Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle
Whole genome selection represents an important tool for improving parameters related to the production of livestock. In order to build genomic selection indexes within a particular breed, it is important to identify polymorphisms that have the most significant association with a desired trait. A gen...
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| Formato: | article |
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ResearchGate
2025
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| Acceso en línea: | https://www.researchgate.net/publication/265055591_Genome-wide_association_study_on_growth_traits_in_Colombian_creole_breeds_and_crossbreeds_with_Zebu_cattle http://hdl.handle.net/20.500.12324/40743 http://dx.doi.org/10.4238/2014.August.25.5 |
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RepoAGROSAVIA40743 |
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dspace |
| institution |
Corporación Colombiana de Investigación Agropecuaria |
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Repositorio AGROSAVIA |
| language |
Inglés |
| topic |
Genética y mejoramiento animal - L10 Cebú Raza mixta Cruzamiento Genetista Ganadería y especies menores http://aims.fao.org/aos/agrovoc/c_8507 http://aims.fao.org/aos/agrovoc/c_24053 http://aims.fao.org/aos/agrovoc/c_1976 http://aims.fao.org/aos/agrovoc/c_3221 |
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Genética y mejoramiento animal - L10 Cebú Raza mixta Cruzamiento Genetista Ganadería y especies menores http://aims.fao.org/aos/agrovoc/c_8507 http://aims.fao.org/aos/agrovoc/c_24053 http://aims.fao.org/aos/agrovoc/c_1976 http://aims.fao.org/aos/agrovoc/c_3221 Martínez, Rodrigo M Rocha, Juan Felipe Gómez, Y Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle |
| description |
Whole genome selection represents an important tool for improving parameters related to the production of livestock. In order to build genomic selection indexes within a particular breed, it is important to identify polymorphisms that have the most significant association with a desired trait. A genome-wide marker association approach based on the Illumina BovineSNP50 BeadChipTM was used to identify genomic regions affecting birth weight (BW), weaning weight (WW), and daily weight gain (DWG) in purebred and crossbred creole cattle populations. We genotyped 654 individuals of Blanco Orejinegro (BON), Romosinuano (ROMO) and Cebú breeds and the crossbreeds BON x Cebú and ROMO x Cebú, and tested 5 genetic control models. In total, 85 single nucleotide polymorphisms (SNPs) were related (P < 0.05) to the 3 evaluated traits; BW was associated with the highest number of SNPs. For statistical false-positive correction, Bonferroni correction was used. From the results, we identified 7, 6, and 4 SNPs with strong associations with BW, WW, and DWG, respectively. Many of these SNPs were located on important coding regions of the bovine genome; their ontology
and interactions are discussed herein. The results could contribute
to the identification of genes involved in the physiology of beef
cattle growth and the development of new strategies for breeding
management via genomic selection to improve the productivity of
creole cattle herds. |
| format |
article |
| author |
Martínez, Rodrigo M Rocha, Juan Felipe Gómez, Y |
| author_facet |
Martínez, Rodrigo M Rocha, Juan Felipe Gómez, Y |
| author_sort |
Martínez, Rodrigo |
| title |
Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle |
| title_short |
Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle |
| title_full |
Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle |
| title_fullStr |
Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle |
| title_full_unstemmed |
Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle |
| title_sort |
genome-wide association study on growth traits in colombian creole breeds and crossbreeds with zebu cattle |
| publisher |
ResearchGate |
| publishDate |
2025 |
| url |
https://www.researchgate.net/publication/265055591_Genome-wide_association_study_on_growth_traits_in_Colombian_creole_breeds_and_crossbreeds_with_Zebu_cattle http://hdl.handle.net/20.500.12324/40743 http://dx.doi.org/10.4238/2014.August.25.5 |
