Identification of microbial DNA in human cancer

BMC Medical Genomics

Volumn 2, Issue , 2009, Pages

  Duncan, Christopher G ^a   Leary, Rebecca J ^b   Lin, Jimmy Cheng Ho ^b   Cummins, Jordan ^b   Di, Chunhui ^a   Schaefer, Carl F ^c   Wang, Tian Li ^b   Riggins, Gregory J ^d   Edwards, Jennifer ^d   Bigner, Darell ^a   Kopelovich, Levy ^c   Vogelstein, Bert ^b   Kinzler, Kenneth W ^b   Velculescu, Victor E ^a,b   Yan, Hai ^a  

^a DUKE UNIVERSITY MEDICAL CENTER   (United States)

^b JOHNS HOPKINS UNIVERSITY   (United States)

^c NATIONAL CANCER INSTITUTE   (United States)

^d JOHNS HOPKINS UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; GENOMIC DNA; VIRUS DNA;

ARTICLE; BACTERIUM IDENTIFICATION; BRAIN CANCER; CARCINOGENESIS; COLORECTAL CANCER; DIGITAL KARYOTYPING MICROBE IDENTIFICATION; DNA LIBRARY; HUMAN; HUMAN HERPESVIRUS 6; KARYOTYPING; LIVER METASTASIS; MALIGNANT NEOPLASTIC DISEASE; MICROBIAL IDENTIFICATION; NONHUMAN; OVARY CANCER; PRIORITY JOURNAL; VIRUS CARCINOGENESIS; VIRUS IDENTIFICATION;

BACTERIA (MICROORGANISMS); HUMAN HERPESVIRUS 6;

EID: 66149190680     PISSN: None     EISSN: 17558794     Source Type: Journal    
DOI: 10.1186/1755-8794-2-22     Document Type: Article

References (34)

