1
|
Assessment of genetic diversity and population structure of Colombian Creole cattle using microsatellites. Trop Anim Health Prod 2021; 53:122. [PMID: 33443652 DOI: 10.1007/s11250-021-02563-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2020] [Accepted: 01/05/2021] [Indexed: 10/22/2022]
Abstract
To establish the diversity, structure, and phylogenetic relationships among Colombian Creole cattle, six native breeds and one introduced breed were genotyped for 20 microsatellite loci. The average number of alleles per breed ranged from 7050 (Romosinuano) to 10,100 (Casanareño), and the expected heterozygosity ranged from 0.691 (San martinero) to 0.785 (Casanareño). The deviation from the Hardy-Weinberg equilibrium (HWE) was statistically significant (p < 0.05) in 59 out of 120 tests carried out in the six breeds for the 20 microsatellite loci analyzed. Colombian Creole bovine breeds have maintained a high level of genetic differentiation within the same populations (93%), and the rest is explained by differences between breeds (7%). The differentiation pattern and the genetic relationships between the Colombian Creole bovine breeds showed high consistency with the evolutionary history of each. Both the Bayesian grouping analysis and the neighbor-joining tree exhibited a reliable grouping pattern, which revealed two main groups: one comprised by the breeds Blanco Orejinegro, Hartón del Valle, Costeño Con Cuernos, Romosinuano, and San Martinero, and the other one by the Creole breed Casanareño and Zebu. These were probably caused by different historical, reproductive, and geographic isolation precedents, as well as by different levels of inbreeding. This study will help understand the genetic characteristics of Colombian Creole cattle and will benefit future conservation programs.
Collapse
|
2
|
Delgado Bermejo JV, Barba Capote CJ, Aguirre Riofrío EL, Cabezas Congo R, Cevallos Falquez OF, Rizzo Zamora LG, Vargas Burgos JC, Navas González FJ, Álvarez Franco LÁ, Biobovis C, Martínez Martínez A. Molecular inference in the colonization of cattle in Ecuador. Res Vet Sci 2020; 132:357-368. [PMID: 32739684 DOI: 10.1016/j.rvsc.2020.07.011] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2020] [Revised: 07/12/2020] [Accepted: 07/20/2020] [Indexed: 12/18/2022]
Abstract
The aim of the present paper was to evaluate genetic diversity within and among Ecuadorian bovine breeds using microsatellite markers. The genetic identity and the exotic influences from taurine or zebuine cosmopolitan breeds on Macabea, Loja, Santa Elena, Manabí and Isla de Puná breeds were evaluated. Twenty-eight microsatellite markers were tested across 254 individuals belonging to the five Ecuadorian populations to investigate intra and inter population genetic diversity levels. Nineteen markers in common with a set of 1595 samples of 35 previously typed breeds were used to determine the potential origin of Ecuadorian bovine breeds and to identify and quantify their genetic relationships. The findings of FIS > FST (0.0814 > 0.0499), even in the context of low but significant FST values, may be indicative of the intrapopulation origin of the variability of allelic frequencies across populations. Conclusively, the study of genetic distances and population structure suggested the origin of Ecuadorian populations may likely stem from Southern Spanish breeds, with no significant recent influence from cosmopolitan Taurine or Zebuine breeds. These findings may provide a solid basis for the demonstration of an Ecuadorian breeds identity in the framework of the genetic conservation of the American creole populations.
Collapse
Affiliation(s)
| | - Cecilio José Barba Capote
- Department of Animal Production, Faculty of Veterinary Sciences, University of Córdoba, Córdoba, Spain
| | | | - Ronald Cabezas Congo
- Facultad de Ciencias Pecuarias, Universidad Técnica Estatal de Quevedo, Mocache, Los Ríos, Ecuador
| | | | | | | | | | | | | | | |
Collapse
|
3
|
Rahal O, Aissaoui C, Ata N, Yilmaz O, Cemal I, Ameur Ameur A, Gaouar SBS. Genetic characterization of four Algerian cattle breeds using microsatellite markers. Anim Biotechnol 2020; 32:699-707. [PMID: 32248741 DOI: 10.1080/10495398.2020.1746321] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
Cattle plays a very important role in agriculture and food security in Algeria. In the present study, the genetic diversity and structure of Algerian indigenous cattle populations were evaluated by microsatellite markers. A total of 138 individuals belonging to four cattle breed populations were characterized using 22 microsatellite markers. A total of 360 alleles was detected across studied all loci. Results obtained for the mean number of alleles (16.36), expected heterozygosity (0.84) and polymorphic information content (0.82) indicated that the total analyzed populations are characterized by noticeable genetic variability. It can be said that there is a low genetic differentiation in the cattle populations studied considering obtained mean FST value (0.039). It was revealed 97.10% of the total genetic variation can be explained by genetic differences among individuals while 2.90% among populations. The structure, factorial correspondence analysis results and dendrogram showed that cattle populations studied are clustered in three groups. The present study has revealed an important knowledge about the genetic diversity and the relationship between some native cattle breeds raised in Algeria. The results showed that the breeds studied have a high genetic diversity. Moreover, it can be said that microsatellite markers used can be successfully used to determine genetic diversity and population structure in Algerian cattle breeds.
