New world goat populations are a genetically diverse reservoir for future use.

Western hemisphere goats have European, African and Central Asian origins, and some local or rare breeds are reported to be adapted to their environments and economically important. By-in-large these genetic resources have not been quantified. Using 50 K SNP genotypes of 244 animals from 12 goat populations in United States, Costa Rica, Brazil and Argentina, we evaluated the genetic diversity, population structure and selective sweeps documenting goat migration to the "New World". Our findings suggest the concept of breed, particularly among "locally adapted" breeds, is not a meaningful way to characterize goat populations. The USA Spanish goats were found to be an important genetic reservoir, sharing genomic composition with the wild ancestor and with specialized breeds (e.g. Angora, Lamancha and Saanen). Results suggest goats in the Americas have substantial genetic diversity to use in selection and promote environmental adaptation or product driven specialization. These findings highlight the importance of maintaining goat conservation programs and suggest an awaiting reservoir of genetic diversity for breeding and research while simultaneously discarding concerns about breed designations.

Population structure of Brazilian Crioula Lageana cattle ( Bos taurus ) breed / Estructura poblacional de la raza bovina brasileña Crioula Lageana (Bos taurus) / Estrutura populacional da raça brasileira bovina Crioula Lagenana (Bos taurus)

Abstract Background: The lack of information on population structure is one of the main obstacles to develop breeding and conservation programs for animal genetic resources. Objective: To characterize the population structure of Crioula Lageana cattle breed (Bos taurus) in order to assess its genetic diversity. Methods: Database with information of 1,638 Crioula Lageana animals, collected during 38 years, was analysed using the ENDOG v.4.4 program. Results: Effective population size ranged from 72.53 in complete generations to 143.90 in maximum generations. Inbreeding and Average Relatedness coefficients were 0.34 and 0.91%, respectively. The effective number of founders and ancestors were 29 and 28 animals, respectively, and only ten ancestors were responsible for 50% of the genetic variability of the whole population. The average generation interval was 5.84 years in the paternal line and 7.70 in the maternal one. Wright´s F statistics indicated low genetic distances between subsets in relation to the total population (Fst = 0.0015), between individuals with respect to their subpopulation (Fis = -0.0027), and between individuals in relation to the total population (Fit = -0.0012). Conclusion: Analysis of the population indicated that, despite the small number of animals with known parentage and considerable loss of genetic variability by the constant use of a few sires, and same value of number of founders and ancestors, the population showed good genetic management, low inbreeding, low genetic differentiation among subpopulations, and probably adequate effective population size for breed preservation.

Resumen Antecedentes: La falta de información sobre estructura poblacional es una de las principales barreras para el desarrollo de programas de mejoramiento genético y conservación de los recursos zoogenéticos. Objetivo: Caracterizar la estructura poblacional de la raza bovina Crioula Lageana (Bos taurus) para evaluar su diversidad genética. Métodos: Una base de datos con información de 1.638 animales Crioula Lageana (Bos taurus), recogidos durante 38 años, fue analizada utilizando el programa ENDOG v.4.4. Resultados: El tamaño efectivo de la población varió de 72,53 en las generaciones completas a 143,90 en las generaciones máximas. La endogamia y la relación media de los coeficientes fue 0,34 y 0,91%, respectivamente. El número efectivo de fundadores y antepasados fue de 29 y 28 animales respectivamente, y sólo diez antepasados fueron responsables del 50% de la variabilidad genética de la población. El intervalo promedio de generación fue de 5,84 años en la línea paterna y de 7,70 en la línea materna. El índice estadístico de Wright's F indica una baja distancia genética entre los subconjuntos en relación con la población total (Fst = 0,0015), entre los individuos con respecto a su subpoblación (Fis = -0,0027), y entre los individuos en relación con la población total (Fit = -0,0012). Conclusión: El análisis de la población indica que a pesar del pequeño número de animales con origen conocido y la considerable pérdida de variabilidad genética por el uso constante de pocos toros y el mismo valor del número de fundadores y antepasados, la población mostró un buen manejo genético, baja endogamia, baja diferenciación genética entre las subpoblaciones y probablemente un tamaño efectivo adecuado de la población.

