Selective enumeration strategies for Brevundimonas diminuta from drinking water

Journal of Industrial Microbiology and Biotechnology

Volumn 37, Issue 4, 2010, Pages 407-417

  Donofrio, Robert Scott ^a,b   Bestervelt, Lorelle L ^a   Saha, Ratul ^b   Bagley, Susan T ^b  

^a NSF INTERNATIONAL   (United States)

^b MICHIGAN TECHNOLOGICAL UNIVERSITY   (United States)

Author keywords

16S rRNA; Brevundimonas diminuta; GyrB; Principal component analysis; RpoD

Indexed keywords

AMPICILLIN; BACTERIAL PROTEIN; CEFEPIME; CEFTAZIDIME; DNA TOPOISOMERASE (ATP HYDROLYSING) B; DRINKING WATER; KANAMYCIN; LEVOFLOXACIN; PROTEIN RPOD; RNA 16S; TETRACYCLINE; UNCLASSIFIED DRUG;

ALPHAPROTEOBACTERIA; ANTIBIOTIC RESISTANCE; ANTIBIOTIC SENSITIVITY; ARTICLE; BACTERIAL METABOLISM; BACTERIUM IDENTIFICATION; BETAPROTEOBACTERIA; BIOCHEMISTRY; BREVUNDIMONAS DIMINUTA; CARBON SOURCE; CAULOBACTER; CONTROLLED STUDY; NONHUMAN; NUCLEOTIDE SEQUENCE; PLATE COUNT; PRINCIPAL COMPONENT ANALYSIS; RNA SEQUENCE; SEQUENCE ALIGNMENT; SPHINGOMONAS;

BACTERIAL TYPING TECHNIQUES; CAULOBACTERACEAE; CLUSTER ANALYSIS; COLONY COUNT, MICROBIAL; CULTURE MEDIA; DNA GYRASE; DNA, BACTERIAL; DNA, RIBOSOMAL; DNA-DIRECTED RNA POLYMERASES; MICROBIAL SENSITIVITY TESTS; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL, 16S; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS, DNA; SIGMA FACTOR; WATER MICROBIOLOGY; WATER PURIFICATION;

ALPHAPROTEOBACTERIA; BETAPROTEOBACTERIA; BREVUNDIMONAS DIMINUTA; CAULOBACTER; SPHINGOMONAS;

EID: 77952238684     PISSN: 13675435     EISSN: 14765535     Source Type: Journal    
DOI: 10.1007/s10295-010-0689-6     Document Type: Article

References (39)