Collapse
Affiliation(s)
- O Rahal
- Department of Agronomic Sciences, El-Taref, Algeria.,Biotechnology Research Center, Constantine, Algeria
| | - C Aissaoui
- Department of Agronomic Sciences, El-Taref, Algeria
| | - N Ata
- Department of Animal Science, Faculty of Agriculture, Adnan Menderes University, Aydin, Turkey
| | - O Yilmaz
- Department of Animal Science, Faculty of Agriculture, Adnan Menderes University, Aydin, Turkey
| | - I Cemal
- Department of Animal Science, Faculty of Agriculture, Adnan Menderes University, Aydin, Turkey
| | - A Ameur Ameur
- PpBioNut Laboratory, University Abou Bekr Belkaid, Tlemcen, Algeria
| | - S B S Gaouar
- PpBioNut Laboratory, University Abou Bekr Belkaid, Tlemcen, Algeria
| |
Collapse
|
4
|
Campos BM, do Carmo AS, do Egito AA, da Mariante AS, do Albuquerque MSM, de Gouveia JJS, Malhado CHM, Verardo LL, da Silva MVGB, Carneiro PLS. Genetic diversity, population structure, and correlations between locally adapted zebu and taurine breeds in Brazil using SNP markers. Trop Anim Health Prod 2017; 49:1677-1684. [PMID: 28808902 DOI: 10.1007/s11250-017-1376-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2017] [Accepted: 08/02/2017] [Indexed: 12/28/2022]
Abstract
Genetic diversity is one of the most important issues in studies on conservation of cattle breeds and endangered species. The objective of this study was to estimate the levels of genetic differentiation between locally adapted taurine (Bos taurus taurus) and zebu (Bos taurus indicus) breeds in Brazil, which were genotyped for more than 777,000 SNPs. The fixation index (F ST), principal component analysis (PCA), and Bayesian clustering were estimated. The F ST highlighted genetic differentiation between taurine and zebu breeds. The taurine lines, Caracu and Caracu Caldeano, had significant genetic differentiation (F ST close to 5%) despite their recent selection for different uses (meat and milk). This genetic variability can be used for conservation of locally adapted animals, as well as for breeding programs on zebu breeds. Introgression of zebu in locally adapted breeds was identified, especially in Curraleiro Pé-Duro breed. The Gyr breed, however, had low breed purity at genomic level due to its very heterogeneous mixing pattern.
Collapse
Affiliation(s)
- Bárbara Machado Campos
- Graduate Program of Animal Science, Universidade Estadual do Sudoeste da Bahia, 40 Praça Primavera, Bairro Primavera, Itapetinga, Bahia, 457000-000, Brazil. .,, Crescêncio Silveira Ave., Mercadão, Box 123, Vitória da Conquista, Bahia, 45000-340, Brazil.
