Novel DNA amplification on chromosomes 2p25.3 and 7q11.23 in cholangiocarcinoma identified by arbitrarily primed polymerase chain reaction

Journal of Cancer Research and Clinical Oncology

Volumn 131, Issue 12, 2005, Pages 821-828

  Chariyalertsak, S ^a,b   Khuhaprema, T ^b   Bhudisawasdi, V ^c   Sripa, B ^c   Wongkham, S ^c   Petmitr, S ^a  

^a MAHIDOL UNIVERSITY   (Thailand)

^b NATIONAL CANCER INSTITUTE   (Thailand)

^c KHON KAEN UNIVERSITY   (Thailand)

Author keywords

Arbitrarily primed polymerase chain reaction; Cholangiocarcinoma; DNA amplification; Random amplified polymorphic DNA

Indexed keywords

DNA FRAGMENT;

ADULT; ARTICLE; BILE DUCT CARCINOMA; CHROMOSOME; CHROMOSOME 2P; CHROMOSOME 7Q; CONTROLLED STUDY; DISEASE COURSE; DNA EXTRACTION; FEMALE; GENE AMPLIFICATION; GENE FREQUENCY; GENETIC IDENTIFICATION; HUMAN; HUMAN CELL; MAJOR CLINICAL STUDY; MALE; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; TUMOR DIFFERENTIATION;

ADULT; AGED; BILE DUCT NEOPLASMS; BILE DUCTS, INTRAHEPATIC; CHOLANGIOCARCINOMA; CHROMOSOMES, HUMAN, PAIR 2; CHROMOSOMES, HUMAN, PAIR 7; DISEASE PROGRESSION; DNA PRIMERS; DNA, NEOPLASM; FEMALE; HUMANS; MALE; MIDDLE AGED; NUCLEIC ACID AMPLIFICATION TECHNIQUES; POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS, DNA; SURVIVAL ANALYSIS;

EID: 27744508287     PISSN: 01715216     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00432-005-0031-2     Document Type: Article

References (61)