1. The challenge of emerging and re-emerging infectious diseases. DM Morens GK Folkers AS Fauci, Nature 2004 430 6996 242 249 15241422 10.1038/nature02759
2. The search for unrecognized pathogens. DA Relman, Science 1999 284 5418 1308 1310 10334977 10.1126/science.284.5418.1308
3. New technologies, human-microbe interactions, and the search for previously unrecognized pathogens. DA Relman, J Infect Dis 2002 186 Suppl 2 S254 258 12424706 10.1086/344935
4. The global health burden of infection-associated cancers in the year 2002. DM Parkin, Int J Cancer 2006 118 12 3030 3044 16404738 10.1002/ijc.21731
5. Bacteria and cancer: cause, coincidence or cure? A review. DL Mager, J Transl Med 2006 4 14 16566840 10.1186/1479-5876-4-14
6. Presence of Streptococcus anginosus DNA in esophageal cancer, dysplasia of esophagus, and gastric cancer. H Sasaki T Ishizuka M Muto M Nezu Y Nakanishi Y Inagaki H Watanabe M Terada, Cancer Res 1998 58 14 2991 2995 9679961 (Pubitemid 28335077)
7. The agent of bacillary angiomatosis. An approach to the identification of uncultured pathogens. DA Relman JS Loutit TM Schmidt S Falkow LS Tompkins, N Engl J Med 1990 323 23 1573 1580 2233945
8. Identification of a novel Gammaretrovirus in prostate tumors of patients homozygous for R462Q RNASEL variant. A Urisman RJ Molinaro N Fischer SJ Plummer G Casey EA Klein K Malathi C Magi-Galluzzi RR Tubbs D Ganem, PLoS Pathog 2006 2 3 e25 16609730 10.1371/journal.ppat.0020025
9. Viral and microbial genotyping by a combination of multiplex competitive hybridization and specific extension followed by hybridization to generic tag arrays. B Gharizadeh M Kaller P Nyren A Andersson M Uhlen J Lundeberg A Ahmadian, Nucleic Acids Res 2003 31 22 e146 14602939 10.1093/nar/gng147
10. Microarray-based detection and genotyping of viral pathogens. D Wang L Coscoy M Zylberberg PC Avila HA Boushey D Ganem JL DeRisi, Proc Natl Acad Sci USA 2002 99 24 15687 15692 12429852 10.1073/pnas.242579699
11. Viral discovery and sequence recovery using DNA microarrays. D Wang A Urisman YT Liu M Springer TG Ksiazek DD Erdman ER Mardis M Hickenbotham V Magrini J Eldred, PLoS Biol 2003 1 2 E2 14624234 10.1371/journal.pbio.0000002
12. Evaluation of human papillomavirus-consensus primers for HPV detection by the polymerase chain reaction. DG Harnish LM Belland EE Scheid TE Rohan, Mol Cell Probes 1999 13 1 9 21 10024428 10.1006/mcpr.1998.0203
13. Cloning the differences between two complex genomes. N Lisitsyn N Lisitsyn M Wigler, Science 1993 259 5097 946 951 8438152 10.1126/science.8438152 (Pubitemid 23080660)
14. Pathogen discovery from human tissue by sequence-based computational subtraction. Y Xu N Stange-Thomann G Weber R Bo S Dodge RG David K Foley J Beheshti NL Harris B Birren, Genomics 2003 81 3 329 335 12659816 10.1016/S0888-7543(02)00043-5
15. Genomic representations using concatenates of Type IIB restriction endonuclease digestion fragments. T Tengs T LaFramboise RB Den DN Hayes J Zhang S DebRoy RC Gentleman K O'Neill B Birren M Meyerson, Nucleic Acids Res 2004 32 15 e121 15329383 10.1093/nar/gnh120
16. Identification of foreign gene sequences by transcript filtering against the human genome. G Weber J Shendure DM Tanenbaum GM Church M Meyerson, Nat Genet 2002 30 2 141 142 11788827
17. Human transcriptome subtraction by using short sequence tags to search for tumor viruses in conjunctival carcinoma. H Feng JL Taylor PV Benos R Newton K Waddell SB Lucas Y Chang PS Moore, J Virol 2007 81 20 11332 11340 17686852 10.1128/JVI.00875-07
18. Identification of herpesvirus-like DNA sequences in AIDS-associated Kaposi's sarcoma. Y Chang E Cesarman MS Pessin F Lee J Culpepper DM Knowles PS Moore, Science 1994 266 5192 1865 1869 7997879 10.1126/science.7997879
19. Serial analysis of gene expression. VE Velculescu L Zhang B Vogelstein KW Kinzler, Science 1995 270 5235 484 487 7570003 10.1126/science.270.5235.484
20. Using the transcriptome to annotate the genome. S Saha AB Sparks C Rago V Akmaev CJ Wang B Vogelstein KW Kinzler VE Velculescu, Nat Biotechnol 2002 20 5 508 512 11981567 10.1038/nbt0502-508
21. Clonal integration of a polyomavirus in human Merkel cell carcinoma. H Feng M Shuda Y Chang PS Moore, Science 2008 319 5866 1096 1100 18202256 10.1126/science.1152586
22. Digital karyotyping. TL Wang C Maierhofer MR Speicher C Lengauer B Vogelstein KW Kinzler VE Velculescu, Proc Natl Acad Sci USA 2002 99 25 16156 16161 12461184 10.1073/pnas.202610899
23. Digital karyotyping technology: exploring the cancer genome. TJ Parrett H Yan, Expert Rev Mol Diagn 2005 5 6 917 925 16255633 10.1586/14737159.5.6.917
24. A phosphatase associated with metastasis of colorectal cancer. S Saha A Bardelli P Buckhaults VE Velculescu C Rago B St Croix KE Romans MA Choti C Lengauer KW Kinzler, Science 2001 294 5545 1343 1346 11598267 10.1126/science.1065817
25. Digital karyotyping. RJ Leary J Cummins TL Wang VE Velculescu, Nat Protoc 2007 2 8 1973 1986 17703209 10.1038/nprot.2007.276
26. NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. KD Pruitt T Tatusova DR Maglott, Nucleic Acids Res 2007 35 Database D61 65 17130148 10.1093/nar/gkl842
27. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. SF Altschul TL Madden AA Schaffer J Zhang Z Zhang W Miller DJ Lipman, Nucleic Acids Res 1997 25 17 3389 3402 9254694 10.1093/nar/25.17.3389
28. Human B lymphocytes immortalization by Epstein-Barr virus in the presence of cyclosporin A. F Pelloquin JP Lamelin GM Lenoir, In Vitro Cell Dev Biol 1986 22 12 689 694 3023278 10.1007/BF02621085 (Pubitemid 17023991)
29. Epstein-Barr virus infection: basis of malignancy and potential for therapy. PG Murray LS Young, Expert Rev Mol Med 2001 3 28 1 20 14585152 10.1017/S1462399401003842
30. Highly efficient induction of type C retroviruses by a human tumor in athymic mice. JW Gautsch AF Knowles FC Jensen NO Kaplan, Proc Natl Acad Sci USA 1980 77 4 2247 2250 6246530 10.1073/pnas.77.4.2247 (Pubitemid 10093439)
31. Klebsiella spp. as nosocomial pathogens: epidemiology, taxonomy, typing methods, and pathogenicity factors. R Podschun U Ullmann, Clin Microbiol Rev 1998 11 4 589 603 9767057 (Pubitemid 28497563)
32. Taxonomy and pathogenesis of the Burkholderia cepacia complex. E Mahenthiralingam P Vandamme, Chron Respir Dis 2005 2 4 209 217 16541604 10.1191/1479972305cd053ra
33. Three new human herpesviruses (HHV6, 7, and 8). JA Levy, Lancet 1997 349 9051 558 563 9048803 10.1016/S0140-6736(97)80119-5
34. The role of viral and bacterial pathogens in gastrointestinal cancer. M Selgrad P Malfertheiner L Fini A Goel CR Boland L Ricciardiello, J Cell Physiol 2008 216 2 378 388 18338378 10.1002/jcp.21427