Analysis of the genomic region containing the tammar wallaby (Macropus eugenii) orthologues of MHC class III genes

J.G.R. Cross, G.A. Harrison, P. Coggill, S. Sims, S. Beck, J.E. Deakin, J.A. Marshall Graves

    Research output: Contribution to journalArticle

    8 Citations (Scopus)

    Abstract

    Major histocompatibility complex (MHC) molecules are central to development and regulation of the immune system in all jawed vertebrates. MHC class III cytokine genes from the tumor necrosis factor core family, including tumor necrosis factor (TNF) and lymphotoxin alpha and beta (LTA, LTB), are well studied in human and mouse. Orthologues have been identified in several other eutherian species and the cDNA sequences have been reported for a model marsupial, the tammar wallaby. Comparative genomics can help to determine gene function, to understand the evolution of a gene or gene family, and to identify potential regulatory regions. We therefore cloned the genomic region containing the tammar LTB, TNF, and LTA orthologues by "genome walking", using primers designed from known tammar sequences and regions conserved in other species. We isolated two tammar BAC clones containing all three genes. These tammar genes show similar intergenic distances and the same transcriptional orientation as in human and mouse. Gene structures and sequences are also very conserved. By comparing the tammar, human and mouse genomic sequences we were able to identify candidate regulatory regions for these genes in mammals. Full length sequencing of BACs containing the three genes has been partially completed, and reveals the presence of a number of other tammar MHC III orthologues in this region. Copyright © 2005 S. Karger AG.
    Original languageEnglish
    Pages (from-to)110-117
    Number of pages8
    JournalCytogenetic and Genome Research
    Volume111
    Issue number2
    DOIs
    Publication statusPublished - 2005

    Fingerprint

    Macropodidae
    Major Histocompatibility Complex
    Genes
    Lymphotoxin-alpha
    Tumor Necrosis Factor-alpha
    Nucleic Acid Regulatory Sequences
    Lymphotoxin-beta
    Marsupialia
    Conserved Sequence
    Electron Transport Complex III
    Regulator Genes
    Genomics
    Walking
    Vertebrates
    Mammals
    Immune System
    Complementary DNA
    Clone Cells
    Genome
    Cytokines

    Cite this

    Cross, J.G.R. ; Harrison, G.A. ; Coggill, P. ; Sims, S. ; Beck, S. ; Deakin, J.E. ; Marshall Graves, J.A. / Analysis of the genomic region containing the tammar wallaby (Macropus eugenii) orthologues of MHC class III genes. In: Cytogenetic and Genome Research. 2005 ; Vol. 111, No. 2. pp. 110-117.
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    Analysis of the genomic region containing the tammar wallaby (Macropus eugenii) orthologues of MHC class III genes. / Cross, J.G.R.; Harrison, G.A.; Coggill, P.; Sims, S.; Beck, S.; Deakin, J.E.; Marshall Graves, J.A.

    In: Cytogenetic and Genome Research, Vol. 111, No. 2, 2005, p. 110-117.

    Research output: Contribution to journalArticle

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    AU - Cross, J.G.R.

    AU - Harrison, G.A.

    AU - Coggill, P.

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    AU - Deakin, J.E.

    AU - Marshall Graves, J.A.

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    N2 - Major histocompatibility complex (MHC) molecules are central to development and regulation of the immune system in all jawed vertebrates. MHC class III cytokine genes from the tumor necrosis factor core family, including tumor necrosis factor (TNF) and lymphotoxin alpha and beta (LTA, LTB), are well studied in human and mouse. Orthologues have been identified in several other eutherian species and the cDNA sequences have been reported for a model marsupial, the tammar wallaby. Comparative genomics can help to determine gene function, to understand the evolution of a gene or gene family, and to identify potential regulatory regions. We therefore cloned the genomic region containing the tammar LTB, TNF, and LTA orthologues by "genome walking", using primers designed from known tammar sequences and regions conserved in other species. We isolated two tammar BAC clones containing all three genes. These tammar genes show similar intergenic distances and the same transcriptional orientation as in human and mouse. Gene structures and sequences are also very conserved. By comparing the tammar, human and mouse genomic sequences we were able to identify candidate regulatory regions for these genes in mammals. Full length sequencing of BACs containing the three genes has been partially completed, and reveals the presence of a number of other tammar MHC III orthologues in this region. Copyright © 2005 S. Karger AG.

    AB - Major histocompatibility complex (MHC) molecules are central to development and regulation of the immune system in all jawed vertebrates. MHC class III cytokine genes from the tumor necrosis factor core family, including tumor necrosis factor (TNF) and lymphotoxin alpha and beta (LTA, LTB), are well studied in human and mouse. Orthologues have been identified in several other eutherian species and the cDNA sequences have been reported for a model marsupial, the tammar wallaby. Comparative genomics can help to determine gene function, to understand the evolution of a gene or gene family, and to identify potential regulatory regions. We therefore cloned the genomic region containing the tammar LTB, TNF, and LTA orthologues by "genome walking", using primers designed from known tammar sequences and regions conserved in other species. We isolated two tammar BAC clones containing all three genes. These tammar genes show similar intergenic distances and the same transcriptional orientation as in human and mouse. Gene structures and sequences are also very conserved. By comparing the tammar, human and mouse genomic sequences we were able to identify candidate regulatory regions for these genes in mammals. Full length sequencing of BACs containing the three genes has been partially completed, and reveals the presence of a number of other tammar MHC III orthologues in this region. Copyright © 2005 S. Karger AG.

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