1. Achille A, Biasi MO, Zamboni G, Bogina G, Magalini AR, Pederzoli P, Perucho M, Scarpa A (1996) Chromosome 7q allelic losses in pancreatic carcinoma. Cancer Res 56:3808-3813
2. Ahrendt SA, Eisenberger CF, Yip L, Rashid A, Chow JT, Pitt HA, Sidransky D (1999) Chromosome 9p21 loss and p16 inactivation in primary sclerosing cholangitis-associated cholangiocarcinoma. J Surg Res 84:88-93
3. Baldwin AS Jr (1996) The NF-kappa B and 1 kappa B proteins: new discoveries and insights. Annu Rev Immunol 14:649-683
4. Barth TF, Martin-Subero JI, Joos S, Menz CK, Hasel C, Mechtersheimer G, Parwaresch RM, Lichter P, Siebert R, Mooller P (2003) Gains of 2p involving the REL locus correlate with nuclear c-Rel protein accumulation in neoplastic cells of classical Hodgkin lymphoma. Blood 101:3681-3686
5. Bova GS, Isaacs WB (1996) Review of allelic loss and gain in prostate cancer. World J Urol 14:338-346
6. Chen QR, Bilke S, Wei JS, Whiteford CC, Cenacchi N, Krasnoselsky AL, Greer BT, Son CG, Westermann F, Berthold F, Schwab M, Catchpoole D, Khan J (2004) cDNA array-CGH profiling identifies genomic alterations specific to stage and MYCN-amplification in neuroblastoma. BMC Genomics 5:70
7. Choong ML, Tan LK, Lo SL, Ren EC, Ou K, Ong SE, Liang R, Seow TK, Chung MC (2001) An integrated approach in the discovery and characterization of a novel nuclear protein overexpressed in liver and pancreatic tumors. FEBS Lett 496:109-116
8. De Juan C, Iniesta P, Cruces J, Sanchez A, Massa MJ, Gonzalez-Quevedo R, Torres AJ, Balibrea JL, Benito M (1999) DNA amplification on chromosome 6p12 in non small cell lung cancer detected by arbitrarily primed polymerase chain reaction. Int J Cancer 84:344-349
9. Deerasamee S, Martin N, Sontipong S, Sriamporn S, Sriplung H, Srivatanakul P, Parkin DM, Ferlay J (1999) Cancer in Thailand Vol II 1992-1994. IARC Technical Report No.34, Lyon
10. Di Renzo MF, Olivero M, Ferro S, Prat M, Bongarzone I, Pilotti S, Belfiore A, Costantino A, Vigneri R, Pierotti MA, Comoglio PM (1992) Overexpression of the c-MET/HGF receptor gene in human thyroid carcinomas. Oncogene 7:2549-2553
11. Dil-Afroze, Misra A, Sulaiman IM, Sinha S, Sarkar C, Mahapatra AK, Hasnain SE (1998) Genetic alterations in brain tumors identified by RAPD analysis. Gene 206:45-48
12. du Plessis L, Dietzsch E, Van Gele M, Van Roy N, Van Helden P, Parker MI, Mugwanya DK, De Groot M, Marx MP, Kotze MJ, Speleman F (1999) Mapping of novel regions of DNA gain and loss by comparative genomic hybridization in esophageal carcinoma in the Black and Colored populations of South Africa. Cancer Res 59:1877-1883
13. Ebert M, Yokoyama M, Friess H, Buchler MW, Korc M (1994) Coexpression of the c-met proto-oncogene and hepatocyte growth factor in human pancreatic cancer. Cancer Res 54:5775-5778
14. Gharib B, Fox MF, Bartoli C, Giorgi D, Sansonetti A, Swallow DM, Dagorn JC, Berge-Lefranc JL (1993) Human regeneration protein/lithostathine genes map to chromosome 2p12. Ann Hum Genet 57:9-16
15. Ginzinger DJ (2002) Gene quantification using real-time quantitative PCR: an emerging technology hits the mainstream. Exp Hematol 30:503-512
16. Gutierrez-Adan A, Cushwa WT, Anderson GB, Medrano JF. (1997) Ovine-specific Y-chromosome RAPD-SCAR marker for embryo sexing. Anim Genet 28:135-138
17. Hu J, Khanna V, Jones MW, Surti U (2003) Comparative study of primary and recurrent ovarian serous carcinomas: comparative genomic hybridization analysis with a potential application for prognosis. Gynecol Oncol 89:369-375
18. Inoue K, Makuuchi M, Takayama T, Torzilli G, Yamamoto J, Shimada K, Kosuge T, Yamasaki S, Konishi M, Kinoshita T, Miyagawa S, Kawasaki S (2000) Long- term survival and prognostic factors in the surgical treatment of mass-forming type cholangiocarcinoma. Surgery 127:498-505
19. Ionov Y, Peinado MA, Malkhosyan S, Shibata D, Perucho M (1993) Ubiquitous somatic mutations in simple repeated sequences reveal a new mechanism for colonic carcinogenesis. Nature 363:558-561
