A 700-kb physical map of a region of 16q23.2 homozygously deleted in multiple cancers and spanning the common fragile site FRA16D

Cancer Research

Volumn 60, Issue 6, 2000, Pages 1690-1697

  Paige, Adam J W ^a   Taylor, Karen J ^a   Stewart, Aengus ^b   Sgouros, John G ^b   Gabra, Hani ^a   Sellar, Grant C ^a   Smyth, John F ^a   Porteous, David J ^a   Watson, J E Vivienne ^a  

^a WESTERN GENERAL HOSPITAL   (United Kingdom)

^b IMPERIAL CANCER RESEARCH FUND   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CONTIG; DNA;

ARTICLE; CANCER CELL CULTURE; CHROMOSOME 16Q; CHROMOSOME FRAGILE SITE; CHROMOSOME LOSS; COLON CARCINOMA; FLUORESCENCE IN SITU HYBRIDIZATION; GENE DELETION; GENE MAPPING; HUMAN; HUMAN CELL; LUNG SMALL CELL CANCER; METAPHASE CHROMOSOME; NUCLEOTIDE SEQUENCE; OVARY CANCER; PRIORITY JOURNAL; UNINDEXED SEQUENCE;

BACTERIOPHAGE P1; CHROMOSOME BANDING; CHROMOSOME DELETION; CHROMOSOME FRAGILE SITES; CHROMOSOME FRAGILITY; CHROMOSOMES, ARTIFICIAL, YEAST; CHROMOSOMES, HUMAN, PAIR 16; CLONING, MOLECULAR; CONTIG MAPPING; DNA, NEOPLASM; GENETIC PREDISPOSITION TO DISEASE; HOMOZYGOTE; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; NEOPLASMS; PHYSICAL CHROMOSOME MAPPING; TUMOR CELLS, CULTURED;

EID: 0034654513     PISSN: 00085472     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (55)

