title: Sequence variations of the locus-specific 5' untranslated regions of SLA class I genes and the development of a comprehensive genomic DNA-based high-resolution typing method for SLA-2.
abstract: The genetic diversity of the major histocompatibility complex (MHC) class I molecules of pigs has not been well characterized. Therefore, the influence of MHC genetic diversity on the immune-related traits of pigs, including disease resistance and other MHC-dependent traits, is not well understood. Here, we attempted to develop an efficient method for systemic analysis of the polymorphisms in the epitope-binding region of swine leukocyte antigens (SLA) class I genes. We performed a comparative analysis of the last 92 bp of the 5' untranslated region (UTR) to the beginning of exon 4 of six SLA classical class I-related genes, SLA-1, -2, -3, -4, -5, and -9, from 36 different sequences. Based on this information, we developed a genomic polymerase chain reaction (PCR) and direct sequencing-based comprehensive typing method for SLA-2. We successfully typed SLA-2 from 400 pigs and 8 cell lines, consisting of 9 different pig breeds, and identified 49 SLA-2 alleles, including 31 previously reported alleles and 18 new alleles. We observed differences in the composition of SLA-2 alleles among different breeds. Our method can be used to study other SLA class I loci and to deepen our knowledge of MHC class I genes in pigs.
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: H
authors.initials: H
authors.lastname: Choi
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: M T
authors.initials: MT
authors.lastname: Le
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: H
authors.initials: H
authors.lastname: Lee
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: M-K
authors.initials: MK
authors.lastname: Choi
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: H-S
authors.initials: HS
authors.lastname: Cho
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: S
authors.initials: S
authors.lastname: Nagasundarapandian
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: O-J
authors.initials: OJ
authors.lastname: Kwon
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: J-H
authors.initials: JH
authors.lastname: Kim
authors.affiliation: College of Veterinary Medicine, Konkuk University, Seoul, South Korea.
authors.forename: K
authors.initials: K
authors.lastname: Seo
authors.affiliation: Department of Swine and Poultry Science, Korea National College of Agriculture and Fisheries, Jeonju-si, South Korea.
authors.forename: J-K
authors.initials: JK
authors.lastname: Park
authors.affiliation: Department of Animal Resource and Life Science, Chungnam National University, Daejeon, South Korea.
authors.forename: J-H
authors.initials: JH
authors.lastname: Lee
authors.affiliation: Histocompatibility Laboratory, Gift of Life Michigan, Ann Arbor, MI, USA.
authors.forename: C-S
authors.initials: CS
authors.lastname: Ho
authors.affiliation: Department of Animal Biotechnology, Konkuk University, Seoul, South Korea.
authors.forename: C
authors.initials: C
authors.lastname: Park
mesh_terms: D020121:5' Untranslated Regions; D000483:Alleles; D000818:Animals; D001483:Base Sequence; D001947:Breeding; D002460:Cell Line; D016172:DNA Fingerprinting; D005091:Exons; D056426:Genetic Loci; D014644:Genetic Variation; D016678:Genome / Q000276:immunology*; D060005:Genotyping Techniques; D015395:Histocompatibility Antigens Class I / Q000145:classification / Q000235:genetics* / Q000276:immunology; D000949:Histocompatibility Antigens Class II / Q000145:classification / Q000235:genetics* / Q000276:immunology; D007438:Introns; D008969:Molecular Sequence Data; D010802:Phylogeny; D016133:Polymerase Chain Reaction; D017422:Sequence Analysis, DNA; D013552:Swine / Q000235:genetics* / Q000276:immunology
chemical_list: D020121:5' Untranslated Regions; D015395:Histocompatibility Antigens Class I; D000949:Histocompatibility Antigens Class II
keywords: direct sequencing; genotyping; major histocompatibility complex class I; swine; swine leukocyte antigens-2