Effect of phenylurea herbicides on soil microbial communities estimated by analysis of 16S rRNA gene fingerprints and community-level physiological profiles

Applied and Environmental Microbiology

Volumn 65, Issue 3, 1999, Pages 982-988

  El Fantroussi, Saïd ^a   Verschuere, Laurent ^a   Verstraete, Willy ^a   Top, Eva M ^a  

^a GHENT UNIVERSITY   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

CHLORTOLURON; DIURON; HERBICIDE; LINURON; RNA 16S;

HERBICIDE; MICROBIAL COMMUNITY; POLLUTION EFFECT; SOIL ECOSYSTEM; UREA;

ARTICLE; BACTERIAL COUNT; BACTERIAL METABOLISM; BACTERIUM CULTURE; BIODEGRADATION; DENATURING GRADIENT GEL ELECTROPHORESIS; DNA FINGERPRINTING; GENETIC ANALYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; SEQUENCE ANALYSIS; SOIL MICROFLORA; SOIL TREATMENT; SPECIES DIFFERENTIATION;

EID: 0033025914     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.65.3.982-988.1999     Document Type: Article

References (35)

1. Allison, N., J. E. Turner, and R. Wait. 1995. Degradation of homovanillate by a strain of Variovorax paradoxus via ring hydroxylation. FEMS Microbiol. Lett. 134:213-219.
2. Altschul, S. F., T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
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. Bromilow, R. H., A. A. Evans, P. H. Nicholls, A. D. Todd, and G. G. Briggs. 1996 The effect on soil fertility of repeated applications of pesticides over 20 years. Pestic. Sci. 48:63-72.
5. Caux, P. Y., R. A. Kent, G. T. Fan, and C. Grande. 1998. Canadian water quality guidelines for linuron. Environ. Toxicol. Water Qual. 13:1-41.
6. El Fantroussi, S., J. Mahillon, H. Naveau, and S. N. Agathos. 1997. Introduction and PCR detection of Desulfomonile tiedjei in soil microcosms. Biodegradation 8:125-133.
7. Engelhardt, G., P. R. Wallnöffer, and R. Plapp. 1972. Identification of N,O-diethylhydroxylamine as a microbial degradation product of the herbicide linuron. Appl. Microbiol. 23:664-666.
8. Ferris, M. J., G. Muyzer, and D. M. Ward. 1996. Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community. Appl. Environ. Microbiol. 62:340-346.
9. Field, J. A., R. L. Reed, T. E. Sawyer, and M. Martinez. 1997. Diuron and its metabolites in surface water and ground water by solid phase extraction and in-vial elution. J. Agric. Food Chem. 45:3897-3902.
10. Garland, J. L. 1997. Analysis and interpretation of community-level physiological profiles in microbial ecology. FEMS Microbiol. Ecol. 24:289-300.
11. Hansen, M. C., T. T. Nielsen, M. Givskov, and S. Molin. 1998. Biased 16S rDNA PCR amplification caused by interference from DNA flanking the template region. FEMS Microbiol. Ecol. 26:141-149.
12. Hill, G. D., J. W. McGahen, H. Baker, D. W. Finnerty, and C. W. Bingerman. 1955. The fate of substituted urea herbicides in agricultural soils. Agron. J. 47:93-104.
13. Hoagland, R. E., and R. M. Zablotowicz. 1995. Rhizobacteria with excep-tionally high aryl acylamidase activity. Pestic. Biochem. Physiol. 52:190-200.
14. Hugenholtz, P., B. M. Goebel, and N. R. Pace. 1998. Impact of culture-dependent studies on the emerging phylogenetic view of bacterial diversity. J. Bacieriol. 180:4765-4774.
15. Jensen, S., L. Øvreas, F. L. Daae, and V. Torsvik. 1998. Diversity in methane enrichments from an agricultural soil revealed by DGGE separation of PCR amplified 16S rDNA fragments. FEMS Microbiol. Ecol. 26:17-26.
16. Kamagata, Y., R. R. Fulthorpe, K. Tamura, H. Takami, L. J. Forney, and J. M. Tiedje. 1997. Pristine environments harbor a new group of oligotrophic 2,4-dichlorophenoxyacetic acid-degrading bacteria. Appl. Environ. Microbiol. 63:2266-2272.
