Identification of 40 genes on a 1-Mb contig around the IL-4 cytokine family gene cluster on mouse chromosome 11

Genomics

Volumn 63, Issue 3, 2000, Pages 354-373

  Wenderfer, Scott E ^a   Slack, Jay P ^a   McCluskey, T Scott ^a   Monaco, John J ^a  

^a UNIVERSITY OF CINCINNATI   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

INTERLEUKIN 13; INTERLEUKIN 3; INTERLEUKIN 4; INTERLEUKIN 5;

ARTICLE; CHROMOSOME 11; CHROMOSOME 5Q; EXON; GENE CLUSTER; GENE MAPPING; HUMAN; MOLECULAR CLONING; MOUSE; NONHUMAN; NORTHERN BLOTTING; PRIORITY JOURNAL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS;

BACTERIA (MICROORGANISMS); MURINAE; RODENTIA;

EID: 0034144025     PISSN: 08887543     EISSN: None     Source Type: Journal    
DOI: 10.1006/geno.1999.6100     Document Type: Article

References (77)

1. Aizawa H., Sekine Y., Takemura R., Zhang Z., Nangaku M., Hirokawa N. Kinesin family in murine central nervous system. J. Cell Biol. 119:1992;1287-1296.
2. Baker D., Rosenwasser O. A., O'Neil J. K., Turk J. L. Genetic analysis of experimental allergic encephalomyelitis in mice. J. Immunol. 155:1995;4046-4051.
3. Bates S., Rowan S., Vousden K. H. Characterization of human cyclin G1 and G2: DNA damage inducible genes. Oncogene. 13:1996;1103-1109.
4. Belhumeur P., Paterno G. D., Boileau G., Claverie J. M., Skup D. Isolation and characterization of a murine cDNA clone highly homologous to the yeast L29 ribosomal protein gene. Nucleic Acids Res. 15:1987;1019-1029.
5. Bix M., Locksley R. M. Independent and epigenetic regulation of the interleukin-4 alleles in CD4+ T cells. Science. 281:1998;1352-1354.
6. Blake, J. A, Davisson, M. T, Kadin, J. A, Richardson, J. E, Battles, J. A, Bradt, D. W, Butler, N. E, Doolittle, D. P, Grant, P. L, Krupke, D. M, Maltais, L. J, Lennon-Pierce, M, Merriam, J, Reed, D. J, Rockwood, S. F, Blackburn, R. E, Colby, G. T, Corbani, L. E, Donnelly, C. J, Gilbert, J. C, Bobish, J. J, May, M. E, Shaw, D. R, and, Eppig, J. T. 1997. Mouse Genome Database (MGD), http://www.informatics.jax.org/mgd.html .
7. Boehm U., Klamp T., Groot M., Howard J. C. Cellular responses to interferon-gamma. Annu. Rev. Immunol. 15:1997;749-795.
8. Boulay J. L., Paul W. E. The interleukin-4 family of lymphokines. Curr. Opin. Immunol. 4:1992a;294-298.
9. Boulay J. L., Paul W. E. The interleukin-4-related lymphokines and their binding to hematopoietin receptors. J. Biol. Chem. 267:1992b;20525-20528.
10. Boultwood J., Lewis S., Wainscoat J. S. The 5q-syndrome. Blood. 84:1994;3253-3260.
11. Buckler A. J., Chang D. D., Graw S. L., Brook J. D., Haber D. A., Sharp P. A., Housman D. E. Exon amplification: A strategy to isolate mammalian genes based on RNA splicing. Proc. Natl. Acad. Sci. USA. 88:1991;4005-4009.
12. Chakrabarti L., Bristulf J., Foss G. S., Davies K. E. Expression of the murine homologue of FMR2 in mouse brain and during development. Hum. Mol. Genet. 7:1998;441-448.
13. Chu C. C., Paul W. E. Expressed genes in interleukin-4 treated B cells identified by cDNA representational difference analysis. Mol. Immunol. 35:1998;487-502.
