title: Multi-locus analysis reveals a different pattern of genetic diversity for mitochondrial and nuclear DNA between wild and domestic pigs in East Asia.
abstract: BACKGROUND
  A major reduction of genetic diversity in mtDNA occurred during the domestication of East Asian pigs. However, the extent to which genetic diversity has been lost in the nuclear genome is uncertain. To reveal levels and patterns of nucleotide diversity and to elucidate the genetic relationships and demographic history of domestic pigs and their ancestors, wild boars, we investigated 14 nuclear markers (including 8 functional genes, 2 pseudogenes and 4 intergenic regions) from 11 different chromosomes in East Asia-wide samples and pooled them with previously obtained mtDNA data for a combined analysis.
  
  
  RESULTS
  The results indicated that domestic pigs and wild boars possess comparable levels of nucleotide diversity across the nuclear genome, which is inconsistent with patterns that have been found in mitochondrial genome.
  
  
  CONCLUSIONS
  This incongruence between the mtDNA and nuclear genomes is suggestive of a large-scale backcross between male wild boars and female domestic pigs in East Asia. Our data reveal the impacts of founder effects and backcross on the pig genome and help us better understand the complex demographic histories of East Asian pigs, which will be useful for future work on artificial selection.
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Yin-Qiu
authors: YQ
authors: Ji
authors: Dong-Dong
authors: DD
authors: Wu
authors: Gui-Sheng
authors: GS
authors: Wu
authors: Guo-Dong
authors: GD
authors: Wang
authors: Ya-Ping
authors: YP
authors: Zhang
mesh_terms: D000818:Animals; D001499:Bayes Theorem; D002467:Cell Nucleus / Q000235:genetics*; D016000:Cluster Analysis; D003433:Crosses, Genetic; D004272:DNA, Mitochondrial / Q000235:genetics*; D005202:Asia, Eastern; D005260:Female; D018703:Founder Effect; D050259:Genes, Mitochondrial / Q000235:genetics; D056426:Genetic Loci / Q000235:genetics*; D005819:Genetic Markers; D014644:Genetic Variation; D005828:Genetics, Population; D005843:Geography; D015810:Linkage Disequilibrium / Q000235:genetics; D008297:Male; D008957:Models, Genetic; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics; D011157:Population Dynamics; D011995:Recombination, Genetic / Q000235:genetics; D034421:Sus scrofa / Q000235:genetics*; D013552:Swine / Q000235:genetics*
chemical_list: D004272:DNA, Mitochondrial; D005819:Genetic Markers