Polymerase chain reaction detection of bacterial 16S rRNA gene in human blood

Microbiology and Immunology

Volumn 52, Issue 7, 2008, Pages 375-382

  Moriyama, Kosei ^a   Ando, Chie ^b   Tashiro, Kosuke ^b   Kuhara, Satoru ^b,c   Okamura, Seiichi ^b   Nakano, Shuji ^a   Takagi, Yasumitsu ^b   Miki, Takeyoshi ^b   Nakashima, Yoshiyuki ^b   Hirakawa, Hideki ^c  

^a NAKAMURA GAKUEN UNIVERSITY   (Japan)

^b NATIONAL HOSPITAL ORGANIZATION KYUSHU MEDICAL CENTER   (Japan)

^c KYUSHU UNIVERSITY   (Japan)

Author keywords

16S ribosomal RNA; Bacteremia; Blood; Polymerase chain reaction

Indexed keywords

BACTERIAL RNA; RNA 16S; BACTERIAL DNA; RIBOSOME DNA;

ACINETOBACTER; AMINOBACTER; ARTICLE; BACILLUS; BACTEROIDES; BIFIDOBACTERIUM; BLOOD ANALYSIS; BREVUNDIMONAS; BURKHOLDERIA; BUTYRIVIBRIO; CAULOBACTER; CLOSTRIDIUM; COMAMONAS; CONTROLLED STUDY; DESULFOVIBRIO; DNA SEQUENCE; ENTEROBACTER; ENTEROCOCCUS; EUBACTERIUM; FLAVOBACTERIUM; GENE CLUSTER; HUMAN; INTESTINE FLORA; LACTOBACILLUS; MOLECULAR CLONING; NORMAL HUMAN; NUCLEOTIDE SEQUENCE; PEPTOSTREPTOCOCCUS; POLYMERASE CHAIN REACTION; PORPHYROMONAS; PROPIONIBACTERIUM; PSEUDOMONAS; RHIZOBIUM; ROTHIA; RUMINOCOCCUS; SERRATIA; SPOROSARCINA; STENOTROPHOMONAS; STREPTOCOCCUS; TANNERELLA; UNINDEXED SEQUENCE; XANTHOMONAS; BACTEREMIA; BACTERIUM; BLOOD; CLASSIFICATION; GENETICS; ISOLATION AND PURIFICATION; METHODOLOGY; MICROBIOLOGY;

AQUABACTERIUM; BACILLUS (BACTERIUM); BACTERIA (MICROORGANISMS); BACTEROIDES; BUDVICIA; CLOSTRIDIUM; FLAVOBACTERIA; LACTOBACILLUS; SERRATIA; STENOTROPHOMONAS;

BACTEREMIA; BACTERIA; BLOOD; DNA, BACTERIAL; DNA, RIBOSOMAL; HUMANS; POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 16S;

EID: 52049105174     PISSN: 03855600     EISSN: 13480421     Source Type: Journal    
DOI: 10.1111/j.1348-0421.2008.00048.x     Document Type: Article

References (29)

