Structure and methylation-based silencing of a gene (DBCCR1) within a candidate bladder cancer tumor suppressor region at 9q32-q33

Genomics

Volumn 48, Issue 3, 1998, Pages 277-288

  Habuchi, Tomonori ^a   Luscombe, Mike ^a   Elder, Patricia A ^a   Knowles, Margaret A ^a  

^a MARIE CURIE RESEARCH INSTITUTE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BLADDER CANCER; DNA SEQUENCE; GENE DELETION; GENE LOCATION; GENE MAPPING; GENE MUTATION; GENE STRUCTURE; GENETIC ANALYSIS; GENETIC HETEROGENEITY; HUMAN; HUMAN CELL; METHYLATION; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SEQUENCE HOMOLOGY; TARGET CELL; TUMOR SUPPRESSOR GENE; UROTHELIUM;

EID: 0032520902     PISSN: 08887543     EISSN: None     Source Type: Journal    
DOI: 10.1006/geno.1997.5165     Document Type: Article

References (54)

1. Ah-See K. W., Cooke T. G., Pickford I. R., Souter D., Balmain A. An allelotype of squamous carcinoma of the head and neck using microsatellite markers. Cancer Res. 54:1994;1617-1621.
2. Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. Basic local alignment search tool. J. Mol. Biol. 215:1990;403-410.
3. Bairoch A. PROSITE: A dictionary of sites and patterns in proteins. Nucleic Acids Res. 20:1992;2013-2018.
4. Bernués M., Casadevall C., Miró R., Caballín M. R., Gelabert A., Egozcue J. A case of transitional cell carcinoma of the bladder with a del(9)(q11q21.2). Cancer Genet. Cytogenet. 69:1993;76-77.
5. Berry R., Stevens T. J., Walter N. A., Wilcox A. S., Rubano T., Hopkins J. A., Weber J., Goold R., Soares M. B., Sikela J. M. Gene-based sequence- tagged-sites (STSs) as the basis for a human gene map. Nat. Genet. 10:1995;415-423.
6. Cairns P., Polascik T. J., Eby Y., Tokino K., Califano J., Merlo A., Mao L., Herath J., Jenkins R., Westra W., Rutter J. L., Buckler A., Gabrielson E., Tockman M., Cho K. R., Hendrick L., Bova G. S., Isaacs W., Koch W., Schwab D., Sidransky D. Frequency of homozygous deletion atp16/CDKN2. Nat. Genet. 11:1995a;210-212.
7. Cairns P., Tokino K., Eby Y., Sidransky D. Localization of tumor suppressor loci on chromosome 9 in primary human renal cell carcinomas. Cancer Res. 55:1995b;224-227.
8. Cross S. H., Bird A. P. CpG islands and genes. Curr. Opin. Genet. Dev. 5:1995;309-314.
9. Dalbagni G., Presti J., Reuter V., Fair W. R., Cordon-Cardo C. Genetic alterations in bladder cancer. Lancet. 342:1993;469-471.
10. de Bustros A., Nelkin B. D., Silverman A., Ehrlich G., Poiesz B., Baylin S. The short arm of chromosome 11 is a "hot spot" for hypermethylation in human neoplasia. Proc. Natl. Acad. Sci. USA. 85:1988;5693-5697.
11. Devlin J., Elder P. A., Gabra H., Steel C. M., Knowles M. A. High frequency of chromosome 9 deletion in ovarian cancer: Evidence for three tumour-suppressor loci. Br. J. Cancer. 73:1996;420-423.
12. Gardiner-Garden M., Frommer M. CpG islands in vertebrate genomes. J. Mol. Biol. 196:1987;261-282.
13. Gonzalez-Zulueta M., Bender C. M., Yang A. S., Nguyen T., Beart R. W., Van Tornout J. M., Jones P. A. Methylation of the 5′ CpG island of thep16/CDKN1. Cancer Res. 55:1995;4531-4535.
14. Greger V., Passarge E., Hopping W., Messmer E., Horsthemke B. Epigenetic changes may contribute to the formation and spontaneous regression of retinoblastoma. Hum. Genet. 83:1989;155-158.
15. Habuchi T., Ogawa O., Kakehi Y., Ogura K., Koshiba M., Hamazaki S., Takahashi R., Sugiyama T., Yoshida O. Accumulated allelic losses in the development of invasive urothelial cancer. Int. J. Cancer. 53:1993;579-584.
