Application of quantitative real-time PCR for rapid identification of Bacteroides fragilis group and related organisms in human wound samples

Anaerobe

Volumn 17, Issue 2, 2011, Pages 64-68

  Tong, Jia ^a,b,c   Liu, Chengxu ^b   Summanen, Paula ^b   Xu, Huaxi ^c   Finegold, Sydney M ^a,b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b VA GREATER LOS ANGELES HEALTHCARE SYSTEM   (United States)

^c JIANGSU UNIVERSITY   (China)

Author keywords

Bacteroides fragilis group; QRT PCR; Wound samples

Indexed keywords

BACTERIAL DNA; RNA 16S;

16S RRNA GENE; ARTICLE; BACTERIAL LOAD; BACTERIUM CULTURE; BACTERIUM DETECTION; BACTERIUM IDENTIFICATION; BACTEROIDES; BACTEROIDES CACCAE; BACTEROIDES DISTASONIS; BACTEROIDES EGGERTHII; BACTEROIDES FRAGILIS; BACTEROIDES MERDAE; BACTEROIDES OVATUS; BACTEROIDES SPLANCHNICUS; BACTEROIDES STERCORIS; BACTEROIDES THETAIOTAOMICRON; BACTEROIDES UNIFORMIS; BACTEROIDES VULGATUS; COLONY FORMING UNIT; CONTROLLED STUDY; GENE SEQUENCE; HUMAN; MARKER GENE; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; SURGICAL INFECTION;

ABSCESS; BACTERIOLOGICAL TECHNIQUES; BACTEROIDES FRAGILIS; BACTEROIDES INFECTIONS; DNA PRIMERS; DNA, BACTERIAL; DNA, RIBOSOMAL; HUMANS; OLIGONUCLEOTIDE PROBES; POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 16S; SENSITIVITY AND SPECIFICITY; TIME FACTORS; WOUND INFECTION;

BACTEROIDES CACCAE; BACTEROIDES DISTASONIS; BACTEROIDES EGGERTHII; BACTEROIDES FRAGILIS; BACTEROIDES MERDAE; BACTEROIDES OVATUS; BACTEROIDES SPLANCHNICUS; BACTEROIDES STERCORIS; BACTEROIDES THETAIOTAOMICRON; BACTEROIDES UNIFORMIS; BACTEROIDES VULGATUS;

EID: 79956371183     PISSN: 10759964     EISSN: 10958274     Source Type: Journal    
DOI: 10.1016/j.anaerobe.2011.03.004     Document Type: Article

References (30)

