title: Worldwide genetic relationships of pigs as inferred from X chromosome SNPs.
abstract: The phylogeography of the porcine X chromosome has not been studied despite the unique characteristics of this chromosome. Here, we genotyped 59 single nucleotide polymorphisms (SNPs) in 312 pigs from around the world, representing 39 domestic breeds and wild boars in 30 countries. Overall, widespread commercial breeds showed the highest heterozygosity values, followed by African and American populations. Structuring, as inferred from FST and analysis of molecular variance, was consistently larger in the non-pseudoautosomal (NPAR) than in the pseudoautosomal regions (PAR). Our results show that genetic relationships between populations can vary widely between the NPAR and the PAR, underscoring the fact that their genetic trajectories can be quite different. NPAR showed an increased commercial-like genetic component relative to the PAR, probably because human selection processes to obtain individuals with high productive parameters were mediated by introgressing boars rather than sows.
authors.affiliation: Center for Research in Agricultural Genomics, Universitat Autònoma de Barcelona, Bellaterra, Spain.
authors.forename: W
authors.initials: W
authors.lastname: Burgos-Paz
authors.forename: C A
authors.initials: CA
authors.lastname: Souza
authors.forename: A
authors.initials: A
authors.lastname: Castelló
authors.forename: A
authors.initials: A
authors.lastname: Mercadé
authors.forename: N
authors.initials: N
authors.lastname: Okumura
authors.forename: I N
authors.initials: IN
authors.lastname: Sheremet'eva
authors.forename: L S
authors.initials: LS
authors.lastname: Huang
authors.forename: I C
authors.initials: IC
authors.lastname: Cho
authors.forename: S R
authors.initials: SR
authors.lastname: Paiva
authors.forename: S
authors.initials: S
authors.lastname: Ramos-Onsins
authors.forename: M
authors.initials: M
authors.lastname: Pérez-Enciso
mesh_terms: D000704:Analysis of Variance; D000818:Animals; D001499:Bayes Theorem; D003198:Computer Simulation; D016002:Discriminant Analysis; D005260:Female; D005787:Gene Frequency; D005828:Genetics, Population; D008297:Male; D010802:Phylogeny; D058974:Phylogeography; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D025341:Principal Component Analysis; D012737:Sex Factors; D013045:Species Specificity; D034421:Sus scrofa / Q000145:classification / Q000235:genetics*; D014960:X Chromosome / Q000235:genetics*