| | | | - Andrea Alves do Egito
- Brazilian Agricultural Research Corporation (Embrapa Genetic Resources and Biotechnology), Brasília, Distrito Federal, 70770-901, Brazil
| | - Arthur Silva da Mariante
- Brazilian Agricultural Research Corporation (Embrapa Genetic Resources and Biotechnology), Brasília, Distrito Federal, 70770-901, Brazil
| | | | | | | | - Lucas Lima Verardo
- Brazilian Agricultural Research Corporation (Embrapa Dairy Cattle), Juiz de Fora, Minas Gerais, 36038-330, Brazil
| | | | | |
Collapse
|
5
|
Villalobos-Cortés Á, Martínez A, Vega-Pla J, Delgado JV. Comparison of two geo-evolutionary analysis methods using local and cross-border bovine breeds. ITALIAN JOURNAL OF ANIMAL SCIENCE 2017. [DOI: 10.1080/1828051x.2017.1294468] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Áxel Villalobos-Cortés
- Laboratorio de Análisis y Biología Molecular Aplicada, Instituto de Investigación Agropecuaria, Panama, Panama
| | - Amparo Martínez
- Departamento de Genética, University of Cordoba, Córdoba, Spain
| | - José Vega-Pla
- Laboratorio de Investigación de las Fuerzas Armadas, Córdoba, Spain
| | | |
Collapse
|
6
|
|
7
|
Vargas J, Landi V, Martínez A, Gómez M, Camacho ME, Álvarez LÁ, Aguirre L, Delgado JV. Molecular Study of the Amazonian Macabea Cattle History. PLoS One 2016; 11:e0165398. [PMID: 27776178 PMCID: PMC5077120 DOI: 10.1371/journal.pone.0165398] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2016] [Accepted: 10/11/2016] [Indexed: 12/29/2022] Open
Abstract
Macabea cattle are the only Bos taurus breed that have adapted to the wet tropical conditions of the Amazon. This breed has integrated into the culture of the indigenous Shuar-Asuar nations probably since its origins, being one of the few European zoogenetic resources assimilated by the deep-jungle Amazon communities. Despite its potential for local endogenous sustainable development, this breed is currently endangered. The present study used molecular genetics tools to investigate the within- and between-breeds diversity, in order to characterize the breed population, define its associations with other breeds, and infer its origin and evolution. The within-breed genetic diversity showed high values, as indicated by all genetic parameters, such as the mean number of alleles (MNA = 7.25±2.03), the observed heterozygosity (Ho = 0.72±0.02) and the expected heterozygosity (He = 0.72±0.02). The between-breeds diversity analysis, which included factorial correspondence analysis, Reynolds genetic distance, neighbor-joining analysis, and genetic structure analysis, showed that the Macabea breed belongs to the group of the American Creoles, with a Southern-Spain origin. Our outcomes demonstrated that the Macabea breed has a high level of purity and null influences of exotic cosmopolitan breeds with European or Asiatic origin. This breed is an important zoogenetic resource of Ecuador, with relevant and unique attributes; therefore, there is an urgent need to develop conservation strategies for the Macabea breed.
Collapse
Affiliation(s)
- Julio Vargas
- Universidad Nacional Amazónica. Rectoría. Puyo, Ecuador
| | - Vincenzo Landi
- Departamento de Genética, Universidad de Córdoba, Córdoba, España
- Animal Breeding Consulting S.L., Parque Científico Tecnológico de Córdoba, España
- * E-mail:
| | - Amparo Martínez
- Departamento de Genética, Universidad de Córdoba, Córdoba, España
- Animal Breeding Consulting S.L., Parque Científico Tecnológico de Córdoba, España
| | - Mayra Gómez
- Departamento de Genética, Universidad de Córdoba, Córdoba, España
- Animal Breeding Consulting S.L., Parque Científico Tecnológico de Córdoba, España
| | - María Esperanza Camacho
- Instituto de Investigación y Formación Agraria y Pesquera (IFAPA), Alameda del Obispo, Córdoba, España
| | | | | | | |
Collapse
|
8
|
Villalobos-Cortés A, Martínez A, Vega-Pla JL, Landi V, Quiroz J, Marques JR, Delgado JV. Genetic Relationships Among Five Zebu Breeds Naturalized in America Accessed with Molecular Markers. ITALIAN JOURNAL OF ANIMAL SCIENCE 2016. [DOI: 10.4081/ijas.2015.3280] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
9
|
Cortés ÁV, González HR. A Preliminary Study of Solute Carrier Family Gene in Adapted Bovine Breeds of Panama. ITALIAN JOURNAL OF ANIMAL SCIENCE 2015. [DOI: 10.4081/ijas.2015.4057] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
10
|
Armstrong E, Iriarte A, Martínez AM, Feijoo M, Vega-Pla JL, Delgado JV, Postiglioni A. Genetic diversity analysis of the Uruguayan Creole cattle breed using microsatellites and mtDNA markers. GENETICS AND MOLECULAR RESEARCH 2013; 12:1119-31. [PMID: 23661437 DOI: 10.4238/2013.april.10.7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
The Uruguayan Creole cattle population (N = 600) is located in a native habitat in south-east Uruguay. We analyzed its genetic diversity and compared it to other populations of American Creole cattle. A random sample of 64 animals was genotyped for a set of 17 microsatellite loci, and the D-loop hyper-variable region of mtDNA was sequenced for 28 calves of the same generation. We identified an average of 5.59 alleles per locus, with expected heterozygosities between 0.466 and 0.850 and an expected mean heterozygosity of 0.664. The polymorphic information content ranged from 0.360 to 0.820, and the global FIS index was 0.037. The D-loop analysis revealed three haplotypes (UY1, UY2 and UY3), belonging to the European matriline group, with a haplotype diversity of 0.532. The history of the population, changes in the effective population size, bottlenecks, and genetic drift are possible causes of the genetic variability patterns that we detected.
