Genomic sequence analysis of the 238-kb swine segment with a cluster of TRIM and olfactory receptor genes located, but with no class I genes, at the distal end of the SLA class I region

• Published in: Immunogenetics (New York) 2005-12, Vol.57 (11), p.864-873
• Main Authors: Ando, Asako, Shigenari, Atsuko, Kulski, Jerzy K, Renard, Christine, Chardon, Patrick, Shiina, Takashi, Inoko, Hidetoshi
• Format: Article
• Language: English
• Subjects: Amino Acids; Animals; Bacteriology; Base Composition; Chromosomes, Artificial, Bacterial; Consensus Sequence; Contig Mapping; Genes; Genomics; Histocompatibility Antigens Class I - genetics; Histocompatibility Antigens Class II; Humans; Life Sciences; Major Histocompatibility Complex - genetics; MHC class I region; Molecular Sequence Data; Non-class I genes; Olfactory receptor; Phylogeny; Physical Chromosome Mapping; Receptors, Odorant - genetics; Ring-finger-related family; Sequence Homology; Sequencing analysis; swine; Swine - genetics
• ISSN: 0093-7711; 1432-1211
• DOI: 10.1007/s00251-005-0053-6

Continuous genomic sequence has been previously determined for the swine leukocyte antigen (SLA) class I region from the TNF gene cluster at the border between the major histocompatibility complex (MHC) class III and class I regions to the UBD gene at the telomeric end of the classical class I gene cluster (SLA-1 to SLA-5, SLA-9, SLA-11). To complete the genomic sequence of the entire SLA class I genomic region, we have analyzed the genomic sequences of two BAC clones carrying a continuous 237,633-bp-long segment spanning from the TRIM15 gene to the UBD gene located on the telomeric side of the classical SLA class I gene cluster. Fifteen non-class I genes, including the zinc finger and the tripartite motif (TRIM) ring-finger-related family genes and olfactory receptor genes, were identified in the 238-kilobase (kb) segment, and their location in the segment was similar to their apparent human homologs. In contrast, a human segment (alpha block) spanning about 375 kb from the gene ETF1P1 and from the HLA-J to HLA-F genes was absent from the 238-kb swine segment. We conclude that the gene organization of the MHC non-class I genes located in the telomeric side of the classical SLA class I gene cluster is remarkably similar between the swine and the human segments, although the swine lacks a 375-kb segment corresponding to the human alpha block.