Resumo Antecedentes: A falta de informações sobre a estrutura da população está entre os principais obstáculos ao desenvolvimento de programas de melhoramento e conservação de recursos genéticos animais. Objetivo: Caracterizar a estrutura populacional da raça bovina Crioula Lageana (Bos taurus) para acessar a diversidade genética da raça. Métodos: Banco de dados com informação de 1.638 animais Crioula Lageana, recolhidos durante 38 anos, foi analisado utilizando EndoG v.4.4. Resultados: O tamanho efetivo populacional variou de 72,53 nas gerações completas para 143,90 nas gerações máximas. Coeficientes de Endogamia e Relação foram 0,34 e 0,91%, respectivamente. O número efetivo de fundadores e ancestrais foram 29 e 28 animais, respectivamente, sendo que apenas dez ancestrais foram responsáveis por 50% da variabilidade genética de toda a população. O intervalo de gerações foi de 5,84 anos para linha paterna e 7,70 para linha materna. As estatísticas F de Wright indicaram uma pequena distância genética das subpopulacoes entre os subgrupos em relação à população total (FST = 0,0015), entre os indivíduos em relação à sua subpopulação (FIS = -0,0027) e entre indivíduos em relação à população total (Fit = -0,0012). Isto indica uma baixa diferenciação genética na população estudada. Conclusão: A análise populacional indicou que, apesar do número pequeno de animais com ascendência conhecida e considerável perda de variabilidade genética pelo uso constante de alguns touros e mesmo valor do número de fundadores e antepassados, a população mostrou boa gestão genética, endogamia baixa, baixa diferenciação genética entre subpopulações e provavelmente adequado tamanho efetivo da população para a preservação da raça.

D-loop haplotype diversity in Brazilian horse breeds.

The first horses were brought to Brazil by the colonizers after 1534. Over the centuries, these animals evolved and adapted to local environmental conditions usually unsuitable for exotic breeds, thereby originating locally adapted Brazilian breeds. The present work represents the first description of maternal genetic diversity in these horse breeds based on D-loop sequences. A D-Loop HSV-I fragment of 252 bp, from 141 horses belonging to ten Brazilian breeds / genetic groups (locally adapted and specialized breeds) were analysed. Thirty-five different haplotypes belonging to 18 haplogroups were identified with 33 polymorphic sites. Haplotype diversity (varying from 0.20 to 0.96) and nucleotide diversity (varying from 0.0039 to 0.0239) was lower for locally adapted than for specialized breeds, with the same pattern observed for FST values. Haplogroups identified in Brazilian breeds are in agreement with previous findings in South American samples. The low variability observed mainly in locally adapted breeds, indicates that, to ensure conservation of these breeds, careful reproductive management is needed. Additional genetic characterization studies are required to support accurate decision-making.

D-loop haplotype diversity in Brazilian horse breeds

Abstract The first horses were brought to Brazil by the colonizers after 1534. Over the centuries, these animals evolved and adapted to local environmental conditions usually unsuitable for exotic breeds, thereby originating locally adapted Brazilian breeds. The present work represents the first description of maternal genetic diversity in these horse breeds based on D-loop sequences. A D-Loop HSV-I fragment of 252 bp, from 141 horses belonging to ten Brazilian breeds / genetic groups (locally adapted and specialized breeds) were analysed. Thirty-five different haplotypes belonging to 18 haplogroups were identified with 33 polymorphic sites. Haplotype diversity (varying from 0.20 to 0.96) and nucleotide diversity (varying from 0.0039 to 0.0239) was lower for locally adapted than for specialized breeds, with the same pattern observed for FST values. Haplogroups identified in Brazilian breeds are in agreement with previous findings in South American samples. The low variability observed mainly in locally adapted breeds, indicates that, to ensure conservation of these breeds, careful reproductive management is needed. Additional genetic characterization studies are required to support accurate decision-making.

Genetic diversity, population structure, and correlations between locally adapted zebu and taurine breeds in Brazil using SNP markers.

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.

Postpartum hormone and energy profiles and their influence on the resumption of ovarian cyclicity in Curraleiro Pé-Duro cows.

The objective of this study was to evaluate hormone and energy profiles in the postpartum period and to correlate these profiles with the resumption of ovarian cyclicity, as well as characterizing the postpartum short estrous cycle of Curraleiro Pé-Duro cows. Twelve Curraleiro Pé-Duro cows were examined via rectal palpation and ultrasound at 10 days postpartum, and subsequently examined daily to evaluate the resumption of ovarian cyclicity as well as every five days in order to evaluate uterine involution. Upon analysis of the data, it was possible to observe the formation of two distinct groups, one of which was comprised of those animals which returned to cyclicity within 60 days postpartum and another comprised of those animals which returned to cyclicity more than 105 days postpartum. Therefore, animals were divided into two groups; precocious, designated Ov Group, and delayed, designated NOv Group, wherein the cut-off time for all tests was 60 days postpartum. Statistically significant differences (P < 0.01) between the groups occurred only regarding the day of 1st ovulation, which in the Ov Group averaged 51.4 ± 9.3 days and in the NOv Group averaged 138.3 ± 19.8 days postpartum. The other postpartum short estrous cycle variables assessed did not show statistically significant differences (P > 0.05) between the groups. NEFA, BHBA and thyroxine concentration levels did not differ (P > 0.05) between the groups in any of the statistical analyses. However, in the analysis comparing growth curves, triglycerides levels were higher for the Ov Group (P = 0.04) and cholesterol levels were higher for the NOv Group (P = 0.02). In this experiment, a small influence of a negative energy balance between the groups was observed, suggesting that these animals can present significant genetic variability due to natural selection, as evidenced by the formation of groups of animals with precocious and delayed reproductive characteristics.