16. Habuchi T., Devlin J., Elder P. A., Knowles M. A. Detailed deletion mapping of chromosome 9q in bladder cancer: Evidence for two tumour suppressor loci. Oncogene. 11:1995;1671-1674.
17. Habuchi T., Yoshida O., Knowles M. A. A novel candidate tumour suppressor locus at 9q32-33 in bladder cancer: Localisation of the candidate region within a single 840 kb YAC. Hum. Mol. Genet. 6:1997;913-919.
18. Hedrick L., Cho K. R., Fearon E. R., Wu T. C., Kinzler K. W., Vogelstein B. The DCC gene product in cellular differentiation and colorectal tumorigenesis. Genes Dev. 8:1994;1174-1183.
19. Herman J. G., Latif F., Weng Y., Lerman M. I., Zbar B., Liu S., Samid D., Duan D.-S. R., Gnarra J. R., Linehan W. M., Baylin S. B. Silencing fo the VHL tumor-suppressor gene by DNA methylation in renal carcinoma. Proc. Natl. Acad. Sci. USA. 91:1994;9700-9704.
20. Herman J. G., Merlo A., Mao L., Lapidus R. G., Issa J-P. J., davidson N. E., Sidransky D., Baylin S. B. Inactivation of theCDKN2/p16/MTS1. Cancer Res. 55:1995;4525-2530.
21. INK4B.. Cancer Res. 56:1996;722-727.
22. Issa J.-P. J., Ottaviano Y. L., Celano P., Hamilton S. R., Davidson N. E., Baylin S. B. Methylation of the oestrogen receptor CpG island links ageing and neoplasia in human colon. Nat. Genet. 7:1994;536-540.
23. Jones P. A. DNA methylation errors and cancer. Cancer Res. 56:1996;2463-2467.
24. Keen A. J., Knowles M. A. Definition of two regions of deletion on chromosome 9 in carcinoma of the bladder. Oncogene. 9:1994;2083-2088.
25. Keino-Masu K., Masu M., Hinck L., Leonardo E. D., Chan S. S.-Y., Culotti J. G., Tessier-Lavigne M. Deleted in colorectal cancerDCC. Cell. 87:1997;175-185.
26. Knowles M. A., Elder P. A., Williamson M., Cairns J. P., Shaw M. E., Law M. G. Allelotype of human bladder cancer. Cancer Res. 54:1994;531-538.
27. Kozak M. An analysis of 5′-noncoding sequences from 699 vertebrate messenger RNAs. Nucleic Acids Res. 15:1987;8125-8132.
28. Kozak M. Structual features in eukaryotic mRNAs that modulate the initiation of translation. J. Biol. Chem. 266:1991;19867-19870.
29. Laird P. W., Jaenisch R. DNA methylation and cancer. Hum. Mol. Genet. 3:1994;1487-1495.
30. Lennon G., Auffray C., Polymeropoulos M., Soares M. B. The I.M.A.G.E. consortium: An integrated molecular analysis of genomes and their expression. Genomics. 33:1996;151-152.
31. Lindsay S., Bird A. P. Use of restriction enzymes to detect potential gene sequences in mammalian DNA. Nature. 327:1987;336-338.
32. MacGrogan D., Levy A., Bova G. S., Isaacs W. B., Bookstein R. Structure and methylation-associated silencing of a gene within a homozygously deleted region of human chromosome band 8p22. Genomics. 35:1996;55-65.
33. Makos M., Nelkin B.D., Reiter R.E., Gnarra J.R., Isaacs W., Linehan M., Baylin S. B. Regional DNA hypermethylation at D17S5 precedes structural changes in the progression of renal tumors. Cancer Res. 53:1993a;2719-2722.
34. Makos M., Nelkin B. D., Chazin V. R., Cavenee W. K., Brodeur G. M., Baylin S. B. DNA hypermethylation is associated with 17p allelic loss in neural tumors. Cancer Res. 63:1993b;2715-2718.
35. Merlo A., Herman J. G., Mao L., Lee D. J., Gabrielson E., Burger P. C., Baylin S. B., Sidransky D. 5′ CpG island methylation is associated with transcriptional silencing of the tumour suppressorp16/CDKN2/MTS1. Nat. Med. 1:1995;686-692.
36. Miura K. Okita K., Furukawa Y. Matsuno S., Nakamura Y. Deletion mapping in squamous cell carcinomas of the esophagus defines a region containing a tumor suppressor gene within a 4-centimorgan interval of the distal long arm of chromosome 9. Cancer Res. 55:1995;1828-1830.
