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Volumn 15, Issue 6, 2005, Pages 1170-1177

Monitoring of microorganisms added into oil-contaminated microenvironments by terminal-restriction fragment length polymorphism analysis

Author keywords

Oil degrading microorganisms; Specific detection; Terminal restriction fragment length polymorphism (T RFLP)

Indexed keywords

PETROLEUM; RIBOSOME DNA;

EID: 33646724061     PISSN: 10177825     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (8)

References (43)
  • 1
    • 0028946084 scopus 로고
    • Phylogenetic identification and in situ detection of individual microbial cells without cultivation
    • Amann, R. I., W. Ludwig, and K. H. Schleifer. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 9: 143-169.
    • (1995) Microbiol. Rev. , vol.9 , pp. 143-169
    • Amann, R.I.1    Ludwig, W.2    Schleifer, K.H.3
  • 2
    • 0027995162 scopus 로고
    • A molecular technique for identification of bacteria using small subunit ribosomal RNA sequences
    • Avaniss-Aghajani, E., K. Jones, D. Chapman, and C. Brunk. 1994. A molecular technique for identification of bacteria using small subunit ribosomal RNA sequences. BioTechniques 17: 144-149.
    • (1994) BioTechniques , vol.17 , pp. 144-149
    • Avaniss-Aghajani, E.1    Jones, K.2    Chapman, D.3    Brunk, C.4
  • 3
    • 84936617487 scopus 로고
    • Features of a flask and method for measuring the persistence and biological effects of pesticides in soil
    • Bartha, R. and D. Pramer. 1965. Features of a flask and method for measuring the persistence and biological effects of pesticides in soil. Soil Sci. 100: 68-70.
    • (1965) Soil Sci. , vol.100 , pp. 68-70
    • Bartha, R.1    Pramer, D.2
  • 4
    • 84873799110 scopus 로고
    • Studies of lysogenesis. I. The mode of phage liberation by lysogenic Escherichia coli
    • Bertani, G. 1951. Studies of lysogenesis. I. The mode of phage liberation by lysogenic Escherichia coli. J. Bacteriol. 62: 293-300.
    • (1951) J. Bacteriol. , vol.62 , pp. 293-300
    • Bertani, G.1
  • 5
    • 0030817782 scopus 로고    scopus 로고
    • Analysis of mer gene subclasses within bacterial communities in soils and sediments resolved by fluorescent-PCR-restriction fragment length polymorphism profiling
    • Bruce, K. D. 1997. Analysis of mer gene subclasses within bacterial communities in soils and sediments resolved by fluorescent-PCR-restriction fragment length polymorphism profiling. Appl. Environ. Microbiol. 63: 4914-4919.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 4914-4919
    • Bruce, K.D.1
  • 6
    • 0033012295 scopus 로고    scopus 로고
    • Effect of temperature on structure and function of the methanogenic archaeal community in an anoxic rice field soil
    • Chin, K.-J., T. Lukow, and R. Conrad. 1999. Effect of temperature on structure and function of the methanogenic archaeal community in an anoxic rice field soil. Appl. Environ. Microbiol. 65: 2341-2349.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 2341-2349
    • Chin, K.-J.1    Lukow, T.2    Conrad, R.3
  • 7
    • 0036066486 scopus 로고    scopus 로고
    • Evaluation of fertilizer additions to stimulate oil biodegradation in sand seashore mesocosms
    • Choi, S.-C., K. K. Kwon, J. H. Sohn, and S.-J. Kim. 2002. Evaluation of fertilizer additions to stimulate oil biodegradation in sand seashore mesocosms. J. Microbiol. Biotechnol. 12: 431-436.
