Abstract
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.
Abbreviations
- HT:
-
heterozygosity
- MHC:
-
major histocompatibility complex
- MS:
-
microsatellite
- SLA:
-
swine leukocyte antigen
- PCR:
-
polymerase chain reaction
- PIC:
-
polymorphic information content
- LD:
-
linkage disequilibrium
- LW:
-
Large White
- LR:
-
Landrace
- PC:
-
Poland China
- M:
-
Meishan
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Acknowledgements
We wish to thank Drs. Christine Renard (a former researcher in Institut National de la Recherche Agronomique Commissariat à l’énergie atomique), Kouji Tanaka, Yukari M, Shinmura, and Junichi Tottori (Japan Farm CLAWN Institute) for providing us with samples for SLA homozygous–heterozygous pigs and the Clawn miniature pigs, respectively. This study was supported by grants from an arm of the Science and Technology Agency, the Ministry of Education, Science, Sports, and Culture, Japan, the Animal Genome Research Project of the Ministry of Agriculture, Forestry and Fisheries of Japan, and the US Department of Agriculture Agricultural Research Service project funds.
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Supplementary Table 1
SLA haplotypes of SLA homozygous–heterozygous common large pig breeds and NIH and Clawn miniature pigs (137 KB)
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Ando, A., Uenishi, H., Kawata, H. et al. Microsatellite diversity and crossover regions within homozygous and heterozygous SLA haplotypes of different pig breeds. Immunogenetics 60, 399–407 (2008). https://doi.org/10.1007/s00251-008-0289-z
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DOI: https://doi.org/10.1007/s00251-008-0289-z