Transfer of passive immunity and serum proteinogram in the first six months of life of Criollo Lageano and black and white holstein calves / Transferência de imunidade passiva e proteinograma sérico de bezerros das raças Crioula lageana e Holandesa preta e branca nos primeiros seis meses de vida

The objective of this study was to evaluate and compare the transfer of passive immunity and the proteinogram in Criollo Lageano (CL) and Black and White Holstein (BWH) calves. Two groups were utilized with 13 Criollo Lageano and 10 BWH calves. Blood samples were collected for the measurement of total serum protein, electrophoresis of serum proteins, activity of the gamma glutamyl transferase, and concentration of IgG by the method of the zinc sulfate turbidity in periods between 24 and 36 hours of life, 15, 30, 60, 90, 120, 150 and 180 days. Statistical analysis was performed by ANOVA and Tukey test at 5% significance level, and correlations between variables were calculated. Variations of serum proteins followed a pattern of physiological behavior over the first six months of life and production of immunoglobulins was active earlier in BWH calves and slower in the Criollo Lageano, without causing any impact on their health. Gamma globulin in the first days of life (24-36h) was correlated with IgG (r=0.87 for CL and r=0.89 for BWH), PTS (r=0.91 for CL and r=0.92 for BWH), Glob (r=0.99 for CL and r=0.98 for BWH) and GGT (r=0.14 for CL and r=0.83 for BWH). It was concluded that there was no failure in the transfer of passive immunity in Criollo Lageano calves but this failure occurred in the BWH calves. IgG values estimated by the zinc sulfate turbidity and serum proteins were considered good indicators of the transfer of passive immunity in calves between 24 and 36 hours of life.

O objetivo do presente trabalho foi verificar e comparar a transferência de imunidade passiva e o proteinograma em bezerros da raça Crioula Lageana (CL) e Holandesa Preta e Branca (HPB). Foram utilizados dois grupos sendo 13 bezerros da raça Crioula Lageana e 10 da raça HPB. Amostras de sangue foram colhidas para a mensuração da proteína sérica total, eletroforese das proteínas séricas, atividade da gama-glutamiltransferase e concentração de IgG pelo método de turvação pelo sulfato de zinco nos períodos entre 24 e 36 horas de vida, 15, 30, 60, 90, 120, 150 e 180 dias. A análise estatística foi realizada pelo teste de ANOVA e Tukey ao nível de 5% de significância, e correlações entre as variáveis. As variações das proteínas séricas obedeceram a um padrão de comportamento fisiológico ao longo dos seis primeiros meses de vida e a produção ativa de imunoglobulinas foi mais precoce nos bezerros da raça Holandesa e mais lenta nos da raça Crioula Lageana, sem provocar qualquer impacto sobre a saúde dos mesmos. A gamaglobulina no primeiro dia de vida (24-36h) correlacionou-se com a IgG (r=0,87 CL e r=0,89 HPB), PTS (r=0,91 CL e r=0,92 HPB), Glob (r=0,99 CL e r=0,98) e GGT (r=0,14 CL e r=0,83 HPB). Conclui-se que não houve falha na transferência de imunidade passiva nos bezerros da raça Crioula Lageana e falha na raça Holandesa Preta e Branca. Os valores de IgG estimados pelo método da turvação pelo sulfato de zinco e das proteínas séricas foram bons indicadores da transferência de imunidade passiva nos bezerros entre 24 e 36 horas de vida.

Combining US and Brazilian microsatellite data for a meta-analysis of sheep (Ovis aries) breed diversity: facilitating the FAO Global Plan of Action for Conserving Animal Genetic Resources.

