메뉴 건너뛰기




Volumn 32, Issue 2, 1998, Pages 165-178

Nucleic acid analytical approaches in bioremediation: site assessment and characterization

Author keywords

Bioremediation; DNA hybridization; Microbiology; Molecular diagnostics

Indexed keywords

CHLORINATED HYDROCARBON; ETHYLBENZENE; MESSENGER RNA; NAPHTHALENE; ORGANIC COMPOUND; PETROLEUM; RIBOSOME RNA; TETRACHLOROETHYLENE; TRICHLOROETHYLENE; XYLENE;

EID: 0031803557     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0167-7012(98)00021-9     Document Type: Article
Times cited : (45)

References (61)
  • 2
    • 0028946084 scopus 로고
    • Phylogenetic identification and in situ detection of individual microbial cells without cultivation
    • Amann R., Ludwig W., Schleifer K.H. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59(1):1995;143-169.
    • (1995) Microbiol. Rev. , vol.59 , Issue.1 , pp. 143-169
    • Amann, R.1    Ludwig, W.2    Schleifer, K.H.3
  • 4
    • 0024692881 scopus 로고
    • The complete nucleotide sequence of the lux regulon of Vibrio fischeri and the lux ABN region of Photobacterium leiognathi and the mechanism of control of bacterial bioluminescence
    • Baldwin T.O., Devine J.H., Heckel R.C., Lin J.W., Shadel G.S. The complete nucleotide sequence of the lux regulon of Vibrio fischeri and the lux ABN region of Photobacterium leiognathi and the mechanism of control of bacterial bioluminescence. J. Biolumin. Chemilumin. 4:1989;326-341.
    • (1989) J. Biolumin. Chemilumin. , vol.4 , pp. 326-341
    • Baldwin, T.O.1    Devine, J.H.2    Heckel, R.C.3    Lin, J.W.4    Shadel, G.S.5
  • 5
    • 0027103243 scopus 로고
    • Field study of dispersion in a heterogeneous aquifer 4. Investigation of adsorption and sampling bias
    • Boggs J.M., Adams E.E. Field study of dispersion in a heterogeneous aquifer 4. Investigation of adsorption and sampling bias. Water Resour. Res. 28(12):1992;3325-3336.
    • (1992) Water Resour. Res. , vol.28 , Issue.12 , pp. 3325-3336
    • Boggs, J.M.1    Adams, E.E.2
  • 9
    • 0028386406 scopus 로고
    • Natural biological attenuation of benzene in groundwater beneath a manufacturing facility
    • Davis J.W., Klier N.J., Carpenter C.L. Natural biological attenuation of benzene in groundwater beneath a manufacturing facility. Groundwater. 32(2):1994;215-226.
    • (1994) Groundwater , vol.32 , Issue.2 , pp. 215-226
    • Davis, J.W.1    Klier, N.J.2    Carpenter, C.L.3
  • 10
    • 0027096386 scopus 로고
    • Genus- And group-specific hybridization probes for determinative and environmental studies of sulfate-reducing bacteria
    • Devereux R., Kane M.D., Winfrey J., Stahl D.A. Genus- and group-specific hybridization probes for determinative and environmental studies of sulfate-reducing bacteria. Syst. Appl. Microbiol. 15:1992;601-609.
    • (1992) Syst. Appl. Microbiol. , vol.15 , pp. 601-609
    • Devereux, R.1    Kane, M.D.2    Winfrey, J.3    Stahl, D.A.4
  • 12
    • 0026049804 scopus 로고
    • Biochemical diversity of trichloroethylene metabolism
    • Ensley B.D. Biochemical diversity of trichloroethylene metabolism. Annu. Rev. Microbiol. 45:1991;283-299.
    • (1991) Annu. Rev. Microbiol. , vol.45 , pp. 283-299
    • Ensley, B.D.1
  • 13
    • 0029032318 scopus 로고
    • Effect of genome size and rrn gene copy number in PCR amplification of 16S rRNA genes from a mixture of bacterial species
    • Farrelly V., Rainey F.A., Stackebrandt E. Effect of genome size and rrn gene copy number in PCR amplification of 16S rRNA genes from a mixture of bacterial species. Appl. Environ. Microbiol. 61(7):1995;2798-2801.
    • (1995) Appl. Environ. Microbiol. , vol.61 , Issue.7 , pp. 2798-2801
    • Farrelly, V.1    Rainey, F.A.2    Stackebrandt, E.3
  • 14
    • 0023022806 scopus 로고
    • DNA hybridization probe for the Pseudomonas fluorescens group
    • Festl H., Ludwig W., Schleifer K.H. DNA hybridization probe for the Pseudomonas fluorescens group. Appl. Environ. Microbiol. 52(5):1986;1190-1194.
    • (1986) Appl. Environ. Microbiol. , vol.52 , Issue.5 , pp. 1190-1194