    • (2002) J. Microbiol. Biotechnol. , vol.12 , pp. 431-436
    • Choi, S.-C.1    Kwon, K.K.2    Sohn, J.H.3    Kim, S.-J.4
  • 8
    • 0031882598 scopus 로고    scopus 로고
    • Terminal restriction fragment patterns (TRFPs), a rapid, PCR-based method for the comparison of complex bacterial communities
    • Clement, B. G., L. E. Kehl, K. L. Debord, and C. L. Kitts. 1998. Terminal restriction fragment patterns (TRFPs), a rapid, PCR-based method for the comparison of complex bacterial communities. J. Microbiol. Meth. 31: 135-142.
    • (1998) J. Microbiol. Meth. , vol.31 , pp. 135-142
    • Clement, B.G.1    Kehl, L.E.2    Debord, K.L.3    Kitts, C.L.4
  • 9
    • 0033941482 scopus 로고    scopus 로고
    • Assessment of microbial diversity in four southwestern United States soils by 16S rRNA gene terminal restriction fragment analysis
    • Dunbar, J., L. O. Ticknor, and C. R. Kuske. 2000. Assessment of microbial diversity in four southwestern United States soils by 16S rRNA gene terminal restriction fragment analysis. Appl. Environ. Microbiol. 66: 2943-2950.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 2943-2950
    • Dunbar, J.1    Ticknor, L.O.2    Kuske, C.R.3
  • 10
    • 0035163587 scopus 로고    scopus 로고
    • Phylogenetic specificity and reproducibility and new method for analysis of terminal restriction fragment profiles of 16S rRNA genes from bacterial communities
    • Dunbar, J., L. O. Ticknor, and C. R. Kuske. 2001. Phylogenetic specificity and reproducibility and new method for analysis of terminal restriction fragment profiles of 16S rRNA genes from bacterial communities. Appl. Environ. Microbiol. 67: 190-197.
    • (2001) Appl. Environ. Microbiol. , vol.67 , pp. 190-197
    • Dunbar, J.1    Ticknor, L.O.2    Kuske, C.R.3
  • 11
    • 0029032318 scopus 로고
    • Effect of genome size and rrn gene copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial species
    • Farrelly, V., F. A. Rainey, and E. Stackebrandt. 1995. Effect of genome size and rrn gene copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial species. Appl. Environ. Microbiol. 61: 2798-2801.
    • (1995) Appl. Environ. Microbiol. , vol.61 , pp. 2798-2801
    • Farrelly, V.1    Rainey, F.A.2    Stackebrandt, E.3
  • 12
    • 0032876852 scopus 로고    scopus 로고
    • Prokaryotic genome size and SSU rDNA copy number: Estimation of microbial relative abundance from a mixed population
    • Fogel, G. B., C. R. Collins, J. Li, and C. F. Brunk. 1999. Prokaryotic genome size and SSU rDNA copy number: Estimation of microbial relative abundance from a mixed population. Microbiol. Ecol. 38: 93-113.
    • (1999) Microbiol. Ecol. , vol.38 , pp. 93-113
    • Fogel, G.B.1    Collins, C.R.2    Li, J.3    Brunk, C.F.4
  • 13
    • 0013581263 scopus 로고
    • Survival, detection and containment of bacteria
    • Jackman, S. C., H. Lee, and J. T. Trevors. 1992. Survival, detection and containment of bacteria. Microbial Releases 1: 125-154.
    • (1992) Microbial Releases , vol.1 , pp. 125-154
    • Jackman, S.C.1    Lee, H.2    Trevors, J.T.3
  • 14
    • 0038025846 scopus 로고    scopus 로고
    • Analysis of bacterial community structure in bulk soil, rhizosphere soil, and root samples of hot pepper plants using FAME and 16S rDNA clone libraries
    • Kim, J.-S., S.-W. Kwon, F. Jordan, and J.-C. Ryu. 2003. Analysis of bacterial community structure in bulk soil, rhizosphere soil, and root samples of hot pepper plants using FAME and 16S rDNA clone libraries. J. Microbiol. Biotechnol. 13: 236-242.
