Genetic diversity and demographic structure of the endangered Sorraia horse breed assessed through pedigree analysis

Pinheiro, M.F.; Kjöllerström, H.J.; Oom, María do Mar

doi:10.1016/j.livsci.2012.11.017

Cited by 20 publications

(16 citation statements)

References 33 publications

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“…For example, mean inbreeding estimated for the Spanish Arab Horse was 7 % (Cervantes et al, 2008), which corresponds to our result for Polish primitive horse, whereas inbreeding reported for Greek Skyros and Lipizzan horses (Avdi and Banos, 2008;Curik et al, 2003) was higher (11 and 10.3 %, respectively) than observed in our study for Polish primitive horse and Hucul breeds. Interestingly, recent study by Pinheiro et al (2013) regarding genetic diversity of the Sorraia breed (which can be considered as an Iberian analogue of the Polish primitive horse) showed an extremely high values (26.99 %) of mean inbreeding. Both breeds analysed in the current study had the highest value of inbreeding rate in 1982 and between 1989 and 1993, when it was around 0.5 % per year.…”

Section: Resultsmentioning

confidence: 99%

Genetic diversity in Hucul and Polish primitive horse breeds

et al. 2015

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Abstract. Pedigree and molecular data were used to evaluate genetic diversity in the Polish populations of the Polish primitive horse (also known as Polish Konik) and Hucul breeds over the time period of 30 years . Based on genotypes in 12 microsatellite loci (for 3865 Polish primitive horses and 1627 Huculs), as well as on pedigree data derived from over 7000 individuals (both breeds), several indices describing structure of the analysed populations were estimated. For both analysed breeds, we observed an increasing trend of inbreeding since 1980 which seems to be much more stable (oscillating around 10 % in the Polish primitive horse and 5 % in Hucul) since the beginning of 2000s when they were included in conservation programs in Poland. We observed that generally, indices related to genetic diversity are higher in the Hucul breed. Our study indicated that genetic diversity in the Polish primitive horse and Hucul breeds in Poland is still relatively high and conservation programs should be continued to keep it on the "safe" level in the future.

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Section: Resultsmentioning

confidence: 99%

Genetic diversity in Hucul and Polish primitive horse breeds

et al. 2015

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“…The studies on genetic variability of populations have been conducted using pedigree analysis or genetic markers. Pedigree information provides a useful tool for conservation programs to maintain genetic variability and minimize inbreeding (Pinheiro et al, 2013;Santana et al, 2016;Sheikhlou and Abbasi et al ., 2016).…”

Section: Introductionmentioning

confidence: 99%

Evaluation of the Romosinuano cattle population structure in Mexico using pedigree analysis

