Molecular bacterial community analysis of clean rooms where spacecraft are assembled

FEMS Microbiology Ecology

Volumn 61, Issue 3, 2007, Pages 509-521

  Moissl, Christine ^a,c   Osman, Shariff ^a   La Duc, Myron T ^a   Dekas, Anne ^a   Brodie, Eoin ^b   DeSantis, Tadd ^b   Venkateswaran, Kasthuri ^a  

^a CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

^b LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

^c UNIVERSITY OF REGENSBURG   (Germany)

Author keywords

16S rRNA; Astrobiology; Bacterial community analysis; Clean room; Planetary protection; Spacecraft assembly facility

Indexed keywords

BACTERIUM; COMMUNITY STRUCTURE; DESICCATION; MICROBIAL COMMUNITY; MOLECULAR ANALYSIS; SPACECRAFT; SPECIES DIVERSITY;

ACTINOBACTERIA; ALPHAPROTEOBACTERIA; ARTICLE; BACTERIAL FLORA; CONTROLLED STUDY; ENVIRONMENT; FIRMICUTES; GAMMAPROTEOBACTERIA; GENE LIBRARY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLUM; PRIORITY JOURNAL; SPACE FLIGHT; SPHINGOMONAS; STAPHYLOCOCCUS;

AIR MICROBIOLOGY; BACTERIA; CLUSTER ANALYSIS; ECOSYSTEM; ENVIRONMENT, CONTROLLED; ENVIRONMENTAL MICROBIOLOGY; EXTRATERRESTRIAL ENVIRONMENT; PHYLOGENY; RNA, RIBOSOMAL, 16S; SPACECRAFT;

ACTINOBACTERIA; BACTERIA (MICROORGANISMS); FIRMICUTES; GAMMAPROTEOBACTERIA; PROTEOBACTERIA; SPHINGOMONAS; STAPHYLOCOCCUS;

EID: 34547840257     PISSN: 01686496     EISSN: 15746941     Source Type: Journal    
DOI: 10.1111/j.1574-6941.2007.00360.x     Document Type: Article

References (48)