14. Church D. M., Banks L. T., Rogers A. C., Graw S. L., Housman D. E., Gusella J. F., Buckler A. J. Identification of human chromosome 9 specific genes using exon amplification. Hum. Mol. Genet. 2:1993;1915-1920.
15. Nat. Genet. 15:1997;389-392.
16. Cuppen E., Gerrits H., Pepers B., Wieringa B., Hendriks W. PDZ motifs in PTP-BL and RIL bind to internal protein segments in the LIM domain protein RIL. Mol. Biol. Cell. 9:1998;671-683.
17. De Backer O., Verheyden A. M., Martin B., Godelaine D., De Plaen E., Brasseur R., Avner P., Boon T. Structure, chromosomal location, and expression pattern of three mouse genes homologous to the human MAGE genes. Genomics. 28:1995;74-83.
18. Debernardi S., Fontanella E., De Gregorio L., Pierotti M. A., Delia D. Identification of a novel human kinesin-related gene (HK2) by the cDNA differential display technique. Genomics. 42:1997;67-73.
19. Dong J., Albertini D. F., Nishimori K., Kumar T. R., Lu N., Matzuk M. M. Growth differentiation factor-9 is required during early ovarian folliculogenesis. Nature. 383:1996;531-535.
20. Frazer K. A., Ueda Y., Zhu Y., Gifford V. R., Garofalo M. R., Mohandas N., Martin C. H., Palazzolo M. J., Cheng J. F., Rubin E. M. Computational and biological analysis of 680 kb of DNA sequence from the human 5q31 cytokine gene cluster region. Genome Res. 7:1997;495-512.
21. Gorham J. D., Guler M. L., Steen R. G., Mackey A. J., Daly M. J., Frederick K., Dietrich W. F., Murphy K. M. Genetic mapping of a murine locus controlling development of T helper 1/T helper 2 type responses. Proc. Natl. Acad. Sci. USA. 93:1996;12467-12472.
22. Gourley T., Roys S., Lukacs N. W., Kunkel S. L., Flavell R. A., Chang C. H. A novel role for the major histocompatibility complex class II transactivator CIITA in the repression of IL-4 production. Immunity. 10:1999;377-386.
23. Goyette P., Pai A., Milos R., Frosst P., Tran P., Chen Z., Chan M., Rozen R. Gene structure of human and mouse methylenetetrahydrofolate reductase (MTHFR). Mamm. Genome. 9:1998;652-656.
24. Gu Y., Nakamura T., Alder H., Prasad R., Canaani O., Cimino G., Croce C. M., Canaani E. The t(4;11) chromosome translocation of human acute leukemias fuses the ALL-1 gene, related to Drosophila trithorax, to the AF-4 gene. Cell. 71:1992;701-708.
25. Guler M. L., Gorham J. D., Dietrich W. F., Murphy T. L., Steen R. G., Parvin C. A., Fenoglio D., Grupe A., Peltz G., Murphy K. M. Tpm1, a locus controlling IL-12 responsiveness, acts by a cell-autonomous mechanism. J. Immunol. 162:1999;1339-1347.
26. Havelkova H., Krulova M., Kosarova M., Holan V., Hart A. A., Demant P., Lipoldova M. Genetic control of T-cell proliferative response in mice linked to chromosomes 11 and 15. Immunogenetics. 44:1996;475-477.
27. Hawken R. J., Broom M. F., van Stijn T. C., Lumsden J. M., Broad T. E., Maddox J. F. Mapping the ovine genes encoding IL3, IL4, IL5, and CSF2 to sheep chromosome 5q13-q15 by FISH. Mamm. Genome. 7:1996;858-859.
28. Helaakoski T., Annunen P., Vuori K., MacNeil I. A., Pihlajaniemi T., Kivirikko K. I. Cloning, baculovirus expression, and characterization of a second mouse prolyl 4-hydroxylase alpha-subunit isoform: Formation of an alpha 2 beta 2 tetramer with the protein disulfide-isomerase/beta subunit. Proc. Natl. Acad. Sci. USA. 92:1995;4427-4431.