1. Lisitsyn, N., Lisitsyn, N., and Wigler, M. Cloning the differences between two complex genomes. Science (Washington DC), 259: 946-951, 1993.
2. Friend, S., Bernards, R., Roggel, J., Weinberg, R., Rapapoit, J., Albert, D., and Dryja, T. A human DNA segment with properties of the gene that predisposes to retinoblastoma and osteosarcoma. Nature (Lond.), 323: 643-546, 1986.
3. Call, K. M., Glaser, T., Ito, C. Y., Buckler, A. J., Pelletier, J., Haber, D. A., Rose, E. A., Kral, A., Yeger, H., and Lewis, W. H. Isolation and characterization of a zinc finger polypeptide gene at the human chromosome 11 Wilms' tumor locus. Cell, 60: 509-520, 1990.
4. Schutte, M., da-Costa, L. T., Hahn, S. A., Moskaluk, C., Hoque, A. T., Rozenblum, E., Weinstein, C. L., Bittner, M., Meltzer, P. S., Trent, J. M., Yeo, C. J., Hruban, R. H., and Kern, S. E. Identification by representational difference analysis of a homozygous deletion in pancreatic carcinoma that lies within the BRCA2 region. Proc. Natl. Acad. Sci. USA, 92: 5950-5954, 1995.
5. Kamb, A., Gruis, N. A., Weaver-Feldhaus, J., Liu, Q., Harshman, K., Tavtigian, S. V., Stockert, E., Day, R. R., Johnson, B. E., and Skolnick, M. H. A cell cycle regulator potentially involved in genesis of many tumor types. Science (Washington DC), 264: 436-440, 1994.
6. Ohta, M., Inoue, H., Cotticelli, M. G., Kastury, K., Baffa, R., Palazzo, J., Siprashvili, Z., Mori, M., McCue, P., Druck, T., Croce, C. M., and Huebner, K. The FHIT gene, spanning the chromosome 3p14.2 fragile site and renal carcinoma-associated t(3;8) breakpoint, is abnormal in digestive tract cancers. Cell, 84: 587-597, 1996.
7. Hannon, G. J., and Beach, D. p15INK4B is a potential effector of TGF-β-induced cell cycle arrest. Nature (Lond.), 371: 257-261, 1994.
8. Quelle, D. E., Zindy, F., Ashmun, R. A., and Sherr, C. J. Alternative reading frames of the INK4a tumor suppressor gene encode two unrelated proteins capable of inducing cell cycle arrest. Cell, 83: 993-1000, 1995.
9. Watson, J. E. V., Gabra, H., Taylor, K. J., Rabiasz, G. J., Morrison, H., Perry, P., Smyth, J. F., and Porteous, D. J. Identification and characterization of a homozygous deletion found in ovarian ascites by representational difference analysis. Genome Res., 9: 226-233, 1999.
10. Li, C. Berx, G., Larsson, C., Auer, G., Aspenblad, U., Pan, Y., Sundelin, B., Ekman, P., Nordenskjold, M., van Roy, F., and Bergerheim, U. S. R. Distinct deleted regions on chromosome segment 16q23-24 associated with metastases in prostate cancer. Genes Chromosomes Cancer, 24: 175-182, 1999.
11. Latil, A., Cussenot, O., Fournier, G., Driouch, K., and Lidereau, R. Loss of heterozygosity at chromosome 16q in prostate adenocarcinoma: identification of three independent regions. Cancer Res., 57: 1058-1062, 1997.
12. Driouch, K., Dorion-Bonnet, F., Briffod, M., Champeme, M. H., Longy, M., and Lidereau, R. Loss of heterozygosity on chromosome arm 16q in breast cancer metastases. Genes Chromosomes Cancer, 19: 185-191, 1997.
13. Iida, A., Isobe, R., Yoshimoto, M., Kasumi, F., Nakamura, Y., and Emi, M. Localization of a breast cancer tumour-suppressor gene to a 3-cM interval within chromosomal region 16q22. Br. J. Cancer, 75: 264-267, 1997.
14. Chen, T., Sahin, A., and Aldaz, C. M. Deletion map of chromosome 16q in ductal carcinoma in situ of the breast: refining a putative tumor suppressor gene region. Cancer Res., 56: 5605-5609, 1996.
15. Roylance, R., Gorman, P., Harris, W., Liebmann, R., Barnes, D., Hanby, A., and Sheer, D. Comparative genomic hybridization of breast tumors stratified by histological grade reveals new insights into the biological progression of breast cancer. Cancer Res., 59: 1433-1436, 1999.
16. Chou, Y-H., Chung, K-C., Jeng, L-B., Chen, T-C. and Liaw, Y-F. Frequent allelic loss on chromosomes 4q and 16q associated with human hepatocellular carcinoma in Taiwan. Cancer Lett., 123: 1-6, 1998.
17. Iwahuchi, H., Sakamoto, M., Sakunaga, H., Ma, Y. Y., Carcangiu, M. L., Pinkel, D., Yang-Feng, T. L., and Gray, J. W. Genetic analysis of benign, low-grade, and high-grade ovarian tumors. Cancer Res., 55: 6172-6180, 1995.
18. Doggett, N. A., Breuning, M. H., and Callen, D. F. Report of the fourth international workshop on human chromosome 16 mapping 1995. Cytogenet. Cell Genet., 72: 271-293, 1996.