| work_keys_str_mv |
AT martinezrodrigo genomewideassociationstudyongrowthtraitsincolombiancreolebreedsandcrossbreedswithzebucattle AT mrochajuanfelipe genomewideassociationstudyongrowthtraitsincolombiancreolebreedsandcrossbreedswithzebucattle AT gomezy genomewideassociationstudyongrowthtraitsincolombiancreolebreedsandcrossbreedswithzebucattle |
| _version_ |
1842256105584984064 |
| spelling |
RepoAGROSAVIA407432025-03-04T03:02:08Z Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle Genome-wide association study on growth traits in Colombian creole breeds and crossbreeds with Zebu cattle Martínez, Rodrigo M Rocha, Juan Felipe Gómez, Y Genética y mejoramiento animal - L10 Cebú Raza mixta Cruzamiento Genetista Ganadería y especies menores http://aims.fao.org/aos/agrovoc/c_8507 http://aims.fao.org/aos/agrovoc/c_24053 http://aims.fao.org/aos/agrovoc/c_1976 http://aims.fao.org/aos/agrovoc/c_3221 Whole genome selection represents an important tool for improving parameters related to the production of livestock. In order to build genomic selection indexes within a particular breed, it is important to identify polymorphisms that have the most significant association with a desired trait. A genome-wide marker association approach based on the Illumina BovineSNP50 BeadChipTM was used to identify genomic regions affecting birth weight (BW), weaning weight (WW), and daily weight gain (DWG) in purebred and crossbred creole cattle populations. We genotyped 654 individuals of Blanco Orejinegro (BON), Romosinuano (ROMO) and Cebú breeds and the crossbreeds BON x Cebú and ROMO x Cebú, and tested 5 genetic control models. In total, 85 single nucleotide polymorphisms (SNPs) were related (P < 0.05) to the 3 evaluated traits; BW was associated with the highest number of SNPs. For statistical false-positive correction, Bonferroni correction was used. From the results, we identified 7, 6, and 4 SNPs with strong associations with BW, WW, and DWG, respectively. Many of these SNPs were located on important coding regions of the bovine genome; their ontology and interactions are discussed herein. The results could contribute to the identification of genes involved in the physiology of beef cattle growth and the development of new strategies for breeding management via genomic selection to improve the productivity of creole cattle herds. Ganadería bovina 2025-03-03T16:18:55Z 2025-03-03T16:18:55Z 2014-08 2014 article Artículo científico http://purl.org/coar/resource_type/c_2df8fbb1 info:eu-repo/semantics/article https://purl.org/redcol/resource_type/ART http://purl.org/coar/version/c_970fb48d4fbd8a85 https://www.researchgate.net/publication/265055591_Genome-wide_association_study_on_growth_traits_in_Colombian_creole_breeds_and_crossbreeds_with_Zebu_cattle http://hdl.handle.net/20.500.12324/40743 http://dx.doi.org/10.4238/2014.August.25.5 reponame:Biblioteca Digital Agropecuaria de Colombia instname:Corporación colombiana de investigación agropecuaria AGROSAVIA eng Genetics and Molecular Research 13 3 6420 6432 Buglino JA and Resh MD (2010). Identification of conserved regions and residues within Hedgehog acyltransferase critical for palmitoylation of Sonic Hedgehog. PLoS One 5: e11195. Carré GA, Couty I, Hennequet-Antier C and Govoroun MS (2011). Gene expression profiling reveals new potential players of gonad differentiation in the chicken embryo. PLoS One 6: e23959. Casas E, Shackelford SD, Keele JW, Stone RT, et al. (2000). Quantitative trait loci affecting growth and carcass composition of cattle segregating alternate forms of myostatin. J. Anim. Sci. 78: 560-569. Elo JM, Yadavalli SS, Euro L, Isohanni P, et al. (2012). Mitochondrial phenylalanyl-tRNA synthetase mutations underlie fatal infantile Alpers encephalopathy. Hum. Mol. Genet. 21: 4521-4529. Fuccillo M, Joyner AL and Fishell G (2006). Morphogen to mitogen: the multiple roles of hedgehog signalling in vertebrate neural development. Nat. Rev. Neurosci. 7: 772-783. Goddard ME and Hayes BJ (2009). Mapping genes for complex traits in domestic animals and their use in breeding programmes. Nat. Rev. Genet. 