, matrices of genetic distances were generated based on the proportion of identical alleles by state shared between animals and between animals grouped according to their origin, with the PLINK program. A phylogenetic tree based on genetic distances between pairs of animals was constructed using PHYLIP, and prepared for visualization with FigTree. A multidimensional scaling analysis was performed to evaluate the relationship in terms of genetic distance between the different groups of animals. The genetic distances between animals ranged from 0.186 to 0.357 when considering all pairs of animals, and from 0.186 to 0.338 when considering pairs of creoles. The dendrogram obtained presented three clusters. Group 1 included Creole cattle from Colombia, Guadalupe, Paraguay and Uruguay, and the reference groups Holando and Jersey. Group 2 comprised exclusively Patagonian Creole cattle, while the third group included the remaining Argentine Creoles. The genetic relationship patterns obtained through multidimensional scaling demonstrated an intimate relationship between criollos of four origins in Argentina. This can be explained in part by the early migration of animals that originated the founding herds in some Argentine localities. The results of this study will contribute to a better understanding of the formation of the founding herds of criollos in Argentina and of the relationship with other populations of creole cattle in Latin America.
Downloads
References
Armstrong, E., A. Iriarte, A. M. Martínez, M. Feijoo, J. L. Vega-Pla, J. V. Delgado and A. Postiglioni. 2013. Genetic diversity analysis of the Uruguayan Creole cattle breed using microsatellites and mtDNA markers. Genet. Mol. Res. 12: 1119-1131. DOI: 10.4238/2013.April.10.7
Browett, S., G. McHugo, I. W. Richardson, D. A. Magee, S. D. E. Park, A. G. Fahey, J. F. Kearney, C. N. Correia, I. A. S. Randhawa and D. E. MacHugh. 2018. Genomic characterization of the indigenous Irish Kerry cattle breed. Front. Genet. 9:51. DOI: 10.3389/fgene.2018.00051
Corva, P. M., E. L. Villarreal, C. A. Mezzadra and L. M. Merlucci. 1995. Reproductive traits of Angus, Criollo and reciprocal crossbred females in the temperate area of Argentina. Anim. Sci. 61: 241-249. DOI: 10.1017/S135772980001376X
Felsenstein, J. 1989. PHYLIP - Phylogeny Inference Package (Version 3.2). Cladistics 5: 164-166.
Giovambattista, G., C. D. Golijow, F. N. Dulout and M. M. Lojo. 1996. Gene frequencies of DRB3.2 locus of Argentine Creole cattle. Anim. Genet. 27: 55-56. DOI: 10.1111/j.1365-2052.1996.tb01178.x
Frantz, L.A.F., Bradley, D.G., Larsonand, G., Orlando, L. 2020. Animal domestication un era of ancient genomics. Nature reviews. Genetics. https://doi.org/10.1038/s4157602002250
Giovambattista, G., M. V. Ripoli, P. Peral-García and J. L. Bouzat. 2001. Indigenous domestic breeds as reservoirs of genetic diversity: The Argentine Creole Cattle. Anim. Genet. 32: 240-247. DOI: 10.1046/j.1365-2052.2001.00774.x
Gorbach, D. M., M. L. Makgahlela, J. M. Reecy, S. J. Kemp, I. Baltenweck, R. Ouma, O. Mwai, K. Marshall, B. Murdoch, S. Moore and M. F. Rothschild. 2010. Use of SNP genotyping to determine pedigree and breed composition of dairy cattle in Kenya. J. Anim. Breed. Genet. 127: 348-351. DOI: 10.1111/j.1439-0388.2010.00864.x
Hulsegge, B., M. P. L. Calus, J. J. Windig, A. H. Hoving-Bolink, M. H. T. Maurice-van Eijndhoven and S. J. Hiemstra. 2013. Selection of SNP from 50 K and 777 K arrays to predict breed of origin in cattle. J. Anim. Sci. 91, 5128-5134. DOI: 10.2527/jas.2013-6678
Hulsegge, I., M. Schoon, J. Windig, M. Neuteboom, S. J. Hiemstra and A. Schurink. 2019. Development of a genetic tool for determining breed purity of cattle. Livestock Science 223: 60-67. DOI: 10.1016/j.livsci.2019.03.002
Holgado, F. D. and A. Rabasa. 2001. Herencia del carácter “sin cuernos” en el bovino Criollo Argentino. Zootecnia Trop. 19(2): 185-190.