1. MJ Allen SC Edberg DJ Reasoner 2004 Heterotrophic plate count bacteria-what is their significance in drinking water Int J Food Microbiol 92 265 274 10.1016/j.ijfoodmicro.2003.08.017 10.1016/j.ijfoodmicro.2003.08.017 15145585 (Pubitemid 38625562)
2. SF Altschul TL Madden AA Schaffer J Zhang Z Zhang W Miller DJ Lipman 1997 Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Nucleic Acids Res 25 3389 3402 10.1093/nar/25.17.3389 1:CAS:528:DyaK2sXlvFyhu7w%3D 9254694 (Pubitemid 27359211)
3. American Public Health Association (1998) Standard methods for the examination of water and wastewater, 18th edn. American Public Health Association, Washington, DC
4. American Society of Testing Materials Standard (2001) D 3862-80, Standard test method for retention characteristics of 0.2-μm membrane filters used in routine filtration procedures for the evaluation of microbiological water quality. ASTM International, West Conshohocken, PA. doi: 10.1520/D3862-80R01
5. American Water Works Association (1999) In: Letterman RD (ed) Water quality and treatment, 5th edn. McGraw-Hill, New York
6. S Atkinson 2005 Membrane and filtration companies aid Katrina recovery efforts Membr Technol 2005 7 8 10.1016/S0958-2118(05)70549-8 (Pubitemid 41700318)
7. WD Burrows SE Renner 1999 Biological warfare agents as threats to potable water Environ Health Perspect 107 975 984 1:CAS:528:DC%2BD3cXltFWrsA%3D%3D 10585901
8. AM Cladera A Bennasar M Barcelo J Lalucat E Garcia-Valdes 2004 Comparative genetic diversity of Pseudomonas stutzeri Genomovars, clonal structure, and phylogeny of the species J Bacteriol 186 5239 5248 10.1128/JB.186.16.5239-5248.2004 10.1128/JB.186.16.5239-5248.2004 1:CAS:528:DC%2BD2cXmvVKhtb4%3D 15292125 (Pubitemid 39038127)
9. JR Cole Q Wang E Cardenas J Fish B Chail RJ Farris AS Kulam-Syed-Mohideen DM McGarrell T Marsh GM Garrity JM Tiedje 2008 The ribosomal database project: improved alignments and new tools for rRNA analysis Nucleic Acids Res 37 141 145 10.1093/nar/gkn879
10. Gan G, Ma C, Wu J (2007) Data clustering theory, algorithms, and applications. SIAM, Philadelphia
11. MH Griffiths PW Andrew PR Ball GM Hall 2000 Rapid methods for testing the efficacy of sterilization-grade filter membranes Appl Environ Microbiol 66 3432 3437 10.1128/AEM.66.8.3432-3437.2000 1:CAS:528:DC%2BD3cXlsFars7k%3D 10919803 (Pubitemid 30624587)
12. XY Han RA Andrade 2005 Brevundimonas diminuta infections and its resistance to fluoroquinolones J Antimicrob Chemother 55 853 859 10.1093/jac/dki139 10.1093/jac/dki139 1:CAS:528:DC%2BD2MXmtVars78%3D 15883180 (Pubitemid 40883167)
13. JJ Janas 1999 Verifying membrane filter-based bacterial removal using titer reduction Med Device Diagn Ind 21 81 87
14. M Jeena P Deepaa K Mujeeb Rahimana R Shanthia A Hatha 2006 Risk assessment of heterotrophic bacteria from bottled drinking water sold in Indian markets Int J Hyg Environ Heal 209 191 196 10.1016/j.ijheh.2005.11.003 10.1016/j.ijheh.2005.11.003 1:STN:280:DC%2BD287hslCqtg%3D%3D (Pubitemid 43288162)
15. CM Kaltenbach CW Moss RE Weaver 1975 Cultural and biochemical characteristics and fatty acid composition of Pseudomonas diminuta and Pseudomonas vesiculare J Clin Microbiol 1 339 344 1:CAS:528:DyaE2MXksVSisrs%3D 1176607
16. Kaufman L, Rousseeuw PJ (2005) Finding groups in data: an introduction to cluster analysis. Wiley, New York
17. M Kawai E Matsutera H Kanda N Yamaguchi K Tani M Nasu 2002 16S ribosomal DNA-based analysis of bacterial diversity in purified water used in pharmaceutical manufacturing processes by PCR and denaturing gradient gel electrophoresis Appl Environ Microbiol 68 699 704 10.1128/AEM.68.2.699-704.2002 10.1128/AEM.68.2.699-704.2002 1:CAS:528:DC%2BD38XhtV2ns74%3D 11823209 (Pubitemid 34113058)
18. A Martiny H Albrechtsen E Arvin S Molin 2005 Identification of bacteria in biofilm and bulk water samples from a nonchlorinated model drinking water distribution system: detection of a large nitrite-oxidizing population associated with Nitrospira spp Appl Environ Microbiol 71 8611 8617 10.1128/AEM.71.12.8611-8617.2005 10.1128/AEM.71.12.8611-8617.2005 1:CAS:528:DC%2BD2MXhtlehtbvL 16332854 (Pubitemid 41803995)
19. McKinsey PC, Franck MM, Fliermans CB (2000) Biolog ID as compared to 16S ribosomal RNA ID for environmental isolates from the deep subsurface. US Department of Energy. WSRC-MS-2000-00306