Collapse
Affiliation(s)
- E Armstrong
- Área Genética, Departamento de Genética y Mejora Animal, Facultad de Veterinaria, Universidad de la República, Montevideo, Uruguay.
| | | | | | | | | | | | | |
Collapse
|
11
|
Martínez AM, Gama LT, Cañón J, Ginja C, Delgado JV, Dunner S, Landi V, Martín-Burriel I, Penedo MCT, Rodellar C, Vega-Pla JL, Acosta A, Álvarez LA, Camacho E, Cortés O, Marques JR, Martínez R, Martínez RD, Melucci L, Martínez-Velázquez G, Muñoz JE, Postiglioni A, Quiroz J, Sponenberg P, Uffo O, Villalobos A, Zambrano D, Zaragoza P. Genetic footprints of Iberian cattle in America 500 years after the arrival of Columbus. PLoS One 2012; 7:e49066. [PMID: 23155451 PMCID: PMC3498335 DOI: 10.1371/journal.pone.0049066] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2012] [Accepted: 10/09/2012] [Indexed: 01/14/2023] Open
Abstract
Background American Creole cattle presumably descend from animals imported from the Iberian Peninsula during the period of colonization and settlement, through different migration routes, and may have also suffered the influence of cattle directly imported from Africa. The introduction of European cattle, which began in the 18th century, and later of Zebu from India, has threatened the survival of Creole populations, some of which have nearly disappeared or were admixed with exotic breeds. Assessment of the genetic status of Creole cattle is essential for the establishment of conservation programs of these historical resources. Methodology/Principal Findings We sampled 27 Creole populations, 39 Iberian, 9 European and 6 Zebu breeds. We used microsatellite markers to assess the origins of Creole cattle, and to investigate the influence of different breeds on their genetic make-up. The major ancestral contributions are from breeds of southern Spain and Portugal, in agreement with the historical ports of departure of ships sailing towards the Western Hemisphere. This Iberian contribution to Creoles may also include some African influence, given the influential role that African cattle have had in the development of Iberian breeds, but the possibility of a direct influence on Creoles of African cattle imported to America can not be discarded. In addition to the Iberian influence, the admixture with other European breeds was minor. The Creoles from tropical areas, especially those from the Caribbean, show clear signs of admixture with Zebu. Conclusions/Significance Nearly five centuries since cattle were first brought to the Americas, Creoles still show a strong and predominant signature of their Iberian ancestors. Creole breeds differ widely from each other, both in genetic structure and influences from other breeds. Efforts are needed to avoid their extinction or further genetic erosion, which would compromise centuries of selective adaptation to a wide range of environmental conditions.