29. Hill K. E., Dasouki M., Phillips J. A. III, Burk R. F. Human selenoprotein P gene maps to 5q31. Genomics. 36:1996;550-551.
30. Hirokawa N. Kinesin and dynein superfamily proteins and the mechanism of organelle transport. Science. 279:1998;519-526.
31. Kiani A., Viola J. P., Lichtman A. H., Rao A. Down-regulation of IL-4 gene transcription and control of Th2 cell differentiation by a mechanism involving NFAT1. Immunity. 7:1997;849-860.
32. Kim K. K., Daud A. I., Wong S. C., Pajak L., Tsai S. C., Wang H., Henzel W. J., Field L. J. Mouse RAD50 has limited epitopic homology to p53 and is expressed in the adult myocardium. J. Biol. Chem. 271:1996;29255-29264.
33. Krizman D. B., Berget S. M. Efficient selection of 3′-terminal exons from vertebrate DNA. Nucleic Acids Res. 21:1993;5198-5202.
34. Lee J. S., Campbell H. D., Kozak C. A., Young I. G. The IL-4 and IL-5 genes are closely linked and are part of a cytokine gene cluster on mouse chromosome 11. Somatic Cell Mol. Genet. 15:1989;143-152.
35. Lee J. S., Young I. G. Fine-structure mapping of the murine IL-3 and GM-CSF genes by pulsed- field gel electrophoresis and molecular cloning. Genomics. 5:1989;359-362.
36. Li B., Tournier C., Davis R. J., Flavell R. A. Regulation of IL-4 expression by the transcription factor JunB during T helper cell differentiation. EMBO J. 18:1999;420-432.
37. Liao X., Ma C., Trask B., Massa H., Gilbert D. J., Staudt L. M., Jenkins N. A., Copeland N. G. LAF4 maps to mouse chromosome 1 and human chromosome 2q11.2-q12. Mamm. Genome. 7:1996;467-468.
38. Lock L. F., Wickramasinghe D., Ernst M. K., Gilbert D. J., Copeland N. G., Jenkins N. A., Donovan P. J. The Cdc25 genes map to mouse chromosomes 2, 9, and 18. Mamm. Genome. 7:1996;771-772.
39. Longtine M. S., DeMarini D. J., Valencik M. L., Al-Awar O. S., Fares H., De Virgilio C., Pringle J. R. The septins: Roles in cytokinesis and other processes. Curr. Opin. Cell Biol. 8:1996;106-119.
40. Maeda Y. Y., Takahama S., Kohara Y., Yonekawa H. Two genes controlling acute phase responses by the antitumor polysaccharide, lentinan. Immunogenetics. 43:1996;215-219.
41. Manavalan P., Swope D. L., Withy R. M. Sequence and structural relationships in the cytokine family. J. Protein Chem. 11:1992;321-331.
42. Marquet S., Abel L., Hillaire D., Dessein H., Kalil J., Feingold J., Weissenbach J., Dessein A. J. Genetic localization of a locus controlling the intensity of infection by Schistosoma mansoni on chromosome 5q31-q33. Nat. Genet. 14:1996;181-184.
43. Marsh D. G., Neely J. D., Breazeale D. R., Ghosh B., Freidhoff L. R., Ehrlich-Kautzky E., Schou C., Krishnaswamy G., Beaty T. H. Linkage analysis of IL4 and other chromosome 5q31.1 markers and total serum immunoglobulin E concentrations. Science. 264:1994;1152-1156.
44. McKenzie A. N., Li X., Largaespada D. A., Sato A., Kaneda A., Zurawski S. M., Doyle E. L., Milatovich A., Francke U., Copeland N. G. Structural comparison and chromosomal localization of the human and mouse IL-13 genes. J. Immunol. 150:1993;5436-5444.