    • (2003) J. Microbiol. Biotechnol. , vol.13 , pp. 236-242
    • Kim, J.-S.1    Kwon, S.-W.2    Jordan, F.3    Ryu, J.-C.4
  • 15
    • 0011413580 scopus 로고    scopus 로고
    • Identification and characterization of an oil-degrading yeast, Yarrowia lipolytica 180
    • Kim, T.-H., J.-H. Lee, Y.-S. Oh, K.-S. Bae, and S.-J. Kim. 1999. Identification and characterization of an oil-degrading yeast, Yarrowia lipolytica 180. J. Microbiol. 37: 128-135.
    • (1999) J. Microbiol. , vol.37 , pp. 128-135
    • Kim, T.-H.1    Lee, J.-H.2    Oh, Y.-S.3    Bae, K.-S.4    Kim, S.-J.5
  • 16
    • 0033927160 scopus 로고    scopus 로고
    • The possible involvement of the cell surface in aliphatic hydrocarbon utilization by an oil-degrading yeast, Yarrowia lipolytica 180
    • Kim, T.-H., Y.-S. Oh, and S.-J. Kim. 2000. The possible involvement of the cell surface in aliphatic hydrocarbon utilization by an oil-degrading yeast, Yarrowia lipolytica 180. J. Microbiol. Biotechnol. 10: 333-337.
    • (2000) J. Microbiol. Biotechnol. , vol.10 , pp. 333-337
    • Kim, T.-H.1    Oh, Y.-S.2    Kim, S.-J.3
  • 17
    • 0031842281 scopus 로고    scopus 로고
    • Small-scale DNA sample preparation method for field PCR detection of microbial cells and spores in soil
    • Kuske, C. R., K. L. Banton, D. L. Adorada, P. C. Stark, K. K. Hill, and P. J. Jackson. 1998. Small-scale DNA sample preparation method for field PCR detection of microbial cells and spores in soil. Appl. Environ. Microbiol. 64: 2463-2472.
    • (1998) Appl. Environ. Microbiol. , vol.64 , pp. 2463-2472
    • Kuske, C.R.1    Banton, K.L.2    Adorada, D.L.3    Stark, P.C.4    Hill, K.K.5    Jackson, P.J.6
  • 18
    • 0006709155 scopus 로고    scopus 로고
    • Efficient removal of humic substances in preparing DNA extract from marine sediments
    • Lee J.-H., H.-H. Shin, H.-K. Lee, K.-K. Kwon, and S.-J. Kim. 1998. Efficient removal of humic substances in preparing DNA extract from marine sediments. Kor. J. Microbiol. 34: 132-136.
    • (1998) Kor. J. Microbiol. , vol.34 , pp. 132-136
    • Lee, J.-H.1    Shin, H.-H.2    Lee, H.-K.3    Kwon, K.-K.4    Kim, S.-J.5
  • 19
    • 0035175883 scopus 로고    scopus 로고
    • Specific detection of an oil-degrading bacterium, Corynebacterium sp. IC10, in sand microcosms by PCR using species-specific primers based on 16S rRNA gene sequences
    • Lee, J.-H., S.-Y. Jung, and S.-J. Kim. 2001. Specific detection of an oil-degrading bacterium, Corynebacterium sp. IC10, in sand microcosms by PCR using species-specific primers based on 16S rRNA gene sequences. Biotechnol. Lett. 23: 1741-1748.
    • (2001) Biotechnol. Lett. , vol.23 , pp. 1741-1748
    • Lee, J.-H.1    Jung, S.-Y.2    Kim, S.-J.3
  • 20
    • 0028976428 scopus 로고
    • Survival and activity of Pseudomonas sp. strain B13 (FR1) in a marine microcosm determined by quantitative PCR and an rRNA-targeting probe and its effect on the indigenous bacterioplankton
    • Leser, T. D., M. Boye, and N. B. Hendriksen. 1995. Survival and activity of Pseudomonas sp. strain B13 (FR1) in a marine microcosm determined by quantitative PCR and an rRNA-targeting probe and its effect on the indigenous bacterioplankton. Appl. Environ. Microbiol. 61: 1201-1207.