1. Administration, USGS (1992) Federal Standard 209E. Airborne Particulate Cleanliness Classes in Cleanrooms and Clean Zones. General Services Administration, Washington DC.
2. Amann RI, Ludwig W Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59 : 143 169.
3. Ausubel F, Brent R, Kingston R, Moore DD, Seidman JG, Smith JA Struhl K (2001) Preparation and analysis of DNA, Chapter 2. Current Protocols in Molecular Biology (Chanda VB, ed), pp. 2.01-02.14.08). John Wiley & Sons, Inc, New York, USA.
4. Cole JR, Chai B, Marsh TL et al 2003) The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res 31 : 442 443.
5. Crawford RL (2005) Microbial diversity and its relationship to planetary protection. Appl Environ Microbiol 71 : 4163 4168.
6. Favero MS, Puleo JR, Marshall JH Oxborrow GS (1966) Comparative levels and types of microbial contamination detected in industrial clean rooms. Appl Microbiol 14 : 539 551.
7. Favero MS, McDade JJ, Robertsen JA, Hoffman RK Edwards RW (1968a) Microbiological sampling of surfaces. J Appl Bacteriol 31 : 336 343.
8. Favero MS, Puleo JR, Marshall JH Oxborrow GS (1968b) Comparison of microbial contamination levels among hospital operating rooms and industrial clean rooms. Appl Microbiol 16 : 480 486.
9. Good IJ (1953) The population frequencies of species and the estimation of population parameters. Biometrika 40 : 237 264.
10. Heck JK, van Belle G Simberloff D (1975) Explicit calculation of the rarefaction diversity measurement and the determination of sufficient sample size. Ecology 56 : 1459 1461.
11. Henderson K (2000) Contamination control plan. JPL Document (JPL NASA ed), pp. D-19494. JPL, Pasadena, CA.
12. Hewson I Fuhrman JA (2006) Improved strategy for comparing microbial assemblage fingerprints. Microb Ecol 51 : 147 153.
13. Hiraishi A, Furuhata K, Matsumoto A, Koike KA, Fukuyama M Tabuchi K (1995) Phenotypic and genetic diversity of chlorine-resistant Methylobacterium strains isolated from various environments. Appl Environ Microbiol 61 : 2099 2107.
14. Ireland MME, Karty JA, Quardokus EM, Reilly JP Brun YV (2002) Proteomic analysis of the Caulobacter crescentus stalk indicates competence for nutrient uptake. Mol Microbiol 45 : 1029 1041.
15. Kawamura Y, Li Y, Liu H, Huang X, Li Z Ezaki T (2001) Bacterial population in Russian space station "Mir". Microbiol Immunol 45 : 819 828.
16. La Duc MT, Nicholson W, Kern R Venkateswaran K (2003) Microbial characterization of the Mars Odyssey spacecraft and its encapsulation facility. Environ Microbiol 5 : 977 985.
17. La Duc MT, Kern R Venkateswaran K (2004) Microbial monitoring of spacecraft and associated environments. Microbial Ecol 47 : 150 158.
18. La Duc MT, Dekas AE, Osman S, Moissl C, Newcombe D Venkateswaran K (2007) Isolation and characterization of bacteria capable of tolerating the extreme conditions of clean-room environments. App Environ Microbiol 73 : 2600 2611.
19. Lawley B, Ripley S, Bridge P Convey P (2004) Molecular analysis of geographic patterns of eukaryotic diversity in Antarctic soils. Appl Environ Microbiol 70 : 5963 5972.
20. Lighthart B Frisch AS (1976) Estimation of viable airborne microbes downwind from a point source. Appl Environ Microbiol 31 : 700 704.
21. Lozupone C Knight R (2005) UniFrac: a new phylogenetic method for comparing microbial communities. Appl Environ Microbiol 71 : 8228 8235.
22. Lozupone C, Hamady M Knight R (2006) UniFrac - an online tool for comparing microbial community diversity in a phylogenetic context. BMC Bioinformatics 7 : 371.
23. Ludwig W, Strunk O, Westram R et al 2004) ARB: a software environment for sequence data. Nucleic Acids Res 32 : 1363 1371.
24. Mileikowsky C, Cucinotta FA, Wilson JW et al 2000) Natural transfer of viable microbes in space. Icarus 145 : 391 427.
25. Moissl C, Hosoya N, Bruckner J, Stuecker T, Roman M Venkateswaran K (2007) Molecular microbial community structure of the regenerative enclosed life support module simulator (REMS) air system. Int J Astrobiol 6 : 131 145.
26. Nagarkar PP, Ravetkar SD Watve MG (2001) Oligophilic bacteria as tools to monitor aseptic pharmaceutical production units. Appl Environ Microbiol 67 : 1371 1374.
27. Nagy ML, Perez A Garcia-Pichel F (2005) The prokaryotic diversity of biological soil crusts in the Sonoran Desert (Organ Pipe Cactus National Monument, AZ). FEMS Microbiol Ecol 54 : 233 245.
28. NASA (2005) Planetary Protection Provisions for Robotic Extraterrestrial Missions. NPR 8020.12C, April 2005: National Aeronautics and Space Administration, Washington, DC.
29. NASA-KSC (1999) Launch Site Requirement Planning Group, Facilities Handbook of Payload Hazardous Servicing Facility (PHSF), K-STSM-14.1.15 rev D. Edited by NASA-KSC: KSC, Cape Canaveral, FL.
30. Newcombe DA, Schuerger AC, Benardini JN, Dickinson D, Tanner R Venkateswaran K (2005) Survival of spacecraft-associated microorganisms under simulated martian UV irradiation. Appl Environ Microbiol 71 : 8147 8156.
31. Novikova N, De Boever P, Poddubko S, Deshevaya E, Polikarpov N, Rakova N, Coninx I Mergeay M (2006) Survey of environmental biocontamination on board the international space station. Res Microbiol 157 : 5 12.
32. Novikova ND (2004) Review of the knowledge of microbial contamination of the Russian manned spacecraft. Microb Ecol 47 : 127 132.
33. Pierson D, Ott CM Groves TO (2002) Characterization of Microbial Activity in the Chamber Systems and Environment, pp. 229 259. Univelt, San Diego, CA.
34. Pierson DL (2001) Microbial contamination of spacecraft. Gravit Space Biol Bull 14 : 1 6.
35. Puleo JR, Bergstrom SL, Peeler JT Oxborrow GS (1978) Thermal resistance of naturally occurring airborne bacterial spores. Appl Environ Microbiol 36 : 473 479.
36. Rahal JJ Urban C (2000) Acinetobacter. Semin Respir Crit Care Med 21 : 341 348.
37. Rossello-Mora R Amann R (2001) The species concept for prokaryotes. FEMS Microbiol Rev 25 : 39 67.
38. Saffary R, Nandakumar R, Spencer D, Robb FT, Davila JM, Swartz M, Ofman L, Thomas RJ DiRuggiero J (2002) Microbial survival of space vacuum and extreme ultraviolet irradiation: strain isolation and analysis during a rocket flight. FEMS Microbiol Lett 215 : 163 168.
39. Stackebrandt E Goebel BM (1994) Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 44 : 846 849.
40. Theunissen HJ, Lemmens-den Toom NA, Burggraaf A, Stolz E Michel MF (1993) Influence of temperature and relative humidity on the survival of Chlamydia pneumoniae in aerosols. Appl Environ Microbiol 59 : 2589 2593.
41. Venkateswaran K, Satomi M, Chung S, Kern R, Koukol R, Basic C White DC (2001) Molecular microbial diversity of a spacecraft assembly facility. Syst Appl Microbiol 24 : 311 320.
42. Venkateswaran K, Hattori N, La Duc MT Kern R (2003) ATP as a biomarker of viable microorganisms in clean-room facilities. J Microbiol Methods 52 : 367 377.
43. Venkateswaran K, Chung S, Allton J Kern R (2004a) Evaluation of various cleaning methods to remove Bacillus spores from spacecraft hardware materials. Astrobiology 4 : 377 390.
44. Venkateswaran K, LaDuc MT, Newcombe DA, Kempf MJ, Koke JA, Smoot JC, Smoot LM Stahl D (2004b) Molecular microbial analyses of the Mars Exploration Rovers assembly facility. 105th General Meeting of the American Society of Microbiology, Molecular Microbial Analyses of the Mars Exploration Rovers Assembly Facility, p. 411; abstract # N-081 ASM Press, Washington DC.
45. Wainwright M, Barakah F, al-Turk I Ali TA (1991) Oligotrophic micro-organisms in industry, medicine and the environment. Sci Prog 75 : 313 322.
46. Wainwright M, Ali TA Barakah F (1993) A review of the role of oligotrophic micro-organisms in biodeterioration. International Biodeterioration & Biodegradation 31 : 1 13.
47. Wise RI, Sweeney FJ Jr., Haupt GJ Waddell MA (1959) The environmental distribution of Staphylococcus aureus in an operating suite. Ann Surg 149 : 30 42.
48. Zinder SH Dworkin M (2001) Morphological and Physiological Diversity. Springer Verlag, New York.