45. McPherron A. C., Lee S. J. GDF-3 and GDF-9: Two new members of the transforming growth factor-beta superfamily containing a novel pattern of cysteines. J. Biol. Chem. 268:1993;3444-3449.
46. Meyers D. A., Postma D. S., Panhuysen C. I., Xu J., Amelung P. J., Levitt R. C., Bleecker E. R. Evidence for a locus regulating total serum IgE levels mapping to chromosome 5. Genomics. 23:1994;464-470.
47. Milburn M. V., Hassell A. M., Lambert M. H., Jordan S. R., Proudfoot A. E., Graber P., Wells T. N. A novel dimer configuration revealed by the crystal structure at 2.4 Å resolution of human interleukin-5. Nature. 363:1993;172-176.
48. Monaco J. J., McDevitt H. O. Identification of a fourth class of proteins linked to the murine major histocompatibility complex. Proc. Natl. Acad. Sci. USA. 79:1982;3001-3005.
49. Nagase T., Seki N., Ishikawa K., Ohira M., Kawarabayasi Y., Ohara O., Tanaka A., Kotani H., Miyajima N., Nomura N. Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain. DNA Res. 3:1996;321-329.
50. National Center for Bioinformatics, 1999. UNIGene, http://www4.ncbi.nlm.nih.gov/UniGene/index.html .
51. Nottenburg C., Gallatin W. M., St. John T. Lymphocyte HEV adhesion variants differ in the expression of multiple gene sequences. Gene. 95:1990;279-284.
52. Okita K., Tokino T., Nishimori H., Miura K., Nikaido H., Hayakawa J., Ono A., Kuwajima M., Matsuzawa Y., Nakamura Y. Definition of the locus responsible for systemic carnitine deficiency within a 1.6-cM region of mouse chromosome 11 by detailed linkage analysis. Genomics. 33:1996;289-291.
53. Pedersen B., Jensen I. M. Clinical and prognostic implications of chromosome 5q deletions: 96 high resolution studied patients. Leukemia. 5:1991;566-573.
54. Pitluck, S, and, Alcivare, D. 1999. LBNL/BDGP sequence archive, http://www-hgc.lbl.gov/sequence-archive.html .
55. Postma D. S., Bleecker E. R., Amelung P. J., Holroyd K. J., Xu J., Panhuysen C. I., Meyers D. A., Levitt R. C. Genetic susceptibility to asthma - Bronchial hyperresponsiveness coinherited with a major gene for atopy. N. Engl. J. Med. 333:1995;894-900.
56. Powers R., Garrett D. S., March C. J., Frieden E. A., Gronenborn A. M., Clore G. M. The high-resolution, three-dimensional solution structure of human interleukin-4 determined by multidimensional heteronuclear magnetic resonance spectroscopy. Biochemistry. 32:1993;6744-6762.
57. Ranganath S., Ouyang W., Bhattarcharya D., Sha W. C., Grupe A., Peltz G., Murphy K. M. GATA-3-dependent enhancer activity in IL-4 gene regulation. J. Immunol. 161:1998;3822-3826.
58. Riviere I., Sunshine M. J., Littman D. R. Regulation of IL-4 expression by activation of individual alleles. Immunity. 9:1998;217-228.
59. Roe, B. 1998, Protocols used in the Roe laboratory, http://www. genome.ou.edu/proto.html .
60. Ruddy D. A., Kronmal G. S., Lee V. K., Mintier G. A., Quintana L., Domingo R. Jr., Meyer N. C., Irrinki A., McClelland E. E., Fullan A., Mapa F. A., Moore T., Thomas W., Loeb D. B., Harmon C., Tsuchihashi Z., Wolff R. K., Schatzman R. C., Feder J. N. A 1.1-Mb transcript map of the hereditary hemochromatosis locus. Genome Res. 7:1997;441-456.
