Simultaneous direct counting of total and specific microbial cells in seawater, using a deep-sea microbe as target

Applied and Environmental Microbiology

Volumn 66, Issue 5, 2000, Pages 2211-2215

  Maruyama, Akihiko ^a   Sunamura, Michinari ^a,b  

^a NATL INST BIOSCI HUM TECHNOL   (Japan)

^b MITSUBISHI KASEI INST OF LIFE SCI   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ABUNDANCE ESTIMATION; MICROORGANISM; SEAWATER;

ARTICLE; MICROORGANISM; NONHUMAN; PSYCHROBACTER PACIFICENSIS; REPRODUCIBILITY; SEA; TARGET CELL;

BACILLUS; BACTERIOLOGICAL TECHNIQUES; CELLS, IMMOBILIZED; GAMMAPROTEOBACTERIA; IN SITU HYBRIDIZATION, FLUORESCENCE; PSEUDOMONAS AERUGINOSA; REPRODUCIBILITY OF RESULTS; SACCHAROMYCES CEREVISIAE; SEAWATER; VIBRIO;

PSYCHROBACTER PACIFICENSIS;

EID: 0034098907     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.66.5.2211-2215.2000     Document Type: Article

References (28)

1. Amann, R., N. Springer, W. Ludwig, H.-D. Görtz, and K.-H. Schleifer. 1991. Identification in situ and phylogeny of uncultured bacterial endosymbionts. Nature 351:161-164.
2. Amann, R. I., L. Krumholz, and D. A. Stahl. 1990. Fluorescent-oligonudeotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J. Bacteriol. 172:762-770.
3. Amann, R. I., W. Ludwig, and K.-H. Schleifer. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59:143-169.
4. Bowman, J. P., D. S. Nichols, and T. A. McMeekin. 1997. Psychrobacter glacincola sp. nov., a halotolerant, psychrophilic bacterium isolated from Antarctic sea ice. System. Appl. Microbiol. 20:209-215.
5. DeLong, E. F., F. S. Wickham, and N. R. Pace. 1989. Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells. Science 243:1360-1363.
6. Giovannoni, S. J., E. F. DeLong, G. J. Olsen, and N. R. Pace. 1988. Phylogenetic group-specific oligodeoxynucleotide probes for identification of single microbial cells. J. Bacteriol. 170:720-726.
7. Glöckner, F. O., R. Amann, A. Alfreider, J. Pernthaler, R. Psenner, K. Trebesius, and K.-H. Schleifer. 1996. An in situ hybridization protocol for detection and identification of planktonic bacteria. Syst. Appl. Microbiol. 19:403-406.
8. Hara, S., K. Terauchi, and I. Koike. 1991. Abundance of viruses in marine waters: assessment by epifluorescence and transmission electron microscopy. Appl. Environ. Microbiol. 57:2731-2734.
9. Hobble, J. E., R. J. Daley, and S. Jasper. 1977. Use of Nuclepore filters for counting bacteria by fluorescence microscopy. Appl. Environ. Microbiol. 33:1225-1228.
10. Kepner, R. L., Jr., and J. R. Pratt. 1994. Use of fluorochromes for direct enumeration of total bacteria in environmental samples: past and present. Microbiol. Rev. 58:603-615.
11. Kogure, K., U. Simidu, and N. Taga. 1979. A tentative direct microscopic method for counting living marine bacteria. Can. J. Microbiol. 25:415-420.
12. Lane, D. L. 1991. 16S/23S rRNA sequencing, p. 115-175. In E. Stackebrandt and M. Goodfellow (ed.), nucleic acid techniques in bacterial systematics. John Wiley & Sons, Chichester, England.
13. Maruyama, A., N. Mita, and T. Higashihara. 1993. Particulate materials and microbial assemblages around the Izena black smoking vent in the Okinawa Trough. J. Oceanogr. 49:353-367.
14. Maruyama, A., M. Oda, and T. Higashihara. 1993. Abundance of virus-sized non-DNase-digestible DNA (coated DNA) in eutrophic seawater. Appl. Environ. Microbiol. 59:712-717.
15. Maruyama, A., R. Taniguchi, H. Tanaka, H. Ishiwata, and T. Higashihara. 1997. Low-temperature adaptation of deep-sea bacteria isolated from the Japan Trench. Mar. Biol. 128:705-711.
16. Maruyama, A., T. Urabe, J. Ishibashi, R. A. Feely, and E. T. Baker. 1998. Global hydrothermal primary production rate estimated from the southern East Pacific Rise. Cah. Biol. Mar. 39:249-252.
17. Maruyama, A., D. Honda, H. Yamamoto, K. Kitamura, and T. Higashihara. 2000. Phylogenetic analysis of psychrophilic bacteria isolated from the Japan Trench, including a description of the deep-sea species Psychobacter pacificensis sp. nov. Int. J. Syst. Evol. Microbiol. 50:835-846.
18. Nishimura, M., K. Kira-Tsukamoto, K. Kogure, K. Ohwada, and U. Simidu. 1993. A new method to detect viable bacteria in natural seawater using 16S rRNA oligonucleotide probe. J Oceanogr. 49:51-56.
19. Noble, R. T., and J. A. Fuhrman. 1998. Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria. Aquat. Microb. Ecol. 14:113-118.
20. Ouverney, C. C., and J. A. Fuhrman. 1997. Increase in fluorescence intensity of 16S rRNA in situ hybridization in natural samples treated with chloramphenicol. Appl. Environ. Microbiol. 63:2735-2740.
21. Pernthaler, J., F.-O. Glöckner, S. Unterholzner, A. Alfreider, R. Psenner, and R. Amann. 1998. Seasonal community and population dynamics of pelagic bacteria and archaea in a high mountain lake. Appl. Environ. Microbiol. 64:4299-4306.
22. Porter, K. G., and Y. S. Feig. 1980. The use of DAPI for identifying and counting aquatic microflora. Limnol. Oceanogr. 25:943-948.
23. Stahl, D. A., and R. Amann. 1991. Development and application of nucleic acid probes, p. 205-248. In E. Stackebrandt and M. Goodfellow (ed.), Nucleic acid techniques in bacterial systematics. John Wiley & Sons, Chichester, England.
24. Tani, K., K. Kurokawa, and M. Nasu. 1998. Development of a direct in situ PCR method for detection of specific bacteria in natural environments. Appl. Environ. Microbiol. 64:1536-1540.
25. Venkateswaran, K., A. Shimada, A. Maruyama, T. Higashihara, H. Sakou, and T. Maruyama. 1993. Microbial characteristics of Palau Jellyfish Lake. Can. J. Microbiol. 39:506-512.
26. Weinbauer, M. G., C. Beckmann, and M. G. Höfle. 1998. Utility of green fluorescent nucleic acid dyes and aluminium oxide membrane filters for rapid epifluorescence enumeration of soil and sediment bacteria. Appl. Environ. Microbiol. 64:5000-5003.
27. Yamaguchi, N., S. Inaoka, K. Tani, T. Kenzaka, and M. Nasu. 1996. Detection of specific bacterial cells with 2-hydroxy-3-naphthoic acid-2′-phenylanilide phosphate and Fast Red TR in situ hybridization. Appl. Environ. Microbiol. 62:275-278.
28. Zheng, D., E. W. Alm, D. A. Stahl, and L. Raskin. 1996. Characterization of universal small-subunit rRNA hybridization probes for quantitative molecular microbial ecology studies. Appl. Environ. Microbiol. 62:4504-4513.