19. Smith, D. I., Huang, H., and Wang, L. Common fragile sites and cancer. Int. J. Oncol., 12: 187-196, 1998.
20. Lisitsyn, N. A., Lisitsina, N. M., Dalbagni, G., Barker, P., Sanchez, C. A., Gnarra, J., Linehan, W. M., Reid, B. J. and Wigler, M. H. Comparative genomic analysis of tumors: detection of DNA losses and amplification. Proc. Natl. Acad. Sci. USA, 92: 151-155, 1995.
21. Wolf, C., Hayward, I., Lawrie, S., Buckton, K., McIntyre, M., Adams, D., Lewis, A., Scott, A., and Smyth, J. Cellular heterogeneity and drug resistance in two ovarian adenocarcinoma cell lines derived from a single patient. Int. J. Cancer, 39: 695-702, 1987.
22. Hay, F. G., Duncan, L. W., and Leonard, R. C. F. Establishment and characterisation of two new small cell lung cancer cell lines-one from a patient with previous familial retinoblastoma. Br. J. Cancer, 63: 43-45, 1991.
23. Brattain, M. G., Fine, W. D., Khaled, F. M., Thompson, J., and Brattain, D. E. Heterogeneity of malignant cells from a human colonic carcinoma. Cancer Res., 41: 1751-1756, 1981.
24. Boyd, A. C. Turbo cloning: a fast, efficient method for cloning PCR products and other blunt-ended DNA fragments into plasmids. Nucleic Acids Res., 21: 817-821, 1993.
25. Doggett, N. A., Goodwin, L. A., Tesmer, J. G., Meincke, L. J., Bruce, D. C., Clark, L. M., Altherr, M. R., Ford, A. A., Chi, H. C., Marrone, B. L., Longmire, J. L., Lane, S. A., Whitmore, S. A., Lowenstein, M. G., Sutherland, R. D., Mundt, M. O., Knill, E. H., Bruno, W. J., Macken, C. A., Torney, D. C., Wu, J-R., Griffith, J., Sutherland, G. R., Deaven, L. L., Callen, D. F., and Moyzis, R. K. An integrated physical map of human chromosome 16. Nature (Lond.), 377: 335-365, 1995.
26. Chumakov, I., Rigault, P., Guillou, S., Ougen, P., Billaut, A., Guasconi, G., Gervy, P., LeGall, I., Soularue, P., and Grinas, L. Continuum of overlapping clones spanning the entire human chromosome 21q. Nature (Lond.), 359: 380-387, 1992.
27. Wu, C., Zhu, S., Simpson, S., and de Jong, P. J. DOP-vector PCR: a method for rapid isolation and sequencing of insert termini from PAC clones. Nucleic Acids Res., 24: 2614-2615, 1996.
28. Church, D. M., Stotler, C. J., Rutter, J. L., Murrell, J. R., Trofatter, J. A., and Buckler, A. J. Isolation of genes from complex sources of mammalian genomic DNA using exon amplification. Nat. Genet., 6: 98-105, 1994.
29. Nelson, D. L., Ledbetter, S. A., Corbo, L., Victoria, M. F., Ramirez-Solis, R., Webster, T. D., Ledbetter, D. H.,. and Caskey, C. T., Alu polymerase chain reaction: a method for rapid isolation of human-specific sequences from complex DNA sources. Proc. Natl. Acad. Sci. USA, 86: 6686-6690, 1989.
30. Staden, R. The Staden sequence analysis package. Mol. Biotechnol., 5: 233-241, 1996.
31. Glover, T. W., Berger, C., Coyle, J., and Echo, B. DNA polymerase a inhibition by aphidicolin induces gaps and breaks at common fragile sites in human chromosomes. Hum. Genet., 67: 136-142, 1984.
32. Lichter, P., and Cremer, T. Chromosome analysis by non-isotopic in situ hybridization. In: D. E. Rooney and B. H. Czepulkowski (eds.), Human Cytogenetics: A Practical Approach, Ed. 1, Vol. 1, pp. 157-192. Oxford, United Kingdom: Oxford University Press, 1992.
33. Suzuki, S., Sano, K., and Tanihara, H. Diversity of the cadherin family: evidence for eight new cadherins in nervous tissue. Cell Regul., 2: 261-270, 1991.
34. Bussemakers, M. J., van Bokhoven, A., Mees, S. G., Kemler, R., and Schalken, J. A. Molecular cloning and characterization of the human E-cadherin cDNA. Mol. Biol. Rep., 17: 123-128, 1993.
35. Kastury, K., Baffa, R., Druck, T., Ohta, M., Cotticelli, M. G., Inoue, H., Negrini, M., Rugge, M., Huang, D., Croce, C. M., Palazzo, J., and Huebner, K. Potential gastrointestinal tumor suppressor locus at the 3p14.2 FRA3B site identified by homozygous deletions in tumor cell lines. Cancer Res., 56: 978-983, 1996.
36. Mangelsdorf, M., Ried, K., Woollatt, E., Dayan, S., Eyre, H., Finnis, M., Hobson, L., Nancarrow, J., Venter, D., Baker, E., and Richards, R. I. Chromosomal fragile site FRA16D and DNA instability in cancer. Cancer Res., 60: 1683-1689, 2000.
37. Bednarek, A. K., and Aldaz, C. M. Characterization of transcripts from a commonly deleted area of chromosome 16 (q23.3-q24.1). Proc. Am. Assoc. Cancer Res., 39: 128, 1998.