Collapse
Affiliation(s)
| | - Luis T. Gama
- L-INIA, Instituto Nacional dos Recursos Biológicos, Fonte Boa, Vale de Santarém, Portugal
- CIISA – Faculdade de Medicina Veterinária, Universidade Técnica de Lisboa, Lisboa, Portugal
| | - Javier Cañón
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad Complutense de Madrid, Madrid, Spain
| | - Catarina Ginja
- Centre for Environmental Biology, Faculty of Sciences, University of Lisbon & Molecular Biology Group, Instituto Nacional de Recursos Biológicos, INIA, Lisbon, Portugal
| | - Juan V. Delgado
- Departamento de Genética, Universidad de Córdoba, Córdoba, Spain
| | - Susana Dunner
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad Complutense de Madrid, Madrid, Spain
| | - Vincenzo Landi
- Departamento de Genética, Universidad de Córdoba, Córdoba, Spain
| | - Inmaculada Martín-Burriel
- Laboratorio de Genética Bioquímica, Facultad de Veterinaria, Universidad de Zaragoza, Zaragoza, Spain
| | - M. Cecilia T. Penedo
- Veterinary Genetics Laboratory, University of California Davis, Davis, California, United States of America
| | - Clementina Rodellar
- Laboratorio de Genética Bioquímica, Facultad de Veterinaria, Universidad de Zaragoza, Zaragoza, Spain
| | - Jose Luis Vega-Pla
- Laboratorio de Investigación Aplicada, Cría Caballar de las Fuerzas Armadas, Córdoba, Spain
- * E-mail:
| | - Atzel Acosta
- Centro Nacional de Sanidad Agropecuaria, San José de las Lajas, La Habana, Cuba
| | - Luz A. Álvarez
- Universidad Nacional de Colombia, Sede Palmira, Valle del Cauca, Colombia
| | | | - Oscar Cortés
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad Complutense de Madrid, Madrid, Spain
| | | | - Roberto Martínez
- Centro Multidisciplinario de Investigaciones Tecnológicas, Dirección General de Investigación Científica y Tecnológica, Universidad Nacional de Asunción, San Lorenzo, Paraguay
| | - Ruben D. Martínez
- Genética Animal, Facultad de Ciencias Agrarias, Universidad Nacional de Lomas de Zamora, Lomas de Zamora, Argentina
| | - Lilia Melucci
- Facultad Ciencias Agrarias, Universidad Nacional de Mar del Plata, Balcarce, Argentina
- Estación Experimental Agropecuaria Balcarce, Instituto Nacional de Tecnología Agropecuaria, Balcarce, Argentina
| | | | - Jaime E. Muñoz
- Universidad Nacional de Colombia, Sede Palmira, Valle del Cauca, Colombia
| | - Alicia Postiglioni
- Área Genética, Departamento de Genética y Mejora Animal, Facultad de Veterinaria, Universidad de la República, Montevideo, Uruguay
| | - Jorge Quiroz
- Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias, Coyoacán, México
| | - Philip Sponenberg
- Virginia-Maryland Regional College of Veterinary Medicine, Virginia Tech, Blacksburg, Virginia, United States of America
| | - Odalys Uffo
- Centro Nacional de Sanidad Agropecuaria, San José de las Lajas, La Habana, Cuba
| | - Axel Villalobos
- Instituto de Investigación Agropecuaria, Estación Experimental El Ejido, Los Santos, Panamá
| | | | - Pilar Zaragoza
- Laboratorio de Genética Bioquímica, Facultad de Veterinaria, Universidad de Zaragoza, Zaragoza, Spain
| |
Collapse
|
12
|
Delgado JV, Martínez AM, Acosta A, Alvarez LA, Armstrong E, Camacho E, Cañón J, Cortés O, Dunner S, Landi V, Marques JR, Martín-Burriel I, Martínez OR, Martínez RD, Melucci L, Muñoz JE, Penedo MCT, Postiglioni A, Quiróz J, Rodellar C, Sponenberg P, Uffo O, Ulloa-Arvizu R, Vega-Pla JL, Villalobos A, Zambrano D, Zaragoza P, Gama LT, Ginja C. Genetic characterization of Latin-American Creole cattle using microsatellite markers. Anim Genet 2011; 43:2-10. [PMID: 22221019 DOI: 10.1111/j.1365-2052.2011.02207.x] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Genetic diversity in and relationships among 26 Creole cattle breeds from 10 American countries were assessed using 19 microsatellites. Heterozygosities, F-statistics estimates, genetic distances, multivariate analyses and assignment tests were performed. The levels of within-breed diversity detected in Creole cattle were considerable and higher than those previously reported for European breeds, but similar to those found in other Latin American breeds. Differences among breeds accounted for 8.4% of the total genetic variability. Most breeds clustered separately when the number of pre-defined populations was 21 (the most probable K value), with the exception of some closely related breeds that shared the same cluster and others that were admixed. Despite the high genetic diversity detected, significant inbreeding was also observed within some breeds, and heterozygote excess was detected in others. These results indicate that Creoles represent important reservoirs of cattle genetic diversity and that appropriate conservation measures should be implemented for these native breeds in order to minimize inbreeding and uncontrolled crossbreeding.
Collapse
Affiliation(s)
- J V Delgado
- Departamento de Genética, Universidad de Córdoba, Campus Rabanales Edificio Gregor Mendel, Córdoba, Spain
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|