Núñez-Domínguez

Martínez-Rocha

Hidalgo-Moreno

et al. 2020

Rev Colom Cienc Pecua

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Background: Romosinuano cattle breed in Mexico has endured isolation and it is necessary to characterize it in order to facilitate sustainable genetic management. Objective: To assess the evolution of the structure and genetic diversity of the Romosinuano breed in Mexico, through pedigree analysis. Methods: Pedigree data was obtained from Asociación Mexicana de Criadores de Ganado Romosinuano y Lechero Tropical (AMCROLET). The ENDOG program (4.8 version) was used to analyze two datasets, one that includes upgrading from F1 animals (UP) and the other with only straight-bred cattle (SP). For both datasets, three reference populations were defined: 1998-2003 (RP1), 2004-2009 (RP2), and 2010-2017 (RP3). The pedigree included 3,432 animals in UP and 1,518 in SP. Demographic parameters were: Generation interval (GI), equivalent number of generations (EG), pedigree completeness index (PCI), and gene flow among herds. Genetic parameters were: Inbreeding (F) and average relatedness (AR) coefficients, effective population size (Nec), effective number of founders and ancestors, and number of founder genome equivalents. Results: The GI varied from 6.10 to 6.54 for UP, and from 6.47 to 7.16 yr for SP. The EG of the UP and SP improved >63% from RP1 to RP3. The PCI increased over time. No nucleus or isolated herds were found. For RP3, F and AR reached 2.08 and 5.12% in the UP, and 2.55 and 5.94% in the SP. For RP3, Nec was 57 in the UP and 45 in the SP. Genetic diversity losses were attributed mainly (>66%) to genetic drift, except for RP3 in the SP (44%). Conclusions: A reduction of the genetic diversity has been occurring after the Romosinuano breed association was established in Mexico, and this is mainly due to random loss of genes.Keywords: effective population size; gene flow; genetic diversity; genetic drift; generation interval; inbreeding; pedigree; population structure; probability of gene origin; Romosinuano cattle. Resumen Antecedentes: La raza bovina Romosinuano ha estado prácticamente aislada en México y requiere ser caracterizada para un manejo genético sostenible. Objetivo: Evaluar la evolución de la estructura y diversidad genética de la raza Romosinuano en México, mediante el análisis del pedigrí. Métodos: Los datos genealógicos provinieron de la Asociación Mexicana de Criadores de Ganado Romosinuano y Lechero Tropical (AMCROLET). Los análisis se realizaron con el programa ENDOG (versión 4.8) para dos bases de datos, una que incluyó animales en cruzamiento absorbente (UP) a partir de F1 y la otra con sólo animales puros (SP). Para ambas bases de datos se definieron tres poblaciones de referencia: 1998-2003 (RP1), 2004- 2009 (RP2), y 2010-2017 (RP3). El pedigrí incluyó 3.432 animales en la UP y 1.518 en la SP. Los parámetros demográficos fueron: intervalo generacional (GI), número de generaciones equivalentes (EG), índice de completitud del pedigrí (PCI), y flujo de genes entre hatos. Los parámetros genéticos fueron: coeficientes de consanguinidad (F) y de relación genética aditiva (AR), tamaño efectivo de la población (Nec), número efectivo de fundadores y ancestros, y número equivalente de genomas fundadores. Resultados: El GI varió de 6,10 a 6,54 para la UP, y de 6,47 a 7,16 años para la SP. El EG de la UP y la SP mejoró >63%, de RP1 a RP3. El PCI aumentó a través de los años, pero más para la SP que para la UP. No se encontraron hatos núcleo o aislados. Para RP3, F y AR alcanzaron 2,08 y 5,12% en la UP, y 2,55 y 5,94% en la SP. Para RP3, Nec fue 57 en la UP y 45 en la SP. Más de 66% de las pérdidas en diversidad genética se debieron a deriva genética, excepto para RP3 en la UP (44%). Conclusiones: una reducción de la diversidad genética ha estado ocurriendo después de que se formó la asociación de criadores de ganado Romosinuano en México, y es debida principalmente a pérdidas aleatorias de genes.Palabras clave: consanguinidad; deriva genética; diversidad genética; estructura poblacional; flujo de genes; ganado Romosinuano; intervalo generacional; pedigrí; probabilidad de origen del gen; tamaño efectivo de población. Resumo Antecedentes: A raça bovina Romosinuano tem estado praticamente isolada no México e precisa ser caracterizada para um manejo genético sustentável. Objetivo: Avaliar a evolução da estrutura e diversidade genética da raça Romosinuano no México, através da análise de pedigree. Métodos: Os dados genealógicos vieram da Asociación Mexicana de Criadores de Ganado Romosinuano y Lechero Tropical (AMCROLET). As análises foram feitas com o programa ENDOG (versão 4.8) para duas bases de dados, uma que incluiu animais em cruzamento absorvente (UP) a partir da F1 e a outra base de dados somente com animais puros (SP). Para ambas bases de dados foram definidas três populações de referência: 1998-2003 (RP1), 2004-2009 (RP2) e 2010-2017 (RP3). O pedigree incluiu 3.432 animais na UP e 1.518 na SP. Os parâmetros demográficos foram: intervalo entre gerações (GI), número de gerações equivalentes (EG), índice de completude do pedigree (PCI), e fluxo de genes entre rebanhos. Os parâmetros genéticos foram: coeficiente de consanguinidade (F) e da relação genética aditiva (AR), tamanho efetivo da população (Nec), número efetivo de fundadores e ancestrais, e número equivalente de genomas fundadores. Resultados: O GI variou de 6,10 a 6,54 para a UP, e de 6,47 a 7,16 anos para a SP. EG da UP e a SP melhorou >63%, de RP1 a RP3. O PCI aumentou ao longo dos anos, mas mais para a SP do que para o UP. Não se encontraram rebanhos núcleo ou isolados. Para RP3, F e AR alcançaram 2,08 e 5,12% na UP, e 2,55 e 5,94% na SP. Para RP3, Nec foi 57 na UP e 45 na SP. Mais de 66% das perdas em diversidade genética foram ocasionadas pela deriva genética, exceto para RP3 no UP (44%). Conclusões: Depois que a associação da raça Romosinuano foi estabelecida no México, tem ocorrido uma redução da diversidade genética, principalmente devido a perdas aleatórias de genes.Palavras-chave: consanguinidade; deriva genética; diversidade genética, estrutura populacional; fluxo de genes; intervalo entre gerações; pedigree; probabilidade de origem do gene; Romosinuano; tamanho efetivo da população.

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“…This status of the population requires a conservation-breeding plan to establish a long-term self-sustaining population by adopting appropriate breeding strategies. The small number of founders, reduced effective population size and complete genetic isolation of the Sorraia breed, has led to extremely high levels of inbreeding, with a mean F of 0.38 in the current population (F ranging from 0.22 to 0.60) and an effective population size of 11.59 in the last 8.67 generations (Pinheiro et al, 2013). This makes the Sorraia horse a very interesting population to assess the effects of inbreeding in horses, as it exceeds the levels of inbreeding reported, e.g.…”

Section: Introductionmentioning

confidence: 99%

“…for the Lipizzan (mean F¼0.10) (Curik, 2003), the Lusitano (mean F¼0.11) (Vicente et al, 2012), Finnish Standardbred Trotters (mean F¼0.10) and Finnhorses (mean F¼0.04) (Sairanen et al, 2009) and even the endangered Przewalski horse (mean F¼0.21) (Buisman and van Weeren, 1982). Moreover, the effective number of founders is 7.46, two of the founders are no longer represented in the living population and genetic contribution of underrepresented founders is at great risk of loss (Luís et al, 2007;Pinheiro et al, 2013).…”

Section: Introductionmentioning

confidence: 99%