International Immunology Advance Access originally published online on June 24, 2005
International Immunology 2005 17(8):1009-1021; doi:10.1093/intimm/dxh283
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Published by Oxford University Press 2005.
Global analysis of IL-2 target genes: identification of chromosomal clusters of expressed genes
1 Laboratory of Molecular Immunology, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, MD 20892-1674, USA
2 Laboratory of Cellular Oncology, Center for Cancer Research, National Cancer Institute, NIH, Bethesda, MD 20892, USA
3 Analytical Biostatistics Section, Mathematical and Statistical Computing Laboratory, Division of Computational Bioscience, Center for Information Technology, National Institutes of Health, Bethesda, MD 20892-5626, USA
4 Bioinformatics and Molecular Analysis Section, Computational Bioscience and Engineering Laboratory, Division of Computational Bioscience, Center for Information Technology, National Institutes of Health, Bethesda, MD 20892-5626, USA
5 Present address: Haartman Institute, Department of Pathology, University of Helsinki, Haartmaninkatu 3, University of Helsinki, PO Box 21, Finland
Correspondence to: W. J. Leonard; E-mail: wjl{at}helix.nih.gov
T lymphocytes play a central role in controlling adaptive immune responses. IL-2 critically regulates both T cell growth and death and is involved in maintaining peripheral tolerance, but the molecules involved in these and other IL-2 actions are only partially known. We now provide a comprehensive compendium of the genes expressed in T cells and of those regulated by IL-2 based on a combination of DNA microarrays and serial analysis of gene expression (SAGE). The newly identified IL-2 target genes include many genes previously linked to apoptosis in other cellular systems that may contribute to IL-2-dependent survival functions. We also studied the mRNA expression of known regulators of signaling pathways for their induction in response to IL-2 in order to identify potential novel positive and/or negative feedback regulators of IL-2 signaling. We show that IL-2 regulates only a limited number of these genes. These include suppressors of cytokine signaling (SOCS) 1, SOCS2, dual-specificity phosphatase (DUSP) 5, DUSP6 and non-receptor type phosphatase-7 (PTPN7). Additionally, we provide evidence that many genes expressed in T cells locate in chromosomal clusters, and that select IL-2-regulated genes are located in at least two clusters, one at 5q31, a known cytokine gene cluster, and the other at 6p21.3, a region that contains genes encoding the tumor necrosis factor (TNF) superfamily members TNF, LT-
and LT-ß.
Keywords: genomics, microarray, target gene, SAGE, interleukin-2
Transmitting editor: T. Hirano
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