Holgado, F. D. and M. F. Ortega. 2019. Caracterización productiva del bovino criollo argentino: período 2006-2016. Buenos Aires: Ediciones INTA. 26p. ISBN 978-987-521-987-8
Lirón, J. P., P. Peral-García and G. Giovambattista. 2006. Genetic characterization of Argentine and Bolivian Creole cattle breeds assessed through microsatellites. J. Hered. 97(4): 331-339. DOI: 10.1093/jhered/esl003
Martínez-López, O. R., S. B. P. Barbosa, A. M. Martínez, J. V. Delgado and V. Landi. 2019. Perfil genético de dos poblaciones bovinas criollas de Paraguay. Actas Iberoamericanas de Conservación Animal -AICA 14: 141-153.
Martinez, R. D. 2008. Caracterización genética y morfológica del bovino criollo argentino de origen patagónico. http://www.uco.es/conbiand/tesis/Ruen_Martinez.pdf
Martínez, R. D., G. Giovambattista, M. V. Ripoli, J. C. DeLuca and F. N. Dulout. 2003. Patagonian Argentine Creole cattle polymorphism: comparison with North-West populations of this breed. Res. Vet. Sci. 74: 287-290. DOI: 10.1016/s0034-5288(02)00190-x
Mastrangelo, S., E. Ciani, P. Ajmone Marsan, A. Bagnato, L. Battaglini, R. Bozzi, et al. 2018. Conservation status and historical relatedness of Italian cattle breeds. Genet. Sel. Evol. 50:35. DOI: 10.1186/s12711-018-0406-x
Meseret, S., Mekonnenb, Y.A., Brenigc, B., Schtz, E, Hannotte, O., Gltas, M., Schmitt, A.O. 2020. Genetic diversity and population structure of six ethiopian cattle breeds from different geographical regions using high density single nucleotide polymorphisms. Livestock. Science 234.103979.
Poli, M. A. 1986. Asociación entre factores sanguíneos, transferrinas, genes Ps, Bs y aspectos productivos en bovinos criollos. RIA, XXI, N 2, 67-76.
Poli, M.A. and A. G. Antonini. 1991. Genetic structure of milk proteins in Argentinian Holstein and Argentinian Creole cattle. Hereditas 115: 177-182.
Purcell, S., B. Neale, K. Todd-Brown, L. Thomas, M. A. R. Ferreira, D. Bender, J. Maller, P. Sklar, P. I. W. de Bakker, M. J. Daly and P. C. Sham. 2007. PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses. Am. J. Hum. Genet. 81(3): 559-575. DOI: 10.1086/519795
Rabasa, A. and F. D. Holgado. 2000. Reproductive evaluation of complete dialelic crossbreeding creole-Nelore. Zootecnia Tropical. 18(1): 79-90.
Rabasa, A. E., F. D. Holgado and M. A. Poli. 2005. Bovino Criollo de Argentina: diferentes aspectos en su caracterización. Agrociencia vol IX N° 2 y 3: 473-477.
Rambaut, A. 2009. FigTree, a graphical viewer of phylogenetic trees. Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, United Kingdom.
Rosen, B. D., D. M. Bickhart, R. D. Schnabel, et al., 2020. De novo assembly of the cattle reference genome with single-molecule sequencing. Gigascience. 9(3):giaa021. DOI:10.1093/gigascience/giaa021
Sal Paz A. R. de, F. Sal Paz, F. Bergmann and S. L. Rabasa. 1976. Asociación de la fertilidad femenina con genes mendelianos mayores en bovinos Criollos. Mendeliana 1 (2): 91-95.
Sermyagin, A. A., A. V. Dotsev, A. A. Gladyr, A. A. Traspov, T. E. Deniskova, O. V. Kostyunina, et al. 2018. Whole-genome SNP analysis elucidates the genetic structure of Russian cattle and its relationship with Eurasian taurine breeds. Genet. Sel. Evol. 50:37. DOI: 10.1186/s12711-018-0408-8
Upadhyay, M., Eriksson, S., Mikko, S., Strandberg, E., St. Ihammar, H., Groenen, M.A.M., Crooijmans, R.P.M.A., Andersson, G. and Johannson, A.M. 2019. Genomic relat edness and diversity of swedish native cattle breeds. Genet Sel Evol 51: 56 https://doi.org/10.1186/s1271101904960
Copyright (c) 2021 Maria Agustina Raschia, Mario Poli
This work is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License.