17. Kuske, C. R., S. M. Barns, and J. D. Busch. 1997. Diverse uncultivated bacterial groups from soils of the arid southwestern United States that are present in many geographic regions. Appl. Environ. Microbiol. 63:3614-3621.
18. Ludwig, W., S. H. Bauer, M. Bauer, I. Held, G. Kirchhof, R. Schulze, I. Huber, S. Spring, T. Hartmann, and K. H. Schleifer. 1997. Detection and in situ identification of representatives of a widely distributed new bacterial phylum. FEMS Microbiol. Lett. 153:181-190.
19. Marchesi, J. R., T. Sato, A. J. Weightman, T. A. Martin, J. C. Fry, S. J. Hiom, and W. G. Wade. 1998. Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA. Appl. Environ. Microbiol. 64:795-799.
20. Mitsui, H., K. Gorlach, H. Lee, R. Hattori, and T. Hattori. 1997. Phylogenetic analysis of the soil bacterial community using a collection. J. Microbiol. Methods 30:103-110.
21. Murray, A. E., J. T. Hollibaugh, and C. Orrego. 1996. Phylogenetic compositions of bacterioplankton from two Californian estuaries compared by denaturing gradient gel electrophoresis of 16S rDNA fragments. Appl. Environ. Microbiol. 62:2676-2680.
22. Muyzer, G., E. C. de Waal, and A. Uitterlinden. 1993. Profiling of complex microbial populations using denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59:695-700.
23. Øvreas, L., L. Forney, F. L. Daae, and V. Torsvik. 1997. Distribution of bacterioplankton in meromictic lake Saelevannet, as determined by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA. Appl. Environ. Microbiol. 63:3367-3373.
24. Reysenbach, A. L., L. J. Giver, G. S. Wickham, and N. R. Pace. 1992. Differential amplification of rRNA genes by polymerase chain reaction. Appl. Environ. Microbiol. 58:3417-3418.
25. Roberts, S. J., A. Walker, N. R. Parekh, S. J. Welch, and M. J. Waddington. 1993. Studies on a mixed bacterial culture from soil which degrades the herbicide linuron. Pestic. Sci. 39:71-78.
26. Smalla, K., V. Wachtendorf, H. Heuer, W. Liu, and L. Forney. 1998. Analysis of BIOLOG GN substrate utilization patterns by microbial communities. Appl. Environ. Microbiol. 64:1220-1225.
27. Somerville, L., and M. P. Greaves. 1987. Pesticide effects on soil microflora. Taylor and Francis, New York, N.Y.
28. Suzuki, M. T., and S. J. Giovannoni. 1996. Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR. Appl. Environ. Microbiol. 62:625-630.
29. Teske, A., C. Wawer, G. Muyzer, and N. B. Ramsing. 1996. Distribution of sulfate-reducing bacteria in a stratified fjord (Mariager fjord, Denmark) as evaluated by most-probable-number counts and denaturing gradient gel electrophoresis of PCR-amplified ribosomal DNA fragments. Appl. Environ. Microbiol. 62:1405-1415.
30. Vallaeys, T., E. Topp, G. Muyzer, V. Macheret, G. Laguerre, A. Rigaud, and G. Soulas. 1997. Evaluation of denaturing gradient gel electrophoresis in the detection of 16S rDNA sequence variation in rhizobia and methanotrophs. FEMS Microbiol. Ecol. 24:279-285.
31. Verschuere, L., V. Fievez, L. Van Vooren, and W. Verstraete. 1997. The contribution of individual populations to the BIOLOG pattern of model microbial communities. FEMS Microbiol. Ecol. 24:353-362.
32. Wallnöfer, P. 1969. The decomposition of urea herbicides by Bacillus sphaericus, isolated from soil. Weed Res. 9:333-339.
33. Ward, D. M., R. Weller, and M. M. Bateson. 1990. 16S rRNA sequences reveal numerous uncultured microorganisms in a natural community. Nature 344:63-65.
34. Wardle, D. A., and D. Parkinson. 1990. Effects of three herbicides on soil microbial biomass and activity. Plant Soil 122:21-28.
35. Wünsche, L., L. Bruggemann, and W. Babel. 1995. Determination of substrate utilization patterns of soil microbial communities: an approach to assess population changes after hydrocarbon pollution. FEMS Microbiol. Ecol. 17:295-305.