37. Nagatake M., Osada H., Kondo M., Uchida K., Nishio M., Shimokata K., Takahashi T., Takahashi T. Aberrant hypermethylation at the bcL-2 locus at 18q21 in human lung cancers. Cancer Res. 56:1996;1886-1891.
38. Olumi A. F., Tsai Y. C., Nichols P. W., Skinner D. G., Cain D. R., Bender L. I., Jones P. A. Allelic loss of chromosome 17p distinguishes high grade from low grade transitional cell carcinomas of the bladder. Cancer Res. 50:1990;7081-7083.
39. Pongor S., Hatsagi Z., Degtyarenko K., Fabian P., Skerl V., Hegyi H., Murvai J., Bevilacqua V. The SBASE protein domain library, release 3.0: A collection of annotated protein sequence segements. Nucleic Acids Res. 22:1994;3610-3615.
40. Quinn A. G., Sikkink S., Rees J. L. Delineation of two distinct deleted regions on chromosome 9 in human non-melanoma skin cancers. Genes Chromosomes Cancer. 11:1994;222-225.
41. Riley J., Butler R., Ogilivie D., Finniear R., Jenner D., Powell S., Anand R., Smith J.C., Markham A. F. A novel, rapid method for the isolation of terminal sequences from yeast artificial chromosome (YAC) clones. Nucleic Acids Res. 18:1990;2887-2890.
42. Ruppert J. M., Tokino K., Sidransky D. Evidence for two bladder cancer suppressor loci on human chromosome 9. Cancer Res. 53:1993;5093-5095.
43. Sakai T., Toguchida J., Ohtani N., Yandell D. W., Rapaport J. M., Dryja T. P. Allele specific hypermethylation of the retinoblastoma tumor-suppressor gene. Am. J. Hum. Genet. 48:1991;880-888.
44. Sambrook J., Fritsch E. F., Maniatis T. Molecular Cloning: A Laboratory Manual. 1989;Cold Spring Harbor Laboratory Press, Cold Spring Harbor.
45. Sheets M. D., Ogg S. C., Wickens M. P. Point mutations in AAUAAA and the poly (A) addition site: Effects on the accuracy and efficiency of cleavage and polyadenylationin vitro. Nucleic Acids Res. 18:1990;5799-5805.
46. Simoneau A. R., Spruck C. H. III, Gonzalez-Zulueta M., Gonzalgo M. L., Chan M. F., Tsai Y. C., Dean M., Steven K., Horn T., Jones P. A. Evidence for two tumor suppressor loci associated with proximal chromosome 9p to q and distal chromosme 9q in bladder cancer and the initial screening forGAS1PTC. Cancer Res. 56:1996;5039-5043.
47. Smeets W., Pauwels R., Laarakkers L., Debruyne F., Geraedts J. Chromosomal analysis of bladder cancer. III. Nonrandom alterations. Cancer Genet. Cytogenet. 29:1987;29-41.
48. Sonnhammer E. L., Kahn D. Modular arrangement of proteins as inferred from analysis of homology. Protein Sci. 3:1994;482-492.
49. Vanni R., Scarpa R. M., Nieddu M., Usai E. Cytogenetic investigation on 30 bladder carcinomas. Cancer Genet. Cytogenet. 30:1988;35-42.
50. Wahle E., Keller W. The biochemistry of 3′-end cleavage and polyadenylation of messenger RNA precursors. Annu. Rev. Biochem. 61:1992;419-440.
51. Wales M. M., el Deiry W., Nelkin B. D., Issa J. P., Cavenee W. K., Kuerbitz S. J., Baylin S. B. p53 activates expression of HIC-1, a new candidate tumour suppressor gene on 17p13.3. Nat. Med. 1:1995;570-577.
52. Williamson M. P., Elder P. A., Shaw M. E., Devlin J., Knowles M.A. p16(CDKN2). Hum. Mol. Genet. 4:1995;1569-1577.
53. INK4A, MTS1. Int. J. Cancer. 65:1996;840-846.
54. Yoshiura K., Kanai Y., Ochiai A., Shimoyama Y., Sugimura T., Hirohashi S. Silencing of the E-cadherin invasion-suppressor gene by CpG methylation in human carcinomas. Proc. Natl. Acad. Sci. USA. 92:1995;7416-7419.