On the haplotype diversity along the genome in Spanish beef cattle populations

Mouresan, E. F.; González‐Rodríguez, A.; Cañas-Álvarez, Jhon J.; Díaz, Clara; Altarriba, J.; Baró, J.A.; Piedrafita, J.; Molina, A.; Toro, M. Á.; Varona, L.

doi:10.1016/j.livsci.2017.04.015

Cited by 6 publications

(5 citation statements)

References 15 publications

(17 reference statements)

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“…Next, we evaluated the relationship between the recombination rate and the relative physical position within the chromosome by averaging the c estimates for each percentile along the length of each chromosome ( Figure 4 ). The results were similar to those of Sandor et al (2012); Ma et al (2015), and Shen et al (2018) in the bovine specie and to the results of haplotype diversity measured in the same populations (Mouresan et al, 2017). In cattle, all autosomal chromosomes are acrocentric (Popescu, 1990) and, in our study, the recombination rate was lowest at the beginning of the chromosome, near the centromere.…”

Section: Resultssupporting

confidence: 88%

“…The genomic data comprised the BovineHD Genotyping Beadchip (777,962 SNPs, Illumina) genotypes from 171 non-related triplets of sire, dam, and one offspring from seven breeds, being 25 Asturiana de los Valles (AV), 24 Avileña - Negra Ibérica (ANI), 25 Bruna dels Pirineus (BP), 25 Morucha (Mo), 24 Pirenaica (Pi), 24 Retinta (Re), and 24 Rubia Gallega (RG) triplets. This dataset has been used to analyze genetic differentiation (Cañas-Álvarez et al, 2015; Cañas-Álvarez et al, 2016; González-Rodríguez et al, 2017), signatures of selection (González-Rodríguez et al, 2016), and haplotype diversity (Mouresan et al, 2017). These breeds represent 72% of the total census of local beef breeds in Spain (Ministerio de Medio Ambiente y Medio Rural y Marino, 2010) and their production systems are extensive or semi-extensive.…”

Section: Methodsmentioning

confidence: 99%

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Mapping Recombination Rate on the Autosomal Chromosomes Based on the Persistency of Linkage Disequilibrium Phase Among Autochthonous Beef Cattle Populations in Spain

et al. 2019

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In organisms with sexual reproduction, genetic diversity, and genome evolution are governed by meiotic recombination caused by crossing-over, which is known to vary within the genome. In this study, we propose a simple method to estimate the recombination rate that makes use of the persistency of linkage disequilibrium (LD) phase among closely related populations. The biological material comprised 171 triplets (sire/dam/offspring) from seven populations of autochthonous beef cattle in Spain (Asturiana de los Valles, Avileña-Negra Ibérica, Bruna dels Pirineus, Morucha, Pirenaica, Retinta, and Rubia Gallega), which were genotyped for 777,962 SNPs with the BovineHD BeadChip. After standard quality filtering, we reconstructed the haplotype phases in the parental individuals and calculated the LD by the correlation -r- between each pair of markers that had a genetic distance < 1 Mb. Subsequently, these correlations were used to calculate the persistency of LD phase between each pair of populations along the autosomal genome. Therefore, the distribution of the recombination rate along the genome can be inferred since the effect of the number of generations of divergence should be equivalent throughout the genome. In our study, the recombination rate was highest in the largest chromosomes and at the distal portion of the chromosomes. In addition, the persistency of LD phase was highly heterogeneous throughout the genome, with a ratio of 25.4 times between the estimates of the recombination rates from the genomic regions that had the highest (BTA18-7.1 Mb) and the lowest (BTA12-42.4 Mb) estimates. Finally, an overrepresentation enrichment analysis (ORA) showed differences in the enriched gene ontology (GO) terms between the genes located in the genomic regions with estimates of the recombination rate over (or below) the 95th (or 5th) percentile throughout the autosomal genome.

