Nucleotide sequencing analysis of the swine 433-kb genomic segment located between the non-classical and classical SLA class I gene clusters

A. Shigenari; A. Ando; C. Renard; P. Chardon; T. Shiina; J.K. Kulski; H. Yasue; H. Inoko

doi:10.1007/s00251-003-0627-0

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Nucleotide sequencing analysis of the swine 433-kb genomic segment located between the non-classical and classical SLA class I gene clusters

Journal article

Peer reviewed

Nucleotide sequencing analysis of the swine 433-kb genomic segment located between the non-classical and classical SLA class I gene clusters

A. Shigenari, A. Ando, C. Renard, P. Chardon, T. Shiina, J.K. Kulski, H. Yasue and H. Inoko

Immunogenetics, Vol.55(10), pp.695-705

2004

DOI: https://doi.org/10.1007/s00251-003-0627-0

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Abstract

Genome analysis of the swine leukocyte antigen (SLA) region is needed to obtain information on the MHC genomic sequence similarities and differences between the swine and human, given the possible use of swine organs for xenotransplantation. Here, the genomic sequences of a 433-kb segment located between the non-classical and classical SLA class I gene clusters were determined and analyzed for gene organization and contents of repetitive sequences. The genomic organization and diversity of this swine non-class I gene region was compared with the orthologous region of the human leukocyte antigen (HLA) complex. The length of the fully sequenced SLA genomic segment was 433 kb compared with 595 kb in the corresponding HLA class I region. This 162-kb difference in size between the swine and human genomic segments can be explained by indel activity, and the greater variety and density of repetitive sequences within the human MHC. Twenty-one swine genes with strong sequence similarity to the corresponding human genes were identified, with the gene order from the centromere to telomere of HCR - SPR1 - SEEK1 - CDSN - STG - DPCR1 - KIAA1885 - TFIIH - DDR - IER3 - FLOT1 - TUBB - KIAA0170 - NRM - KIAA1949 - DDX16 - FLJ13158 - MRPS18B - FB19 - ABCFI - CAT56. The human SEEK1 and DPCR1 genes are pseudogenes in swine. We conclude that the swine non-class I gene region that we have sequenced is highly conserved and therefore homologous to the corresponding region located between the HLA-C and HLA-E genes in the human.

Details

Title: Nucleotide sequencing analysis of the swine 433-kb genomic segment located between the non-classical and classical SLA class I gene clusters
Authors/Creators: A. Shigenari (Author/Creator) - Tokai University
A. Ando (Author/Creator) - Tokai University
C. Renard (Author/Creator) - Institut National de la Recherche Agronomique
P. Chardon (Author/Creator) - Institut National de la Recherche Agronomique
T. Shiina (Author/Creator) - Tokai University
J.K. Kulski (Author/Creator) - Murdoch University
H. Yasue (Author/Creator) - Institute of Agrobiological Sciences
H. Inoko (Author/Creator) - Tokai University
Publication Details: Immunogenetics, Vol.55(10), pp.695-705
Publisher: Springer-Verlag
Identifiers: 991005545515307891
Murdoch Affiliation: School of Information Technology
Language: English
Resource Type: Journal article

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Collaboration types: Domestic collaboration; International collaboration
Citation topics: 1 Clinical & Life Sciences; 1.6 Immunology; 1.6.607 MHC Diversity
Web Of Science research areas: Genetics & Heredity; Immunology
ESI research areas: Immunology