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Identification and Analysis of Novel Transcripts and Promoters in the Human Killer Cell Immunoglobulin-like Receptor (KIR ) Genes

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Natural Killer Cell Protocols

Part of the book series: Methods in Molecular Biology ((MIMB,volume 612))

Abstract

This chapter describes the techniques our lab has used to find the multiple promoters present in individual KIR genes. Our previous studies in the murine Ly49 gene family led us to expect the presence of distal promoters, antisense transcripts, and bi-directional promoters in the KIR gene cluster. We present here all of the techniques used to systematically determine if a gene possesses these types of control elements.

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References

  1. Lanier, L. L. (2005) NK cell recognition. Annu Rev Immunol 23, 225–274.

    Article  CAS  PubMed  Google Scholar 

  2. Moretta, L., and Moretta, A. (2004) Killer immunoglobulin-like receptors. Curr Opin Immunol 16, 626–633.

    Article  CAS  PubMed  Google Scholar 

  3. Parham, P. (2005) MHC class I molecules and KIRs in human history, health and survival. Nat Rev Immunol 5, 201–214.

    Article  CAS  PubMed  Google Scholar 

  4. Yokoyama, W. M., and Plougastel, B. F. (2003) Immune functions encoded by the natural killer gene complex. Nat Rev Immunol 3, 304–316.

    Article  CAS  PubMed  Google Scholar 

  5. Moretta, A., Bottino, C., Pende, D., Tripodi, G., Tambussi, G., Viale, O., Orengo, A., Barbaresi, M., Merli, A., Ciccone, E., and Moretta, L. (1990) Identification of four subsets of human CD3-CD16+ natural killer (NK) cells by the expression of clonally distributed functional surface molecules: correlation between subset assignment of NK clones and ability to mediate specific alloantigen recognition. J Exp Med 172, 1589–1598.

    Article  CAS  PubMed  Google Scholar 

  6. Valiante, N. M., Uhrberg, M., Shilling, H. G., Lienert-Weidenbach, K., Arnett, K. L., DʹAndrea, A., Phillips, J. H., Lanier, L. L., and Parham, P. (1997) Functionally and structurally distinct NK cell receptor repertoires in the peripheral blood of two human donors. Immunity 7, 739–751.

    Article  CAS  PubMed  Google Scholar 

  7. Held, W., and Kunz, B. (1998) An allele-specific, stochastic gene expression process controls the expression of multiple Ly49 family genes and generates a diverse, MHC-specific NK cell receptor repertoire. Eur J Immunol 28, 2407–2416.

    Article  CAS  PubMed  Google Scholar 

  8. Raulet, D. H., Vance, R. E., and McMahon, C. W. (2001) Regulation of the natural killer cell receptor repertoire. Annu Rev Immunol 19, 291–330.

    Article  CAS  PubMed  Google Scholar 

  9. Parham, P. (2006) Taking license with natural killer cell maturation and repertoire development. Immunol Rev 214, 155–160.

    Article  CAS  PubMed  Google Scholar 

  10. Saleh, A., Davies, G. E., Pascal, V., Wright, P. W., Hodge, D. L., Cho, E. H., Lockett, S. J., Abshari, M., and Anderson, S. K. (2004) Identification of probabilistic transcriptional switches in the Ly49 gene cluster: a eukaryotic mechanism for selective gene activation. Immunity 21, 55–66.

    Article  CAS  PubMed  Google Scholar 

  11. Pascal, V., Stulberg, M. J., and Anderson, S. K. (2006) Regulation of class I major histocompatibility complex receptor expression in natural killer cells: one promoter is not enough! Immunol Rev 214, 9–21.

    Article  CAS  PubMed  Google Scholar 

  12. Stulberg, M. J., Wright, P. W., Dang, H., Hanson, R. J., Miller, J. S., and Anderson, S. K. (2007) Identification of distal KIR promoters and transcripts. Genes Immun 8, 124–130.

    Article  CAS  PubMed  Google Scholar 

  13. Davies, G. E., Locke, S. M., Wright, P. W., Li, H., Hanson, R.J., Miller, J. S., and Anderson, S. K. (2007) Identification of bi-directional promoters in the human KIR genes. Genes Immun 8, 245–253.

    Article  CAS  PubMed  Google Scholar 

  14. Gorman, C. M., Moffat, L. F., and Howard, B. H. (1982) Recombinant genomes which express chloramphenicol acetyltransferase in mammalian cells. Mol Cell Biol 2, 1044–1051.

    CAS  PubMed  Google Scholar 

  15. Wood, K. V. (1991) in Chemiluminescence: Current Status (Stanley, P. and Cricka, L., eds.), Wiley, New York, p. 543.

    Google Scholar 

  16. Yodoi, J., Teshigawara, K., Nikaido, T., Fukui, K., Noma, T., Honjo, T., Takigawa, M., Sasaki, M., Minato, N., Tsudo, M., Uchiyama, T., and Maeda, M. (1985) TCGF (IL 2)-receptor inducing factor(s). I. Regulation of IL 2 receptor on a natural killer-like cell line (YT cells). J Immunol 134, 1623–1630.

    CAS  PubMed  Google Scholar 

  17. Kozak, M. (1986) Point mutations define a sequence flanking the AUG initiator codon that modulates translation by eukaryotic ribosomes. Cell 44, 283.

    Article  CAS  PubMed  Google Scholar 

  18. Sharp, P. A. (1981) Speculation on RNA splicing. Cell 42, 643–646.

    Article  Google Scholar 

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Acknowledgments

This project has been funded in whole or in part with federal funds from the National Cancer Institute, National Institutes of Health, under contract N01-CO-12400. The content of this publication does not necessarily reflect the views or policies of the Department of Health and Human Services nor does mention of trade names, commercial products, or organizations imply endorsement by the US government.

This research was supported in part by the Intramural Research Program of the NIH, the National Cancer Institute, the Center for Cancer Research.

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Li, H., Wright, P.W., Anderson, S.K. (2010). Identification and Analysis of Novel Transcripts and Promoters in the Human Killer Cell Immunoglobulin-like Receptor (KIR ) Genes. In: Campbell, K. (eds) Natural Killer Cell Protocols. Methods in Molecular Biology, vol 612. Humana Press. https://doi.org/10.1007/978-1-60761-362-6_26

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  • DOI: https://doi.org/10.1007/978-1-60761-362-6_26

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  • Publisher Name: Humana Press

  • Print ISBN: 978-1-60761-361-9

  • Online ISBN: 978-1-60761-362-6

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