20. Montgomery JM (1985) Water treatment principles and design. Wiley, New York
21. National Committee for Clinical Laboratory Standards (2003) Performance standards for antimicrobial disk susceptibility tests, 8th edn. Approved standard M2-A8. National Committee for Clinical Laboratory Standards, Wayne
22. D Pavlov C de Wet W Grabow M Ehlers 2004 Potentially pathogenic features of heterotrophic plate count bacteria isolated from treated and untreated drinking water Int J Food Microbiol 92 275 287 10.1016/j.ijfoodmicro.2003.08.018 10.1016/j.ijfoodmicro.2003.08.018 1:STN:280:DC%2BD2c3kslWjtA%3D%3D 15145586 (Pubitemid 38625563)
23. V Penna S Alzira M Martins P Mazzola 2002 Identification of bacteria in drinking and purified water during the monitoring of a typical water purification system BMC Public Health 2 13 10.1186/1471-2458-2-13 10.1186/1471-2458-2-13 12182763
24. X Qin J Emerson J Stapp L Stapp P Abe JL Burns 2003 Use of real-time PCR with multiple targets to identify Pseudomonas aeruginosa and other nonfermenting gram-negative bacilli from patients with cystic fibrosis J Clin Microbiol 41 4312 4317 10.1128/JCM.41.9.4312-4317.2003 10.1128/JCM.41.9.4312-4317.2003 1:CAS:528:DC%2BD3sXnvFaqtbg%3D 12958262 (Pubitemid 37099701)
25. DJ Reasoner EE Geldreich 1985 A new medium for the enumeration and subculture of bacteria from potable water Appl Environ Microbiol 49 1 7 1:CAS:528:DyaL2MXhsVGltr8%3D 3883894
26. MJ Saavedra MJ Figueras AJ Martinez-Murcia 2006 Updated phylogeny of the genus Aeromonas Int J Syst Evol Microbiol 56 2481 2487 10.1099/ijs.0.64351-0 10.1099/ijs.0.64351-0 1:CAS:528:DC%2BD28Xht1Wnur7J 17012583 (Pubitemid 44566828)
27. Sambrook J, Russell D (2001) Molecular cloning: a laboratory manual, 3rd edn. CSHL Press, New York. ISBN 978-087969577-4
28. LI Sly TL Cox TB Beckenham 1999 The phylogenetic relationships of Caulobacter, Asticcacaulis and Brevundimonas species and their taxonomic implications Int J Syst Bacteriol 49 483 488 10.1099/00207713-49-2-483 10319468
29. S Sundaram J Eisenhuth G Howard Jr H Brandwein 2001 Method for qualifying microbial removal performance of 0.1 micron rated filters. Part I: characterization of water isolates for potential use as standard challenge organisms to qualify 0.1 micro rated filters PDA J Pharm Sci Technol 55 266 267
30. MA Taylor EF Alambra J Anes J Behnke B Enachescu CL Fitzgerald M Fortado ML Sizelove 2004 Remote site production of sterile purified water from available surface water Prehosp Disaster Med 19 266 277 15571203
31. JD Thompson DG Higgins TJ Gibson 1994 CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res 22 4673 4680 10.1093/nar/22.22.4673 1:CAS:528:DyaK2MXitlSgu74%3D 7984417
32. US Environmental Protection Agency (2004) NSF 04/14/EPADWCTR. Environmental Technology Verification report: physical removal of microbial contamination agents in drinking water
33. US Environmental Protection Agency (2004) Water security research and technical support action plan
34. US Environmental Protection Agency (1988) Guide standard for the water purifiers
35. K Watanabe J Nelson S Harayama H Kasai 2001 ICB database: the gyrB database for identification and classification of bacteria Nucleic Acids Res 29 344 345 10.1093/nar/29.1.344 1:CAS:528:DC%2BD3MXjtlWlsLs%3D 11125132
36. KP Weber JA Grove M Gehder WA Anderson RL Legge 2007 Data transformations in the analysis of community-level substrate utilization data from microplates J Microbiol Meth 69 461 469 10.1016/j.mimet.2007.02.013 10.1016/j.mimet.2007.02. 013 1:CAS:528:DC%2BD2sXkvFGhur8%3D (Pubitemid 46670372)
37. MM Williams JWS Domingo MC Meckes CA Kelty HS Rochon 2004 Phylogenetic diversity of drinking water bacteria in a distribution system simulator J Appl Microbiol 96 954 964 10.1111/j.1365-2672.2004.02229.x 10.1111/j.1365-2672.2004. 02229.x 1:CAS:528:DC%2BD2cXksFOlsLw%3D 15078511 (Pubitemid 38582141)
38. World Health Organization (2003) In: Bartram J, Cotruvo J, Exner M, Fricker C, Glasmacher A (eds) Heterotrophic plate counts and drinking-water safety: the significance of HPCs for water quality and the human health. IWA, London. ISBN 1843390256
39. S Yamamoto S Harayama 1998 Phylogenetic relationships of Pseudomonas putida strains deduced from the nucleotide sequences of gyrB, rpoD and 16S rRNA genes Int J Syst Bacteriol 48 813 819 10.1099/00207713-48-3-813 1:CAS:528:DyaK1cXmt1Sgsb8%3D 9734035