Microsatellites are commonly used to understand genetic diversity among livestock populations. Nevertheless, most studies have involved the processing of samples in one laboratory or with common standards across laboratories. Our objective was to identify an approach to facilitate the merger of microsatellite data for cross-country comparison of genetic resources when samples were not evaluated in a single laboratory. Eleven microsatellites were included in the analysis of 13 US and 9 Brazilian sheep breeds (N = 706). A Bayesian approach was selected and evaluated with and without a shared set of samples analyzed by each country. All markers had a posterior probability of greater than 0.5, which was higher than predicted as reasonable by the software used. Sensitivity analysis indicated no difference between results with or without shared samples. Cluster analysis showed breeds to be partitioned by functional groups of hair, meat, or wool types (K = 7 and 12 of STRUCTURE). Cross-country comparison of hair breeds indicated substantial genetic distances and within breed variability. The selected approach can facilitate the merger and analysis of microsatellite data for cross-country comparison and extend the utility of previously collected molecular markers. In addition, the result of this type of analysis can be used in new and existing conservation programs.

Body indices for the pantaneiro horse / Índices corporais para o cavalo pantaneiro

Body index measurements on 2248 horses registered by the Brazilian Association of Pantaneiro Horse Breeders (ABCCP), in the period from 1972 to 2000 were analyzed. Data was analyzed using SAS and DFREML to calculate genetic parameters. The Dactyl Thoracic Index indicated that these animals are intermediary (not light horses but not suitable for traction), while the BARON and CREVAT index confirmed this result. The Chest Index presented animals that are good for speed as they have long legs but looking at the Body index the indication was that these horses are neither suitable for speed nor traction (intermediary). The analysis of other conformation indices indicated that, in general, these horses are medilines, show good speed and chest development, making them suitable for dealing with cattle and resistance for long treks. The environmental factor analysis verified that these horses have changed in recent years possibly due to selection by the breeder which may affect their adaptive capacity.

Foram estudados índices zootécnicos de 2.248 animais registrados na Associação Brasileira de Criadores do Cavalo Pantaneiro (ABCCP), no período compreendido entre 1972 e 2000. Os dados foram analisados usando o programa SAS e o DFREML para estimação de parâmetros genéticos. Na análise dos índices corporais, o índice dáctilo torácico (IDT) apresentou animais intermediários (nem leves e nem aptos para tração). O índice de BARON e CREVAT também confirmou este resultado. Na determinação do índice peitoral (IP), os animais foram considerados, em geral, favoráveis à velocidade por apresentarem membros longos. Já no índice corporal (IC), a maioria dos animais não foi apta à velocidade e nem à tração (mediolíneos). Através da análise dos índices de conformação verificou-se que, em geral, os Pantaneiros são mediolíneos, aptos para velocidade e possuem bom desenvolvimento torácico, proporcionando velocidade na lida do gado e resistência a longas caminhadas. Na análise dos fatores ambientais, verificou-se que nos últimos anos alguns índices têm sofrido alterações, provavelmente devido à seleção já exercida pelo criador, que pode afetar a capacidade de adaptação dos cavalos.

Microsatellite based genetic diversity and relationships among ten Creole and commercial cattle breeds raised in Brazil.

BACKGROUND: Brazil holds the largest commercial cattle populations worldwide. Local cattle breeds can be classified according to their origin, as exotic or Creole. Exotic breeds imported in the last 100 years, both zebuine and taurine, currently make up the bulk of the intensively managed populations. Locally adapted Creole breeds, originated from cattle introduced by the European conquerors derive from natural selection and events of breed admixture. While historical knowledge exists on the Brazilian Creole breeds very little is known on their genetic composition. The objective of this study was to assess the levels of genetic diversity, phylogenetic relationships and patterns of taurine/zebuine admixture among ten cattle breeds raised in Brazil. RESULTS: Significant reduction of heterozygosity exists due both to within-population inbreeding and to breed differentiation in both subspecies (taurine and zebuine). For taurine breeds the number of markers that contribute to breed differentiation is larger than for zebuine. A consistently similar number of alleles was seen in both subspecies for all microsatellites. Four Creole breeds were the most genetically diverse followed by the zebuine breeds, the two specialized taurine breeds and the Creole Caracu. Pairwise genetic differentiation were all significant indicating that all breeds can be considered as genetically independent entities. A STRUCTURE based diagram indicated introgression of indicine genes in the local Creole breeds and suggested that occasional Creole introgression can be detected in some Zebuine animals. CONCLUSION: This study reports on a comprehensive study of the genetic structure and diversity of cattle breeds in Brazil. A significant amount of genetic variation is maintained in the local cattle populations. The genetic data show that Brazilian Creole breeds constitute an important and diverse reservoir of genetic diversity for bovine breeding and conservation. The genetic data was able to shed light on a number of issues related to the local breeds origin and structure. The Brazilian Creole breeds are all important and viable targets for conservation for they display peculiar traits both phenotypic and of cultural and historical nature that deserve conservation efforts.