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Section: Resultssupporting

confidence: 88%

Section: Methodsmentioning

confidence: 99%

Mapping Recombination Rate on the Autosomal Chromosomes Based on the Persistency of Linkage Disequilibrium Phase Among Autochthonous Beef Cattle Populations in Spain

et al. 2019

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“…The RG breed is one of the most important local cattle breeds in Spain [ 34 ] and has a good meat yield (>80%); unlike other cattle breeds, it produces light meat that is well valued on the market [ 35 ]. The AV breed is a late-maturing breed with a high growth rate, high muscle percentage, and low-fat content [ 36 , 37 , 38 , 39 ]. The RE breed is rustic and has adapted to extensive production systems in the dehesa ecosystem (free-range).…”

Section: Introductionmentioning

confidence: 99%

Assessment of Stress by Serum Biomarkers in Calves and Their Relationship to Ultimate pH as an Indicator of Meat Quality

García-Torres

Vaca

Tejerina

et al. 2021

Animals

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Seventy-eight calves from Asturiana de los Valles, Retinta, and Rubia Gallega breeds, under extensive and intensive farm systems and animal mixing and non-mixing conditions, and during the transport and lairage in slaughterhouses, were studied. This research aimed to study the effect of breed, farm system and mixing conditions on serum biomarkers (cortisol, lactate, glucose, serum amyloid A, haptoglobin, and C-reactive protein) and their relationship pHu at slaughter time, and to evaluate the response of the serum biomarkers of calves throughout fattening period. Moreover, this study aims to evaluate the response of the biomarkers in each breed during the fattening period. At slaughter time, cortisol and lactate were affected by BreedxFarm; Retinta showed the opposite pattern to the others and revealed the highest glucose in extensive farm systems. Rubia Gallega in mixing revealed the highest Amyloid A and haptoglobin. Extensive calves in mixing conditions showed the highest glucose. There was a relationship among the variables cortisol, lactate, Amyloid, and pHu. Slaughter time was a major stressor, and the stress response was mainly affected by breed. At slaughter, several biomarkers should be considered.

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“…Among them, Asturiana de los Valles (AV), Retinta (RE), and Rubia Gallega (RG) are important local cattle breeds to produce meat. According to phylogenetic studies [3,4] the Spanish cattle breeds encompass two main groups: one group includes the RE and the other one contains the RG, while AV occupies an intermediate position. Carcass and meat quality from these breeds have been widely studied under different production systems [5][6][7][8][9][10][11][12] However, there are few papers which compare these breeds in terms of meat quality traits, and little is available on sensory and flavor characteristics of these three breeds, with two exceptions [8,13].…”

Section: Introductionmentioning

confidence: 99%

Sensory and Physicochemical Analysis of Meat from Bovine Breeds in Different Livestock Production Systems, Pre-Slaughter Handling Conditions, and Ageing Time

López‐Pedrouso

Rodríguez-Vázquez

Purriños

et al. 2020

Foods

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Different bovine breeds and production systems are used worldwide, giving rise to differences in intrinsic and extrinsic characteristics of beef. In order to meet the consumer requirements, new approaches are currently being developed to guarantee tenderness, taste, and juiciness of beef. However, the final consumer perception is complex, and it is also affected by several interrelated variables. This study aimed to evaluate the physicochemical parameters and sensory profile of three Spanish cattle breeds under different livestock production systems (extensive and intensive) and pre-slaughter handling conditions (mixing and not mixing with unfamiliar individuals at pre-mortem time). Meat samples from each group were also studied at different ageing times (7 and 14 days). Regarding sensory attributes, twelve panelists assessed meat samples and an exhaustive statistical analysis was carried out. The most evident and strongest effect was the breed type, allowing a great differentiation among them using principal components and discriminant analysis. The livestock production system was the second most important parameter, significantly affecting odor, flavor, and textural profile (fibrousness). It can be concluded that there were marked differences in the traits of these beef that could be modified by other factors in order to fulfill consumer tastes.

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On the haplotype diversity along the genome in Spanish beef cattle populations

Cited by 6 publications

References 15 publications

Mapping Recombination Rate on the Autosomal Chromosomes Based on the Persistency of Linkage Disequilibrium Phase Among Autochthonous Beef Cattle Populations in Spain

Mapping Recombination Rate on the Autosomal Chromosomes Based on the Persistency of Linkage Disequilibrium Phase Among Autochthonous Beef Cattle Populations in Spain

Assessment of Stress by Serum Biomarkers in Calves and Their Relationship to Ultimate pH as an Indicator of Meat Quality

Sensory and Physicochemical Analysis of Meat from Bovine Breeds in Different Livestock Production Systems, Pre-Slaughter Handling Conditions, and Ageing Time

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