Microsatellite diversity and crossover regions within homozygous and heterozygous SLA haplotypes of different pig breeds.
Our aim was to investigate microsatellite (MS) diversity and find crossover regions at 42 polymorphic MS loci in the swine leukocyte antigen (SLA) genomic region of 72 pigs with different well-defined homozygous and heterozygous SLA haplotypes. We analyzed the genetic polymorphisms of 42 MS markers in 23 SLA homozygous-heterozygous, common pig breeds with 12 SLA serological haplotypes and 49 National Institutes of Health (NIH) and Clawn homozygous-heterozygous miniature pigs with nine SLA serological or genotyped haplotypes including four recombinant haplotypes. In comparing the same and different haplotypes, both haplospecific patterns and allelic variations were observed at the MS loci. Some of the shared haplotype blocks extended over 2 Mb suggesting the existence of strong linkage disequilibrium (LD) in the entire SLA region. Crossover regions were easily defined by the MS markers within the class I and/or III region in the NIH and Clawn recombinant haplotypes. The present haplotype comparison shows that our set of MS markers provides a fast and cost-efficient alternative, or complementary, method to the serological or sequence-based determination of the SLA alleles for the characterization of SLA haplotypes and/or the crossover regions between different haplotypes.
Ando
Asako
A
Department of Molecular Life Science, Division of Basic Medical Science and Molecular Medicine, Tokai University School of Medicine, 143 Shimokasuya, Isehara, Kanagawa 259-1193, Japan.
Uenishi
Hirohide
H
Kawata
Hisako
H
Tanaka-Matsuda
Maiko
M
Shigenari
Atsuko
A
Flori
Laurence
L
Chardon
Patrick
P
Lunney
Joan K
JK
Kulski
Jerzy K
JK
Inoko
Hidetoshi
H
D000818:Animals; D006239:Haplotypes; D006579:Heterozygote; D015395:Histocompatibility Antigens Class I / Q000235:genetics* / Q000276:immunology; D000949:Histocompatibility Antigens Class II; D006720:Homozygote; D015810:Linkage Disequilibrium; D018895:Microsatellite Repeats; D011110:Polymorphism, Genetic; D013045:Species Specificity; D034421:Sus scrofa / Q000235:genetics* / Q000276:immunology
D015395:Histocompatibility Antigens Class I; D000949:Histocompatibility Antigens Class II; C438668:swine leukocyte antigen