    • (1995) Appl. Environ. Microbiol. , vol.61 , pp. 1201-1207
    • Leser, T.D.1    Boye, M.2    Hendriksen, N.B.3
  • 21
    • 0030661563 scopus 로고    scopus 로고
    • Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA
    • Liu, W.-T., T. L. Marsh, H. Cheng, and L. J. Forney. 1997. Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. Appl. Environ. Microbiol. 63: 4516-4522.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 4516-4522
    • Liu, W.-T.1    Marsh, T.L.2    Cheng, H.3    Forney, L.J.4
  • 22
    • 0031860742 scopus 로고    scopus 로고
    • Determination of the microbial diversity of anaerobic-aerobic activated sludge by a novel molecular biological technique
    • Liu, W.-T., T. L. Marsh, and L. J. Forney. 1998. Determination of the microbial diversity of anaerobic-aerobic activated sludge by a novel molecular biological technique. Wat. Sci. Tech. 37: 417-422.
    • (1998) Wat. Sci. Tech. , vol.37 , pp. 417-422
    • Liu, W.-T.1    Marsh, T.L.2    Forney, L.J.3
  • 23
    • 0343503030 scopus 로고    scopus 로고
    • Spatial changes in the bacterial community structure along a vertical oxygen gradient in flooded paddy soil cores
    • Lüdemann, H., I. Arth, and W. Liesack. 2000. Spatial changes in the bacterial community structure along a vertical oxygen gradient in flooded paddy soil cores. Appl. Environ. Microbiol. 66: 754-762.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 754-762
    • Lüdemann, H.1    Arth, I.2    Liesack, W.3
  • 25
    • 0033152351 scopus 로고    scopus 로고
    • Terminal restriction fragment length polymorphism (T-RFLP): An emerging method for characterizing diversity among homologous populations of amplification products
    • Marsh, T. L. 1999. Terminal restriction fragment length polymorphism (T-RFLP): An emerging method for characterizing diversity among homologous populations of amplification products. Curr. Opin. Microbiol. 2: 323-327.
    • (1999) Curr. Opin. Microbiol. , vol.2 , pp. 323-327
    • Marsh, T.L.1
  • 26
    • 0031860407 scopus 로고    scopus 로고
    • Beginning a molecular analysis of the eukaryal community in activated sludge
    • Marsh, T. L., W.-T. Liu, L. J. Forney, and H. Cheng. 1998. Beginning a molecular analysis of the eukaryal community in activated sludge. Wat. Sci. Tech. 37: 455-460.
    • (1998) Wat. Sci. Tech. , vol.37 , pp. 455-460
    • Marsh, T.L.1    Liu, W.-T.2    Forney, L.J.3    Cheng, H.4
  • 27
    • 0033868092 scopus 로고    scopus 로고
    • Terminal restriction fragment length polymorphism analysis program, a Web-based research tool for microbial community analysis
    • Marsh, T. L., P. Saxman, J. Cole, and J. Tiedje. 2000. Terminal restriction fragment length polymorphism analysis program, a Web-based research tool for microbial community analysis. Appl. Environ. Microbiol. 66: 3616-3620.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 3616-3620
    • Marsh, T.L.1    Saxman, P.2    Cole, J.3    Tiedje, J.4
  • 28
    • 0032878580 scopus 로고    scopus 로고
    • Distribution of bifidobacterial species in human intestinal microflora examined with 16S rRNA-gene-targeted species-specific primers
    • Matsuki, T., K. Watanabe, R. Tanaka, M. Fukuda, and H. Oyaizu. 1999. Distribution of bifidobacterial species in human intestinal microflora examined with 16S rRNA-gene-targeted species-specific primers. Appl. Environ. Microbiol. 65: 4506-4512.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 4506-4512
    • Matsuki, T.1    Watanabe, K.2    Tanaka, R.3    Fukuda, M.4    Oyaizu, H.5
  • 29
    • 0031726436 scopus 로고    scopus 로고
    • Quantification of bacterial mRNA involved in degradation of 1,2,4-trichlorobenzene by Pseudomonas sp. strain P51 from liquid culture and from river sediment by reverse transcriptase PCR (RT/PCR)
    • Meckenstock, R., P. Steinle, J. R. Van de Meer, and M. Snozzi. 1998. Quantification of bacterial mRNA involved in degradation of 1,2,4-trichlorobenzene by Pseudomonas sp. strain P51 from liquid culture and from river sediment by reverse transcriptase PCR (RT/PCR). FEMS Microbiol. Lett. 167: 123-129.
