mRNA-based parallel detection of active methanotroph populations by use of a diagnostic microarray

Applied and Environmental Microbiology

Volumn 72, Issue 2, 2006, Pages 1672-1676

  Bodrossy, Levante ^a   Stralis Pavese, Nancy ^a   Konrad Köszler, Marianne ^a   Weilharter, Alexandra ^a   Reichenauer, Thomas G ^a   Schöfer, David ^a   Sessitsch, Angela ^a  

^a ARC SEIBERSDORF RESEARCH GMBH   (Austria)

Author keywords

[No Author keywords available]

Indexed keywords

DIAGNOSIS; DNA; ENVIRONMENTAL IMPACT; RNA;

MICROBIAL COMMUNITIES; MRNA-BASED PARALLEL DETECTION; QUANTITATIVE PCR;

MICROORGANISMS;

DNA; MESSENGER RNA;

DETECTION METHOD; MICROBIAL COMMUNITY; POLYMERASE CHAIN REACTION;

ARTICLE; COMMUNITY STRUCTURE; COMPARATIVE STUDY; CONTROLLED STUDY; DNA MICROARRAY; ENVIRONMENTAL MONITORING; METHANOTROPHIC BACTERIUM; MICROARRAY ANALYSIS; MICROFLORA; NONHUMAN; POLYMERASE CHAIN REACTION;

ECOSYSTEM; ENVIRONMENTAL MICROBIOLOGY; GENES, BACTERIAL; METHANE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLYMERASE CHAIN REACTION; PROTEOBACTERIA; RNA, MESSENGER;

BACTERIA (MICROORGANISMS);

EID: 33144456004     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.72.2.1672-1676.2006     Document Type: Article

References (17)

1. Adamczyk, J., M. Hesselsoe, N. Iversen, M. Horn, A. Lehner, P. H. Nielsen, M. Schloter, P. Roslev, and M. Wagner. 2003. The isotope array, a new tool that employs substrate-mediated labeling of rRNA for determination of microbial community structure and function. Appl. Environ. Microbiol. 69: 6875-6887.
2. Amann, R., and W. Ludwig. 2000. Ribosomal RNA-targeted nucleic acid probes for studies in microbial ecology. FEMS Rev. 24:555-565.
3. Bodrossy, L., and A. Sessitsch. 2004. Oligonucleotide microarrays in microbial diagnostics. Curr. Opin. Microbiol. 7:245-254.
4. Bodrossy, L., N. Stralis-Pavese, J. C. Murrell, S. Radajewski, A. Weilharter, and A. Sessitsch. 2003. Development and validation of a diagnostic microbial microarray for methanotrophs. Environ. Microbiol. 5:566-582.
5. Burgmann, H., F. Widmer, W. V. Sigler, and J. Zeyer. 2003. mRNA extraction and reverse transcription-PCR protocol for detection of nifH gene expression by Azotobacter vinelandii in soil. Appl. Environ. Microbiol. 69: 1928-1935.
6. Eller, G., S. Stubner, and P. Frenzel. 2001. Group-specific 16S rRNA targeted probes for the detection of type I and type II methanotrophs by fluorescence in situ hybridisation. FEMS Microbiol. Lett. 198:91-97.
7. Hanson, R. S., and T. E. Hanson. 1996. Methanotrophic bacteria. Microbiol. Rev. 60:439-471.
8. Kolb, S., C. Knief, S. Stubner, and R. Conrad. 2003. Quantitative detection of methanotrophs in soil by novel pmoA-targeted real-time PCR assays. Appl. Environ. Microbiol. 69:2423-2429.
9. Letowski, J., R. Brousseau, and L. Massen. 2003. DNA microarray applications in environmental microbiology. Anal. Lett. 36:3165-3184.
10. Manefield, M., A. S. Whiteley, R. I. Griffiths, and M. J. Bailey. 2002. RNA stable isotope probing, a novel means of linking microbial community function to phylogeny. Appl. Environ. Microbiol. 68:5367-5373.
11. Moeseneder, M. M., J. M. Arrieta, and G. J. Herndl. 2005. A comparison of DNA- and RNA-based clone libraries from the same marine bacterioplankton community. FEMS Microbiol. Ecol. 51:341-352.
12. Radajewski, S., P. Ineson, N. R. Parekh, and J. C. Murrell. 2000. Stable-isotope probing as a tool in microbial ecology. Nature 403:646-649.
13. Radajewski, S., I. R. McDonald, and J. C. Murrell. 2003. Stable-isotope probing of nucleic acids: a window to the function of uncultured microorganisms. Curr. Opin. Biotechnol. 14:296-302.
14. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
15. Stralis-Pavese, N., A. Sessitsch, A. Weilharter, et al. 2004. Optimisation of diagnostic microarray for application in analysing landfill methanotroph communities under different plant covers. Environ. Microbiol. 6:347-363.
16. Wagner, M., M. Horn, and H. Daims. 2003. Fluorescence in situ hybridisation for the identification and characterisation of prokaryotes. Curr. Opin. Microbiol. 6:302-309.
17. Zhou, J. 2003. Microarrays for bacterial detection and microbial community analysis. Curr. Opin. Microbiol. 6:288-294.