61. Saltman D. L., Dolganov G. M., Warrington J. A., Wasmuth J. J., Lovett M. A physical map of 15 loci on human chromosome 5q23-q33 by two-color fluorescence in situ hybridization. Genomics. 16:1993;726-732.
62. Sambrook J., Fritsch E., T. M. Molecular Cloning: A Laboratory Manual. 1989;Cold Spring Harbor Laboratory Press, Cold Spring Harbor.
63. Sartor H., Ehlert F., Grzeschik K. H., Muller R., Adolph S. Assignment of two human cell cycle genes, CDC25C and CCNB1, to 5q31 and 5q12, respectively. Genomics. 13:1992;911-912.
64. Schwaab V., Baud E., Ghyselinck N., Mattei M. G., Dufaure J. P., Drevet J. R. Cloning of the mouse gene encoding plasma glutathione peroxidase: Organization, sequence and chromosomal localization. Gene. 167:1995;25-31.
65. Smirnov D. V., Smirnova M. G., Korobko V. G., Frolova E. I. Tandem arrangement of human genes for interleukin-4 and interleukin-13: Resemblance in their organization. Gene. 155:1995;277-281.
66. Spence A. M., Sheppard P. C., Davie J. R., Matuo Y., Nishi N., McKeehan W. L., Dodd J. G., Matusik R. J. Regulation of a bifunctional mRNA results in synthesis of secreted and nuclear probasin. Proc. Natl. Acad. Sci. USA. 86:1989;7843-7847.
67. Stahl, F. 1999. Rat Genome Database, http://ratmap.gen.gu.se/ .
68. Strachen T., Read A. P. Human Molecular Genetics. 1996;Wiley-Liss, New York. p. 225-226.
69. Tamai I., Ohashi R., Nezu J., Yabuuchi H., Oku A., Shimane M., Sai Y., Tsuji A. Molecular and functional identification of sodium ion-dependent, high affinity human carnitine transporter OCTN2. J. Biol. Chem. 273:1998;20378-20382.
70. Taviaux S. A., Demaille J. G. Localization of human cell cycle regulatory genes CDC25C to 5q31 and WEE1 to 11p15.3-11p15.1 by fluorescence in situ hybridization. Genomics. 15:1993;194-196.
71. Trofatter J. A., Long K. R., Murrell J. R., Stotler C. J., Gusella J. F., Buckler A. J. An expression-independent catalog of genes from human chromosome 22. Genome Res. 5:1995;214-224.
72. Watkins-Chow D. E., Buckwalter M. S., Newhouse M. M., Lossie A. C., Brinkmeier M. L., Camper S. A. Genetic mapping of 21 genes on mouse chromosome 11 reveals disruptions in linkage conservation with human chromosome 5. Genomics. 40:1997;114-122.
73. Wenner C. A., Szabo S. J., Murphy K. M. Identification of IL-4 promoter elements conferring Th2-restricted expression during T helper cell subset development. J. Immunol. 158:1997;765-773.
74. Willman C. L., Sever C. E., Pallavicini M. G., Harada H., Tanaka N., Slovak M. L., Yamamoto H., Harada K., Meeker T. C., List A. F. Deletion of IRF-1, mapping to chromosome 5q31.1, in human leukemia and preleukemic myelodysplasia. Science. 259:1993;968-971.
75. Womack, J, and, Ata, K. 1999. BOVBASE, http://bos.cvm.tamu.edu/bovgbase.html.
76. Yamazaki H., Nakata T., Okada Y., Hirokawa N. Cloning and characterization of KAP3: A novel kinesin superfamily-associated protein of KIF3A/3B. Proc. Natl. Acad. Sci. USA. 93:1996;8443-8448.
77. Yoshimura S., Suemizu H., Taniguchi Y., Arimori K., Kawabe N., Moriuchi T. The human plasma glutathione peroxidase-encoding gene: Organization, sequence and localization to chromosome 5q32. Gene. 145:1994;293-297.