    • (1998) FEMS Microbiol. Lett. , vol.167 , pp. 123-129
    • Meckenstock, R.1    Steinle, P.2    Van de Meer, J.R.3    Snozzi, M.4
  • 30
    • 0032812081 scopus 로고    scopus 로고
    • Optimization of terminal-restriction fragment length polymorphism analysis for complex marine bacterioplankton communities and comparison with denaturing gradient gel electrophoresis
    • Moeseneder, M. M., J. M. Arrieta, G. Muyzer, C. Winter, and G. J. Herndl. 1999. Optimization of terminal-restriction fragment length polymorphism analysis for complex marine bacterioplankton communities and comparison with denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 65: 3518-3525.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 3518-3525
    • Moeseneder, M.M.1    Arrieta, J.M.2    Muyzer, G.3    Winter, C.4    Herndl, G.J.5
  • 31
    • 0035283902 scopus 로고    scopus 로고
    • Terminal-restriction fragment length polymorphism (T-RFLP) screening of a marine archaeal clone library to determine the different phylotypes
    • Moeseneder, M. M., C. Winter, J. M. Arrieta, and G. J. Herndl. 2001. Terminal-restriction fragment length polymorphism (T-RFLP) screening of a marine archaeal clone library to determine the different phylotypes. J. Microbiol. Meth. 44: 159-172.
    • (2001) J. Microbiol. Meth. , vol.44 , pp. 159-172
    • Moeseneder, M.M.1    Winter, C.2    Arrieta, J.M.3    Herndl, G.J.4
  • 32
    • 0034547801 scopus 로고    scopus 로고
    • An evaluation of terminal-restriction fragment length polymorphism (T-RFLP) analysis for the study of microbial community structure and dynamics
    • Osborn, A. M., E. R. B. Moore, and K. N. Timmis. 2000. An evaluation of terminal-restriction fragment length polymorphism (T-RFLP) analysis for the study of microbial community structure and dynamics. Environ. Microbiol. 2: 39-50.
    • (2000) Environ. Microbiol. , vol.2 , pp. 39-50
    • Osborn, A.M.1    Moore, E.R.B.2    Timmis, K.N.3
  • 33
    • 0036202895 scopus 로고    scopus 로고
    • Linkage between biodegradation of polycyclic aromatic hydrocarbons and phospholipid profiles in soil isolates
    • Nam, K., H. S. Moon, J. Y. Kim, and J. J. Kukor. 2002. Linkage between biodegradation of polycyclic aromatic hydrocarbons and phospholipid profiles in soil isolates. J. Microbiol. Biotechnol. 12: 77-83.
    • (2002) J. Microbiol. Biotechnol. , vol.12 , pp. 77-83
    • Nam, K.1    Moon, H.S.2    Kim, J.Y.3    Kukor, J.J.4
  • 34
    • 0037560402 scopus 로고    scopus 로고
    • Effectiveness of bioremediation on oil-contaminated sand in intertidal zone
    • Oh, Y.-S., D.-S. Sim, and S.-J. Kim. 2003. Effectiveness of bioremediation on oil-contaminated sand in intertidal zone. J. Microbiol. Biotechnol. 13: 437-443.