38. Becker-Follmann, J., Gaa, A., Bausch, E., Natt, E., Scherer, G., and von Deimling, O. High-resolution mapping of a linkage group on mouse chromosome 8 conserved on human chromosome 16Q. Mamm. Genome, 8: 172-177, 1997.
39. Yoshida, M. C., Nishizawa, M., Kataoka, K., Goto, N., Fujiwara, K. T., and Kawai, S. Localization of the human MAF protooncogene on chromosome 16 to bands q22-q23. Cytogenet. Cell Genet., 58: 2003, 1991.
40. Mourelatos, Z., Gonatas, J. O., Cinato, E., and Gonatas, N. K. Cloning and sequence analysis of the human MG160, a fibroblast growth factor and E-selectin binding membrane sialoglycoprotein of the Golgi apparatus. DNA Cell Biol., 15: 1121-1128, 1996.
41. Peyrard, M., Parveneh, S., Lagercrantz, S., Ekman, M., Fransson, I., Sahlen, S., and Dumanski, J. P. Cloning, expression pattern, and chromosomal assignment to 16q23 of the human γ-adaptin gene (ADTG). Genomics, 50: 275-280, 1998.
42. Nomura, N., Nagase, T., Miyajima, N., Sazuka, T., Tanaka, A., Sato, S., Seki, N., Kawarabayasi, Y., Ishikawa, K., and Tahata, S. Prediction of the coding sequences of unidentified human genes. II. The coding sequences of 40 new genes (KIAA0041-KIAA0080) deduced by analysis of cDNA clones from human cell line KG-1. DNA Res., 1: 223-229, 1994.
43. Pan, M. G., Xiong, J., Copeland, N. G., Gilbert, D. J., Jenkins, N. A., and Goeddel, D. V. Sequence, genomic organization, and chromosome localization of the mouse TRADD gene. J. Inflamm., 46: 168-175, 1995.
44. Kremmidiotis, G., Baker, E., Crawford, J., Eyre, H. J., Nahmias, J., and Callen, D. F. Localization of human cadherin genes to chromosome regions exhibiting cancer-related loss of heterozygosity. Genomics, 49: 467-471, 1998.
45. Berx, G., Cleton-Jansen, A. M., Nollet, F., de Leeuw, W. J., van de Vijver, M., Cornelisse, C., and van Roy, F. E-cadherin is a tumour/invasion suppressor gene mutated in human lobular breast cancers. EMBO J., 14: 6107-6115, 1995.
46. Yunis, J. J., Soreng, A. L., and Bowe, A. E. Fragile sites are targets of diverse mutagens and carcinogens. Oncogene, 1: 59-69, 1987.
47. Chesi, M., Bergsagel, P. L., Shonukan, O. O., Martelli, M. L., Brents, L. A., Chen, T., Schrock, E., Ried, T., and Kuehl, W. M. Frequent dysregulation of the c-maf proto-oncogene at 16q23 by translocation to an Ig locus in multiple myeloma. Blood, 91: 4457-4463, 1998.
48. Boldog, F., Gemmill, R. M., West, J., Robinson, M., Robinson, L., Li, E., Roche, J., Todd, S., Waggoner, B., Lundstrom, R., Jacobson, J., Mullokandov, M. R., Klinger, H., and Drabkin, H. A. Chromosome 3p14 homozygous deletions and sequence analysis of FRA3B. Hum. Mol. Genet., 6: 193-203, 1997.
49. Mimori, K., Druck, T., Inoue, H., Alder, H., Berk, L., Mori, M., Huebner, K., and Croce, C. M Cancer-specific chromosome alterations in the constitutive fragile region FRA3B. Proc. Natl. Acad. Sci. USA, 96: 7456-7461, 1999.
50. Huang, H., Qian, J., Proffit, J., Wilber, K., Jenkins, R., and Smith, D. I. FRA7G extends over a broad region: coincidence of human endogenous retroviral sequences (HERV-H) and small polydispersed circular DNAs (spcDNA) and fragile sites. Oncogene, 16: 2311-2319, 1998.
51. Mishmar, D., Rahat, A., Scherer, S. W., Nyakatura, G., Hinzmann, B., Kohwi, Y., Mandel-Gutfroind, Y., Lee, J. R., Drescher, B., Sas, D. E., Margalit, H., Platzer, M., Weiss, A., Tsui, L. C., Rosenthal, A., and Kerem, B. Molecular characterization of a common fragile site (FRA7H) on human chromosome 7 by the cloning of a simian virus 40 integration site. Proc. Natl. Acad. Sci. USA, 95: 8141-8146, 1998.
52. Wang, L., Darling, J., Zhang, J. S., Huang, H., Liu, W., and Smith, D. I. Allele-specific late replication and fragility of the most active common fragile site, FRA3B. Hum. Mol. Genet., 8: 431-437, 1999.
53. Le Beau, M. M., Rassool, F. V., Neilly, M. E., Espinosa, R., III, Glover, T. W., Smith, D. I., and McKeithan, T. W. Replication of a common fragile site, FRA3B, occurs late in S phase and is delayed further upon induction: implications for the mechanism of fragile site induction. Hum. Mol. Genet., 7: 755-761, 1998.
54. Lengauer, C., Kinzler, K. W., and Vogelstein, B. Genetic instabilities in human cancers. Nature (Lond.), 396: 643-649, 1998.
55. Lengauer, C., Kinzler, K. W., and Vogelstein, B. Genetic instability in colorectal cancers. Nature (Lond.), 386: 623-627, 1997.