10: 381-391. González JR, Armengol L, Guinó E, Solé X, et al. (2003). SNPs-based whole genome association studies. Package ‘SNPassoc, Repository CRAN. González JR, Armengol L, Sole X, Guinó E, et al. (2007). SNPassoc: an R package to perform whole genome association studies. Bioinformatics 23: 644-645. Gutiérrez-Gil B, Williams JL, Homer D, Burton D, et al. (2009). Search for quantitative trait loci affecting growth and carcass traits in a cross population of beef and dairy cattle. J. Anim. Sci. 87: 24-36. Kneeland J, Li C, Basarab J, Snelling WM, et al. (2004). Identification and fine mapping of quantitative trait loci for growth traits on bovine chromosomes 2, 6, 14, 19, 21, and 23 within one commercial line of Bos taurus. J. Anim. Sci. 82: 3405-3414. Kowara R, Chen Q, Milliken M and Chakravarthy B (2005). Calpain-mediated truncation of dihydropyrimidinase-like 3 protein (DPYSL3) in response to NMDA and H2O2 toxicity. J. Neurochem. 95: 466-474. Lindholm-Perry AK, Kuehn LA, Smith TP, Ferrell CL, et al. (2012). A region on BTA14 that includes the positional candidate genes LYPLA1, XKR4 and TMEM68 is associated with feed intake and growth phenotypes in cattle (1). Anim. Genet. 43: 216-219. Maltecca C, Weigel KA, Khatib H, Cowan M, et al. (2009). Whole-genome scan for quantitative trait loci associated with birth weight, gestation length and passive immune transfer in a Holstein x Jersey crossbred population. Anim. Genet. 40: 27-34. McClure MC, Morsci NS, Schnabel RD, Kim JW, et al. (2010). A genome scan for quantitative trait loci influencing carcass, post-natal growth and reproductive traits in commercial Angus cattle. Anim. Genet. 41: 597-607. McIntyre JC, Titlow WB and McClintock TS (2010). Axon growth and guidance genes identify nascent, immature, and mature olfactory sensory neurons. J. Neurosci. Res. 88: 3243-3256. Meuwissen TH, Hayes BJ and Goddard ME (2001). Prediction of total genetic value using genome-wide dense marker maps. Genetics 157: 1819-1829. Murakami Y, Kohyama N, Kobayashi Y, Ohbayashi M, et al. (2005). Functional characterization of human monocarboxylate transporter 6 (SLC16A5). Drug Metab. Dispos. 33: 1845-1851. Nkrumah JD, Sherman EL, Li C, Marques E, et al. (2007). Primary genome scan to identify putative quantitative trait loci for feedlot growth rate, feed intake, and feed efficiency of beef cattle. J. Anim. Sci. 85: 3170-3181. Porto Neto LR, Bunch RJ, Harrison BE and Barendse W (2012). Variation in the XKR4 gene was significantly associated with subcutaneous rump fat thickness in indicine and composite cattle. Anim. Genet. 43: 785-789. Shamseldin HE, Alshammari M, Al-Sheddi T, Salih MA, et al. (2012). Genomic analysis of mitochondrial diseases in a consanguineous population reveals novel candidate disease genes. J. Med. Genet. 49: 234-241. Snelling WM, Allan MF, Keele JW, Kuehn LA, et al. (2010). Genome-wide association study of growth in crossbred beef cattle. J. Anim. Sci. 88: 837-848. Sugito K, Kawashima H, Uekusa S, Yoshizawa S, et al. (2013). Identification of aberrant methylation regions in neuroblastoma by screening of tissue-specific differentially methylated regions. Pediatr. Blood Cancer 60: 383-389. Takenoya F, Kageyama H, Shiba K, Date Y, et al. (2010). Neuropeptide W: a key player in the homeostatic regulation of feeding and energy metabolism? Ann. N.Y. Acad. Sci. 1200: 162-169. Tanaka H, Morimura R and Ohshima T (2012). Dpysl2 (CRMP2) and Dpysl3 (CRMP4) phosphorylation by Cdk5 and DYRK2 is required for proper positioning of Rohon-Beard neurons and neural crest cells during neurulation in zebrafish. Dev. Biol. 370: 223-236. Winther M, Berezin V and Walmod PS (2012). NCAM2/OCAM/RNCAM: cell adhesion molecule with a role in neuronal compartmentalization. Int. J. Biochem. Cell Biol. 44: 441-446. Yanagisawa K, Konishi H, Arima C, Tomida S, et al. (2010). Novel metastasis-related gene CIM functions in the regulation of multiple cellular stress-response pathways. Cancer Res. 70: 9949-9958. Zhang H, Wang Z, Wang S and Li H (2012). Progress of genome wide association study in domestic animals. J. Anim. Sci. Biotechnol. 3: 26. Attribution-NonCommercial-ShareAlike 4.0 International http://creativecommons.org/licenses/by-nc-sa/4.0/ application/pdf application/pdf Colombia ResearchGate Genetics and Molecular Research; Vol. 13, Núm. 3 (2014): Genetics and Molecular Research (Aug.);p. 6420-6432. |