In situ analysis of native microbial communities in complex samples with high particulate loads

FEMS Microbiology Letters

Volumn 253, Issue 1, 2005, Pages 55-58

  Barra Caracciolo, Anna ^a   Grenni, Paola ^a   Cupo, Cinzia ^a   Rossetti, Simona ^a  

^a WATER RESEARCH INSTITUTE   (Italy)

Author keywords

Aquifer; Bacterial extraction; FISH; Nycodenz; Soil

Indexed keywords

AQUIFER; ARTICLE; BACTERIAL CELL; CENTRIFUGATION; CONTROLLED STUDY; EXTRACTION; FLUORESCENCE IN SITU HYBRIDIZATION; MICROFLORA; MONITORING; NONHUMAN; PRIORITY JOURNAL; SEPARATION TECHNIQUE; SOIL ANALYSIS;

BACTERIA; BACTERIOLOGICAL TECHNIQUES; CENTRIFUGATION, DENSITY GRADIENT; DNA, BACTERIAL; ECOSYSTEM; FLUORESCENT DYES; IN SITU HYBRIDIZATION, FLUORESCENCE; INDOLES; IOHEXOL; SOIL MICROBIOLOGY; WATER MICROBIOLOGY;

BACTERIA (MICROORGANISMS);

EID: 27744539469     PISSN: 03781097     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.femsle.2005.09.018     Document Type: Article

References (12)

1. G. Wallner, R. Amann, and W. Beisker Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms Cytometry 14 1993 136 143
2. V. Lindahl, and L.R. Bakken Evaluation of methods for extraction of bacteria from soil FEMS Microbiol. Ecol. 16 1995 135 142
3. A. Priemé, J.I.B. Situala, A.K. Kemedtsson, and L.R. Bakken Extraction of methane-oxidizing bacteria from soil particles FEMS Microbiol. Ecol. 21 1996 59 68
4. A. Aakra, M. Hesselsøe, and L.R. Bakken Surface attachment of ammonia-oxidising bacteria in soil Microb. Ecol. 39 2000 222 235
5. M. Hesselsøe, K.K. Brandt, and J. Sørensen Quantification of ammonia oxidising bacteria in soil using microcolony technique combined with fluorescence in situ hybridization (MCFU-FISH) FEMS Microbiol. Ecol. 38 2001 87 95
6. A.E. Berry, C. Chiocchini, T. Selby, M. Sosio, and E.M.H. Wellington Isolation of high molecular weight DNA from soil for cloning into BAC vectors FEMS Microbiol. Lett. 223 2003 15 20
7. J. Pernthaler, F.O. Glockner, W. Schonhuber, and R. Amann Fluorescence in situ hybridization (FISH) with rRNA-target oligonucleotide probes Methods Microbiol. 30 2001 207 226
8. R.I. Amann, B.J. Binder, R.J. Olson, S.W. Chisholm, R. Devereux, and D.A. Stahl Combination of 16S rRNA-target oligonucleotide probes with flow cytometry for analyzing mixed microbial population Appl. Environ. Microbiol. 56 1990 1919 1925
9. H. Daims, A. Bruhl, R. Amann, K.H. Schleifer, and M. Wagner The domain-specific probe EUB338 is insufficient for the detection of all Bacteria: development and evaluation of a more comprehensive probe set Syst. Appl. Microbiol. 22 1999 434 444
10. C. Mayr, A. Winding, and N.B. Hendriksen Community level physiological profile of soil bacteria unaffected by extraction methods J. Microbiol. Methods 36 1999 29 33
11. V. Lindahl Improved soil dispersion procedures for total bacterial counts, extraction of indigenous bacteria and cell survival J. Microbiol. Methods 1996 279 286
12. T. Bouvier, and P.A. del Giorgio Factors influencing the detection of bacterial cells using fluorescence in situ hybridization (FISH): A quantitative review of published reports FEMS Microbiol. Ecol. 44 2003 3 15