1. Salyers A.A. Bacteroides of the human lower intestinal tract. Annu Rev Microbiol 1984, 38:293-313.
2. Sonnenburg J.L., Angenent L.T., Gordon J.I. Getting a grip on things: how do communities of bacterial symbionts become established in our intestine?. Nat Immunol 2004, 5:569-573.
3. Backhed F., Ley R.E., Sonnenburg J.L., Peterson D.A., Gordon J.I. Host-bacterial mutualism in the human intestine. Science 2005, 307:1915-1920.
4. Freitas M., Tavan E., Cayuela C., Diop L., Sapin C., Trugnan G. Host-pathogens cross-talk. Indigenous bacteria and probiotics also play the game. Biol Cell 2003, 95:503-506.
5. Snydman D.R., Jacobus N.V., McDermott L.A., Supran S., Cuchural G.J., Finegold S., et al. Multicenter study of in vitro susceptibility of B. fragilis group, 1995 to 1996, with comparison of resistance trends from 1990 to 1996. Antimicrob Agents Chemother 1999, 43:2417-2422.
6. Sears C.L., Islam S., Saha A., Arjumand M., Alam N.H., Faruque A.S., et al. Association of enterotoxigenic Bacteroides fragilis infection with inflammatory diarrhea. Clin Infect Dis 2008, 47:797-803.
7. Snydman D.R., Jacobus N.V., McDermott L.A., Ruthazer R., Golan Y., Goldstein E.J., et al. National survey on the susceptibility of Bacteroides fragilis group: report and analysis of trends in the United States from 1997 to 2004. Antimicrob Agents Chemother 2007, 51:1649-1655.
8. Betriu C., Culebras E., Gómez M., López F., Rodríguez-Avial I., Picazo J.J. Resistance trends of the Bacteroides fragilis group over a 10-year period, 1997 to 2006, in Madrid, Spain. Antimicrob Agents Chemother 2008, 52:2686-2690.
9. Odamaki T., Xiao J.Z., Sakamoto M., Kondo S., Yaeshima T., Iwatsuki K., et al. Distribution of different species of the Bacteroides fragilis group in individuals with Japanese cedar pollinosis. Appl Environ Microbiol 2008, 74:6814-6817.
10. Claros M.C., Claros Z.C., Hecht D.W., Citron D.M., Goldstein E.J., Silva J., et al. Characterization of the Bacteroides fragilis pathogenicity island in human blood culture isolates. Anaerobe 2006, 12:17-22.
11. Liu C.Y., Huang Y.T., Liao C.H., Yen L.C., Lin H.Y., Hsueh P.R. Increasing trends in antimicrobial resistance among clinically important anaerobes and Bacteroides fragilis isolates causing nosocomial infections: emerging resistance to carbapenems. Antimicrob Agents Chemother 2008, 52:3161-3168.
12. Miki T., Kuwahara T., Nakayama H., Okada N., Kataoka K., Arimochi H., et al. Simultaneous detection of Bacteroides fragilis group species by leuB-directed PCR. J Med Invest 2005, 52:101-108.
13. Liu C., Song Y., McTeague M., Vu A.W., Wexler H., Finegold S.M. Rapid identification of the species of the Bacteroides fragilis group by multiplex PCR assays using group- and species-specific primers. FEMS Microbiol Lett 2003, 222:9-16.
14. Bae S., Wuertz S. Discrimination of viable and dead fecal Bacteroidales bacteria by quantitative PCR with propidium monoazide. Appl Environ Microbiol 2009, 75:2940-2944.
15. Hardham J.M., King K.W., Dreier K., Wong J., Strietzel C., Eversole R.R., et al. Transfer of Bacteroides splanchnicus to Odoribacter gen. nov. as Odoribacter splanchnicus comb. nov., and description of Odoribacter denticanis sp. nov., isolated from the crevicular spaces of canine periodontitis patients. Int J Syst Evol Microbiol 2008, 58:103-109.
16. Sakamoto M., Benno Y. Reclassification of Bacteroides distasonis, Bacteroides goldsteinii and Bacteroides merdae as Parabacteroides distasonis gen. nov., comb. nov., Parabacteroides goldsteinii comb. nov. and Parabacteroides merdae comb. nov. Int J Syst Evol Microbiol 2006, 56:1599-1605.
17. Jousimies-Somer H., Summanen P., Citron D.M., Baron E.J., Wexler H.M., Finegold S.M. Wadsworth-KTL anaerobic bacteriology manual 2002, Academic Press, Belmont.
18. Finegold S.M., Molitoris D., Song Y., Liu C., Vaisanen M.L., Bolte E., et al. Gastrointestinal microflora studies in late-onset autism. Clin Infect Dis 2002, 35:S6-S16.
19. Song Y., Liu C., Bolanos M., Lee J., McTeague M., Finegold S.M. Evaluation of 16S rRNA sequencing and reevaluation of a short biochemical scheme for identification of clinically significant Bacteroides species. J Clin Microbiol 2005, 43:1531-1537.
20. Benson D.A., Karsch-Mizrachi I., Lipman D.J., Ostell J., Wheeler D.L. GenBank: update. Nucleic Acids Res 2004, 32:23-26.
21. Bunde J., Fitzpatrick M. Estimating the number of species: a review. J Am Stat Assoc 1993, 88:364-373.
22. Finegold S.M., Talan D., Hiyama S., Rowlinson M.C., Summanen P., Molitoris D., et al. Analysis of 400 surgical and traumatic wound infections and closed abscesses by molecular techniques for development of a real-time PCR procedure 2008, abstr. C-110, p. 065/D. Abstr. 108th Gen. Meet. Am Soc Microbiol, American Society for Microbiology, Washington, DC.
23. Sails A.D. Real-time PCR: current technology and applications 2009, Caister Academic Press, London.
24. Boutaga K., van Winkelhoff A.J., Vandenbroucke-Grauls C.M., Savelkoul P.H. Comparison of real-time PCR and culture for detection of Porphyromonas gingivalis in subgingival plaque samples. J Clin Microbiol 2003, 41:4950-4954.
25. Song Y., Liu C., Finegold S.M. Real-time PCR quantitation of clostridia in feces of autistic children. Appl Environ Microbiol 2004, 70:6459-6465.
26. Dowd S.E., Wolcott R.D., Sun Y., McKeehan T., Smith E., Rhoads D. Polymicrobial nature of chronic diabetic foot ulcer biofilm infections determined using bacterial tag encoded FLX amplicon pyrosequencing (bTEFAP). PLoS One 2008, 3:e3326.
27. Ben-Amor K., Heilig H., Smidt H., Vaughan E.E., Abee T., de Vos W.M. Genetic diversity of viable, injured, and dead fecal bacteria assessed by fluorescence-activated cell sorting and 16S rRNA gene analysis. Appl Environ Microbiol 2005, 71:4679-4689.
28. de Lillo A., Ashley F.P., Palmer R.M., Munson M.A., Kyriacou L., Weightman A.J., et al. Novel subgingival bacterial phylotypes detected using multiple universal polymerase chain reaction primer sets. Oral Microbiol Immunol 2006, 21:61-68.
29. Brook I. Pathogenicity of the Bacteroides fragilis group. Ann Clin Lab Sci 1989, 19:360-376.
30. Goldstein E.J. Anaerobic bacteraemia. Clin Infect Dis 1996, 23:S97-101.