20. Isaji S, Kawarada Y, Taoka H, Tabata M, Suzuki H, Yokoi H (1999) Clinicopathological features and outcome of hepatic resection for intrahepatic cholangiocarcinoma in Japan. J Hepatobiliary Pancreat Surg 6:108-116
21. Jenkins RB, Qian J, Lee HK, Huang H, Hirasawa K, Bostwick DG, Proffitt J, Wilber K, Lieber MM, Liu W, Smith DI (1998) A molecular cytogenetic analysis of 7q31 in prostate cancer. Cancer Res 58:759-766
22. Kang YK, Kim WH, Lee HK, Kim YI (1999) Mutation of p53 and K-ras, and loss of heterozygosity of APC in intrahepatic cholangiocarcinoma. Lab Invest 79:477-483
23. Kiba T, Tsuda H, Pairojkul C, Inoue S, Sugimura T, Hirohashi S (1993) Mutations of the p53 tumor suppressor gene and the ras gene family in intrahepatic cholangiocellular carcinomas in Japan and Thailand. Mol Carcinog 8:312-318
24. Koizumi Y, Tanaka S, Mou R, Koganei H, Kokawa A, Kitamura R, Yamauchi H, Ookubo K, Saito T, Tominaga S, Matsumura K, Shimada H, Tsuchida N, Sekihara H (1997) Changes in DNA copy number in primary gastric carcinomas by comparative genomic hybridization. Clin Cancer Res 3:1067-1076
25. Kuniyasu H, Yasui W, Kitadai Y, Yokozaki H, Ito H, Tahara E (1992) Frequent amplification of the c-met gene in scirrhous type stomach cancer. Biochem Biophys Res Commun 189:227-232
26. Lasserre C, Simon MT, Ishikawa H, Diriong S, Nguyen VC, Christa L, Vernier P, Brechot C (1994) Structural organization and chromosomal localization of a human gene (HIP/PAP) encoding a C-type lectin overexpressed in primary liver cancer. Eur J Biochem 224:29-38
27. Lee S, Kim WH, Jung HY, Yang MH, Kang GH (2002) Aberrant CpG island methylation of multiple genes in intrahepatic cholangiocarcinoma. Am J Pathol 161:1015-1022
28. Levi S, Urbano-Ispizua A, Gill R, Thomas DM, Gilbertson J, Foster C, Marshall CJ (1991) Multiple K-ras codon 12 mutations in cholangiocarcinomas demonstrated with a sensitive polymerase chain reaction technique. Cancer Res 51:3497-3502
29. Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitation PCR and the 2 (-Delta Delta C(T)) Method. Methods 25:402-408
30. Lui C, Park M, Tsao MS (1992) Overexpression of c-met proto-oncogene but not epidermal growth factor receptor or c-erbB-2 in primary human colorectal carcinomas. Oncogene 7:181-185
31. Luo L, Li B, Pretlow TP (2003) DNA alterations in human aberrant crypt foci and colon cancers by random primed polymerase chain reaction. Cancer Res 63:6166-6169
32. Maeda T, Jikko A, Hiranuma H, Fuchihata H (1999) Analysis of genomic instability in squamous cell carcinoma of the head and neck using the random amplified polymorphic DNA method. Cancer Lett 138:183-188
33. Micci F, Teixeira MR, Haugom L, Kristensen G, Abeler VM, Heim S (2004) Genomic aberrations in carcinomas of the uterine corpus. Gene Chromosomes Cancer 40:229-246
34. Miller SA, Dykes DD, Polesky HF (1988) A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res 16:1215
35. Momoi H, Okabe H, Kamikawa T, Satoh S, Ikai I, Yamamoto M, Nakagawara A, Shimahara Y, Yamaoka Y, Fukumoto M (2001) Comprehensive allelotyping of human intrahepatic cholangiocarcinoma. Clin Cancer Res 7:2648-2655
36. Nakahara Y, Shiraishi T, Okamoto H, Mineta T, Oishi T, Sasaki K, Tabuchi K (2004) Detrended fluctuation analysis of genome-wide copy number profiles of glioblastomas using array-based comparative genomic hybridization. Neuro-oncol 6:281-289
37. Ong TM, Song B, Qian HW, Wu ZL, Whong WZ (1998) Detection of genomic instability in lung cancer tissues by random amplified polymorphic DNA analysis. Carcinogenesis 19:233-235
38. Patel T (2001) Increasing incidence and mortality of primary intrahepatic cholangiocarcinoma in the United States. Hepatology 33:1353-1357
39. Pei J, Balsara BR, Li W, Litwin S, Gabrielson E, Feder M, Jen J, Testa JR (2001) Genomic imbalances in human lung adenocarcinomas and squamous cell carcinomas. Genes Chromosomes Cancer 31:282-287
40. Ṕerez C, Vandesompele J, Vandenbroucke I, Holtappels G, Speleman F, Gevaert P, Van Cauwenberge P, Bachert C (2003) Quantitative real time polymerase chain reaction for measurement of human interleukin-5 receptor alpha spliced isoforms mRNA. BMC Biotechnol 3:17