    • (2003) J. Microbiol. Biotechnol. , vol.13 , pp. 437-443
    • Oh, Y.-S.1    Sim, D.-S.2    Kim, S.-J.3
  • 35
    • 0000678741 scopus 로고
    • Dependence of the taxon composition of clone libraries for PCR amplified, naturally occurring 16S rDNA, on the primer pair and the cloning system used
    • Rainey, F. A., N. Ward, L. I. Sly, and E. Stackebrandt. 1994. Dependence of the taxon composition of clone libraries for PCR amplified, naturally occurring 16S rDNA, on the primer pair and the cloning system used. Experientia 50: 796-797.
    • (1994) Experientia , vol.50 , pp. 796-797
    • Rainey, F.A.1    Ward, N.2    Sly, L.I.3    Stackebrandt, E.4
  • 37
    • 0345980262 scopus 로고    scopus 로고
    • Biodegradation of phenanthrene by Sphingomonas sp. strain KH3-2
    • Shin, S. K., Y.-S. Oh, and S.-J. Kim. 1999. Biodegradation of phenanthrene by Sphingomonas sp. strain KH3-2. J. Microbiol. 37: 185-192
    • (1999) J. Microbiol. , vol.37 , pp. 185-192
    • Shin, S.K.1    Oh, Y.-S.2    Kim, S.-J.3
  • 38
    • 0030067991 scopus 로고    scopus 로고
    • Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR
    • 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.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 625-630
    • Suzuki, M.T.1    Giovannoni, S.J.2
  • 39
    • 0026597527 scopus 로고
    • Detection of low numbers of bacterial cells in soils and sediments by polymerase chain reaction
    • Tsai, Y.-L. and B. H. Olson. 1992. Detection of low numbers of bacterial cells in soils and sediments by polymerase chain reaction. Appl. Environ. Microbiol. 58: 754-757.
    • (1992) Appl. Environ. Microbiol. , vol.58 , pp. 754-757
    • Tsai, Y.-L.1    Olson, B.H.2
  • 41
    • 0031971345 scopus 로고    scopus 로고
    • Survival, metabolic activity and conjugative interactions of indigenous and introduced streptomycete strains in soil microcosm
    • Vionis, A. P., E. A. Katsifas, and A. D. Karagouni. 1998. Survival, metabolic activity and conjugative interactions of indigenous and introduced streptomycete strains in soil microcosm. Antonie Van Leeuwenhoek 73: 103-115.
    • (1998) Antonie Van Leeuwenhoek , vol.73 , pp. 103-115
    • Vionis, A.P.1    Katsifas, E.A.2    Karagouni, A.D.3
  • 42
    • 0027299353 scopus 로고
    • Probing activated sludge with oligonucleotides specific for proteobacteria: Inadequacy of culture-dependent methods for describing microbial community structure
    • Wagner, M., R. Amann, H. Lemme, and K. Schleife. 1993. Probing activated sludge with oligonucleotides specific for proteobacteria: Inadequacy of culture-dependent methods for describing microbial community structure. Appl. Environ. Microbiol. 59: 1520-1525.
    • (1993) Appl. Environ. Microbiol. , vol.59 , pp. 1520-1525
    • Wagner, M.1    Amann, R.2    Lemme, H.3    Schleife, K.4
  • 43
    • 0030990839 scopus 로고    scopus 로고
    • Sensitive detection of a novel class of toluene degrading denitrifiers, Azoarcus tolulyticus, with small-subunit rRNA primers and probes
    • Zhou, J., A. V. Palumbo, and J. M. Tiedje. 1997. Sensitive detection of a novel class of toluene degrading denitrifiers, Azoarcus tolulyticus, with small-subunit rRNA primers and probes. Appl. Environ. Microbiol. 63: 2384-2390.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 2384-2390
    • Zhou, J.1    Palumbo, A.V.2    Tiedje, J.M.3


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