The aim of this work was to analyse the distribution of causal and candidate mutations associated to relevant productive traits in twenty local European pig breeds. Also, the potential of the SNP panel employed for elucidating the genetic structure and relationships among breeds was evaluated. Most relevant genes and mutations associated with pig morphological, productive, meat quality, reproductive and disease resistance traits were prioritized and analyzed in a maximum of 47 blood samples from each of the breeds (Alentejana, Apulo-Calabrese, Basque, Bísara, Majorcan Black, Black Slavonian (Crna slavonska), Casertana, Cinta Senese, Gascon, Iberian, Krškopolje (Krškopoljski), Lithuanian indigenous wattle, Lithuanian White Old Type, Mora Romagnola, Moravka, Nero Siciliano, Sarda, Schwäbisch-Hällisches Schwein (Swabian Hall pig), Swallow-Bellied Mangalitsa and Turopolje). We successfully analyzed allelic variation in 39 polymorphisms, located in 33 candidate genes. Results provide relevant information regarding genetic diversity and segregation of SNPs associated to production and quality traits. Coat color and morphological trait-genes that show low level of segregation, and fixed SNPs may be useful for traceability. On the other hand, we detected SNPs which may be useful for association studies as well as breeding programs. For instance, we observed predominance of alleles that might be unfavorable for disease resistance and boar taint in most breeds and segregation of many alleles involved in meat quality, fatness and growth traits. Overall, these findings provide a detailed catalogue of segregating candidate SNPs in 20 European local pig breeds that may be useful for traceability purposes, for association studies and for breeding schemes. Population genetic analyses based on these candidate genes are able to uncover some clues regarding the hidden genetic substructure of these populations, as the extreme genetic closeness between Iberian and Alentejana breeds and an uneven admixture of the breeds studied. The results are in agreement with available knowledge regarding breed history and management, although largest panels of neutral markers should be employed to get a deeper understanding of the population’s structure and relationships.

Genetic characterization of local breeds is essential to preserve their genomic variability, to advance conservation policies and to contribute to their promotion and sustainability. Genomic diversity of twenty European local pig breeds and a small sample of Spanish wild pigs was assessed using high density SNP chips. A total of 992 DNA samples were analyzed with the GeneSeek Genomic Profiler (GGP) 70 K HD porcine genotyping chip. Genotype data was employed to compute genetic diversity, population differentiation and structure, genetic distances, linkage disequilibrium and effective population size. Our results point out several breeds, such as Turopolje, Apulo Calabrese, Casertana, Mora Romagnola and Lithuanian indigenous wattle, having the lowest genetic diversity, supported by low heterozygosity and very small effective population size, demonstrating the need of enhanced conservation strategies. Principal components analysis showed the clustering of the individuals of the same breed, with few breeds being clearly isolated from the rest. Several breeds were partially overlapped, suggesting genetic closeness, which was particularly marked in the case of Iberian and Alentejana breeds. Spanish wild boar was also narrowly related to other western populations, in agreement with recurrent admixture between wild and domestic animals. We also searched across the genome for loci under diversifying selection based on FST outlier tests. Candidate genes that may underlie differences in adaptation to specific environments and productive systems and phenotypic traits were detected in potentially selected genomic regions.

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The aim of the investigation was to determine influence of L-histidine dietary supplementation (P1 0.0%, P2 0.1%, P3 0.2% and P4 0.3%), hybrid line (Cobb 500 and Hubbard Classic) and gender on meat quality and carnosine concentration in chicken breast and thigh muscles. The research was carried out on 184 one day old broiler chickens as 4×2×2 factorial design. Chicken live weight, carcass weight, dressing percentage, absolute and relative shares of main body parts in the carcass, pHi, pHu, colour, drip loss, cooking loss and share force of breast muscle, and carnosine concentration in breast and thigh muscles were determined. L-histidine dietary supplementation significantly affected live weight, carcass weight, weight of drumsticks and thighs, backs and wings, share of back and the CIE a* value (P＜0.05), as well as the content of carnosine in breast muscle (P＝0.003). Hybrid line influenced relative shares of main body parts in the carcasses, except for wings, and the CIE a* value of breast muscle (P＜0.001). Chicken gender affected live weight of chickens, carcass weight, as well as weight of main parts (P＜0.001), except for breast. The results of the investigation showed that dietary L-histidine significantly increased carnosine content in broiler breast muscle. Cobb 500 female chickens of the P4 group had higher carnosine concentrations in breast muscle by 156.61 and male chickens by 150.49 μg/g of tissue than the control group. Cobb 500 broiler chickens deposited more carnosine in meat than Hubbard Classic broilers.

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