title: A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar.
abstract: The lack of a Near Eastern genetic signature in modern European porcine breeds indicates that, although domestic pigs from the Fertile Crescent entered Europe during the Neolithic, they were completely replaced by their European counterparts in a short window of time. Whilst the absence of such genetic signature has been convincingly demonstrated at the mitochondrial level, variation at the autosomal genomes of European and Near Eastern Sus scrofa has not been compared yet. Herewith, we have explored the genetic relationships among 43 wild boar from Europe (N = 21), Near East (N = 19) and Korea (N = 3), and 40 Iberian (N = 16), Canarian (N = 4) and Mangalitza (N = 20) pigs by using a high throughput SNP genotyping platform. After data filtering, 37,167 autosomal SNPs were used to perform population genetics analyses. A multidimensional scaling plot based on genome-wide identity-by-state pairwise distances inferred with PLINK showed that Near Eastern and European wild boar populations are genetically differentiated. Maximum likelihood trees built with TreeMix supported this conclusion i.e. an early population split between Near Eastern and European Sus scrofa was observed. Moreover, analysis of the data with Structure evidenced that the sampled Iberian, Canarian and Mangalitza pigs did not carry any autosomal signature compatible with a Near Eastern ancestry, a finding that agrees well with previous mitochondrial studies.
authors: Department of Animal Genetics, Center for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB), Universitat Autònoma de Barcelona, Bellaterra, Spain.
authors: Arianna
authors: A
authors: Manunza
authors: Ali
authors: A
authors: Zidi
authors: Seryozha
authors: S
authors: Yeghoyan
authors: Valentin Adrian
authors: VA
authors: Balteanu
authors: Teodora Crina
authors: TC
authors: Carsai
authors: Oleg
authors: O
authors: Scherbakov
authors: Oscar
authors: O
authors: Ramírez
authors: Shahin
authors: S
authors: Eghbalsaied
authors: Anna
authors: A
authors: Castelló
authors: Anna
authors: A
authors: Mercadé
authors: Marcel
authors: M
authors: Amills
mesh_terms: D000818:Animals; D033481:Chromosomes, Mammalian / Q000235:genetics*; D005060:Europe; D016678:Genome / Q000235:genetics; D060005:Genotyping Techniques / Q000379:methods*; D006579:Heterozygote; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D016013:Likelihood Functions; D008877:Middle East; D034421:Sus scrofa / Q000235:genetics*