41. Petmitr S, Pinlaor S, Thousungnoen A, Karalak A, Migasena P (1998) K-ras oncogene and p53 gene mutations in cholangiocarcinoma from Thai patients. Southeast Asian J Trop Med Public Health 29:71-75
42. Rao UN, Gollin SM, Beaves S, Cieply K, Nalesnik M, Michalopoulos GK (2001) Comparative genomic hybridization of hepatocellular carcinoma: correlation with fluorescence in situ hybridization in paraffin-embedded tissue. Mol Diagn 6:27-37
43. Rayet B, Gelinas C (1999) Aberrant rel/nfkb genes and activity in human cancer. Oncogene 18:6938-6947
44. Sell S, Dunsford HA (1989) Evidence for the stem cell origin of hepatocellular carcinoma and cholangiocarcinoma. Am J Pathol 134:1347-1363
45. Shiraishi K, Okita K, Kusano N, Harada T, Kondoh S, Okita S, Ryozawa S, Ohmura R, Noguchi T, Iida Y, Akiyama T, Oga A, Fukumoto Y, Furuya T, Kawauchi S, Sasaki K (2001) A comparison of DNA copy number changes detected by comparative genomic hybridization in malignancies of the liver, biliary tract and pancreas. Oncology 60:151-161
46. Siebenlist U, Franzoso G, Brown K (1994) Structure, regulation and function of NF-kappa B. Annu Rev Cell Biol 10:405-455
47. Singh KP, Roy D (2001) Identification of novel breast tumor-specific mutation(s) in the q11.2 region of chromosome 17 by RAPD/AP-PCR fingerprinting. Gene 269:33-43
48. Sirivatanauksorn Y, Sirivatanauksorn V, Bhattacharya S, Davidson BR, Dhillon AP, Kakkar AK, Williamson RC, Lemoine NR (1999) Evolution of genetic abnormalities in hepatocellular carcinomas demonstrated by DNA fingerprinting. J Pathol 189:344-350
49. Sood AK, Buller RE (1996) Genomic instability in ovarian cancer: a reassessment using an arbitrarily primed polymerase chain reaction. Oncogene 13:2499-2504
50. Stallings RL, Howard J, Dunlop A, Mullarkey M, McDermott M, Breatnach F, O'Meara A (2003) Are gains of chromosomal regions 7q and 11p important abnormalities in neuroblastoma? Cancer Genet Cytogenet 140:133-137
51. Tannapfel A, Benicke M, Katalinic A, Uhlmann D, Kockerling F, Hauss J, Wittekind C (2000) Frequency of p16(INK4A) alterations and K-ras mutations in intrahepatic cholangiocarcinoma of the liver. Gut 47:721-727
52. Taoka H, Kawarada Y (1997) Intrahepatic bile duct carcinoma (cholangiocarcinoma). J Jpn Surg Soc 98:484-490
53. Tapper J, Butzow R, Wahlstrom T, Seppala M, Knuutila S (1997) Evidence for divergence of DNA copy number changes in serous, mucinous and endometrioid ovarian carcinomas. Br J Cancer 75:1782-1787
54. Tullo A, D' Erchia AM, Honda K, Kelly MD, Habib NA, Saccone C, Sbisa E (2000) New p53 mutations in hilar cholangiocarcinoma. Eur J Clin Invest 30:798-803
55. Watanabe T, Yonekura H, Terazono K, Yamamoto H, Okamoto H (1990) Complete nucleotide sequence of human reg gene and its expression in normal and tumoral tissues. The reg protein, pancreatic stone protein, and pancreatic thread protein are one and the same product of the gene. Biol Chem 265:7432-7439
56. Welsh J, McClelland M (1990) Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res 18:7213-7218
57. Williams JG, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531-6535
58. Wulczyn FG, Krappmann D, Scheidereit C (1996) The NF-kappa B/Rel and 1 kappa B gene families: mediators of immune response and inflammation. J Mol Med 74:749-769
59. Xie D, Jauch A, Miller CW, Bartram CR, Koeffler HP (2002) Discovery of over-expressed genes and genetic alterations in breast cancer cells using a combination of suppression subtractive hybridization, multiplex FISH and comparative genomic hybridization. Int J Oncol 21:499-507
60. Yamamoto M, Takasaki K, Yoshikawa T, Ueno K, Nakano M (1998) Does gross appearance indicate prognosis in intrahepatic cholangiocarcinoma. J Surg Oncol 69:162-167
61. Zhang SH, Cong WM, Xian ZH, Dong H, Wu MC (2004) Genomic instability in hepatocellular carcinoma revealed by using the random amplified polymorphic DNA method. J Cancer Res Clin Oncol 130:757-761