1. Anthony R.M., Brown T.J., French G.L. (2000) Rapid diagnosis of bacteremia by universal amplification of 23S ribosomal DNA followed by hybridization to an oligonucleotide array. J Clin Microbiol 38: 781-8.
2. Cursons R.T., Jeyerajah E., Sleigh J.W. (1999) The use of polymerase chain reaction to detect septicemia in critically ill patients. Crit Care Med 27: 937-40.
3. Kotilainen P., Jalava J., Meurman O., Lehtonen O.P., Rintala E., Seppälä O.P. et al. (1998) Diagnosis of meningococcal meningitis by broad-range bacterial PCR with cerebrospinal fluid. J Clin Microbiol 36: 2205-9.
4. Ley B.E., Linton C.J., Bennett D.M., Jalal H., Foot A.B., Millar M.R. (1998) Detection of bacteraemia in patients with fever and neutropenia using 16S rRNA gene amplification by polymerase chain reaction. Eur J Clin Microbiol Infect Dis 17: 247-53.
5. Rantakokko-Jalava K., Nikkari S., Jalava J., Eerola E., Skurnik M., Meurman O. et al. (2000) Direct amplification of rRNA genes in diagnosis of bacterial infections. J ClinMicrobiol 38: 32-9.
6. van der Vliet G.M., Schukkink R.A., van Gemen B., Schepers P., Klatser P.R. (1993) Nucleic acid sequence-based amplification (NASBA) for the identification of mycobacteria. J GenMicrobiol 139: 2423-9.
7. Kroes I., Lepp P.W., Relman D.A. (1999) Bacterial diversity within the human subgingival crevice. Proc Natl Acad Sci USA 96: 14 547-52.
8. Nakanishi S., Kataoka K., Kuwahara T., Ohnishi Y. (2003) Effects of high amylose maize starch and Clostridium butyricum on metabolism in colonic microbiota and formation of azoxymethane-induced aberrant crypt foci in the rat colon. Microbiol Immunol 47: 951-8.
9. Zucol F., Ammann R.A., Berger C., Aebi C., Altwegg M., Niggli F.K. et al. (2006) Real-time quantitative broad-range PCR assay for detection of the 16S rRNA gene followed by sequencing for species identification. J ClinMicrobiol 44: 2750-9.
10. Hayashi H., Takahashi R., Nishi T., Sakamoto M., Benno Y. (2005) Molecular analysis of jejunal, ileal, caecal and recto-sigmoidal human colonic microbiota using 16S rRNA gene libraries and terminal restriction fragment length polymorphism. J Med Microbiol 54: 1093-101.
11. Brecher M.E., Hay S.N. (2005) Bacterial contamination of blood components. Clin Microbiol Rev 18: 195-204.
12. McLaughlin R.W., Vali H., Lau P.C.K., Palfree R.G.E., De Ciccio A., Sirois M. et al. (2002) Are there naturally occurring pleomorphic bacteria in the blood of healthy humans? J ClinMicrobiol 40: 4771-5.
13. Nikkari S., McLaughlin I.J., Bi W., Dodge D.E., Relman D.A. (2001) Does blood of healthy subjects contain bacterial ribosomal DNA? J Clin Microbiol 39: 1956-9.
14. Loesche W.J. (1997) Association of the oral flora with important medical diseases. Curr Opin Periodontol 4: 21-8.
15. Ohsuzu F. (2004) The roles of cytokines, inflammation and immunity in vascular diseases. J Atheroscler Thromb 11: 313-21.
16. Stoll L.L., Denning G.M.,Weintraub N.L. (2004) Potential role of endotoxin as a proinflammatory mediator of atherosclerosis. Arterioscler Thromb Vasc Biol 24: 2227-36.
17. Cole J.R., Chai B., Farris R.J., Wang Q., Kulam-Syed-Mohideen A.S., McGarrell D.M. et al. (2007) The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data. Nucleic Acids Res 35: D169-72.
18. Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W. et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-402.
19. Thompson J.D., Higgins D.G., Gibson T.J. (1994) CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673-80.
20. Perrière G., Gouy M. (1996) WWW-Query: An on-line retrieval system for biological sequence banks. Biochimie 78: 364-9.
21. Cho J.C., Kim S.J. (2000) Increase in bacterial community diversity in subsurface aquifers receiving livestock wastewater input. Appl Environ Microbiol 66: 956-65.
22. Corless C.E., Guiver M., Borrow R., Edwards-Jones V., Kaczmarski E.B., Fox A.J. (2000) Contamination and sensitivity issues with a real-time universal 16S rRNA PCR. J ClinMicrobiol 38: 1747-52.
23. Hughes M.S., Beck L.A., Skuce R.A. (1994) Identification and elimination of DNA sequences in Taq DNA polymerase. J Clin Microbiol 32: 2007-8.
24. Rand K.H., Houck H. (1990) Taq polymerase contains bacterial DNA of unknown origin.Mol Cell Probes 4: 445-50.
25. Tanner M.A., Goebel B.M., Dojka M.A., Pace N.R. (1998) Specific ribosomal DNA sequences from diverse environmental settings correlate with experimental contaminants. Appl Environ Microbiol 64: 3110-13.
26. Kumar P.S., Griffen A.L., Moeschberger M.L., Leys E.J. (2005) Identification of candidate periodontal pathogens and beneficial species by quantitative 16S clonal analysis. J ClinMicrobiol 43: 3944-55.
27. Paster B.J., Boches S.K., Galvin J.L., Ericson R.E., Lau C.N., Levanos V.A. et al. (2001) Bacterial diversity in human subgingival plaque. J Bacteriol 183: 3770-83.
28. Sakamoto M., Umeda M., Ishikawa I., Benno Y. (2000) Comparison of the oral bacterial flora in saliva from a healthy subject and two periodontitis patients by sequence analysis of 16S rDNA libraries. Microbiol Immunol 44: 643-52.
29. Kurokawa K., Itoh T., Kuwahara T., Oshima K., Toh H., Toyoda A. et al. (2007) Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes. DNA Res 14: 169-81.