    • Festl, H.1    Ludwig, W.2    Schleifer, K.H.3
  • 15
    • 0003282565 scopus 로고
    • Assessment of gene expression in the environment: Quantitative mRNA analysis in contaminated soils
    • In: Minear, R.A., Ford, A.M., Needham, L.L., Karch, N.J. (Eds.), CRC Press Inc.
    • Flemming, J.T., Sayler, G.S., 1995. Assessment of gene expression in the environment: quantitative mRNA analysis in contaminated soils. In: Minear, R.A., Ford, A.M., Needham, L.L., Karch, N.J. (Eds.), Molecular Biology in Environmental Chemistry, CRC Press Inc., pp. 45-48.
    • (1995) Molecular Biology in Environmental Chemistry , pp. 45-48
    • Flemming, J.T.1    Sayler, G.S.2
  • 16
    • 0027231336 scopus 로고
    • Quantitative relationship between naphthalene catabolic gene frequency and expression in predicting PAH degradation in soils at town gas manufacturing sites
    • Flemming J.T., Sanseverino J., Sayler G.S. Quantitative relationship between naphthalene catabolic gene frequency and expression in predicting PAH degradation in soils at town gas manufacturing sites. Environ. Sci. Technol. 27(6):1993;1068-1074.
    • (1993) Environ. Sci. Technol. , vol.27 , Issue.6 , pp. 1068-1074
    • Flemming, J.T.1    Sanseverino, J.2    Sayler, G.S.3
  • 17
    • 0025291817 scopus 로고
    • Haloalkene oxidation by the soluble methane monoxygenase from Methylsinus trichosporium OB3B: Mechanistic and environmental implications
    • Fox B.G., Borneman J.G., Wackett L.P., Lipscomb J.D. Haloalkene oxidation by the soluble methane monoxygenase from Methylsinus trichosporium OB3B: mechanistic and environmental implications. Biochemistry. 29:1990;6419-6427.
    • (1990) Biochemistry , vol.29 , pp. 6419-6427
    • Fox, B.G.1    Borneman, J.G.2    Wackett, L.P.3    Lipscomb, J.D.4
  • 18
    • 0023178007 scopus 로고
    • Nucleotide sequence and expression of gene nahH of plasmid NAH7 and homology with gene xylE of TOL pWWO
    • Ghosal D., You I., Gunsalus I.C. Nucleotide sequence and expression of gene nahH of plasmid NAH7 and homology with gene xylE of TOL pWWO. Gene. 55:1987;19-28.
    • (1987) Gene , vol.55 , pp. 19-28
    • Ghosal, D.1    You, I.2    Gunsalus, I.C.3
  • 19
    • 0000925040 scopus 로고
    • Colony hybridization: A method for the isolation of cloned DNAs that contain a specific gene
    • Grunstein M., Hogness D.S. Colony hybridization: a method for the isolation of cloned DNAs that contain a specific gene. Proc. Natl. Acad. Sci. USA. 72:1975;3961-3965.
    • (1975) Proc. Natl. Acad. Sci. USA , vol.72 , pp. 3961-3965
    • Grunstein, M.1    Hogness, D.S.2
  • 20
    • 0030032633 scopus 로고    scopus 로고
    • Isolation and identification of methanogen specific DNA from blanket bog peat by PCR amplification and sequence analysis
    • Hales B.A., Edwards C., Ritchie D.A., Hall G., Pickup R.W., Saunders J.R. Isolation and identification of methanogen specific DNA from blanket bog peat by PCR amplification and sequence analysis. Appl. Environ. Microbiol. 62(2):1996;668-675.
    • (1996) Appl. Environ. Microbiol. , vol.62 , Issue.2 , pp. 668-675
    • Hales, B.A.1    Edwards, C.2    Ritchie, D.A.3    Hall, G.4    Pickup, R.W.5    Saunders, J.R.6
  • 22
    • 0026915253 scopus 로고
    • Reductive dechlorination of trichloroethylene by the CO-reduced CO dehydrogenase enzyme complex from Methanosarcina thermophila
    • Jablonski P.E., Ferry J.G. Reductive dechlorination of trichloroethylene by the CO-reduced CO dehydrogenase enzyme complex from Methanosarcina thermophila. FEMS Microbiol. Lett. 96:1992;55-60.
    • (1992) FEMS Microbiol. Lett. , vol.96 , pp. 55-60
    • Jablonski, P.E.1    Ferry, J.G.2
  • 23
  • 24
    • 0005957273 scopus 로고
    • An ecological survey of hydrocarbon-oxidizing microorganisms
    • Jones J.G., Edington M.A. An ecological survey of hydrocarbon-oxidizing microorganisms. J. Gen. Microbiol. 52:1968;381-390.
    • (1968) J. Gen. Microbiol. , vol.52 , pp. 381-390
    • Jones, J.G.1    Edington, M.A.2
  • 25
    • 0025464417 scopus 로고
    • Natural bioremediation of organic contaminants in groundwater: Cliffs-Dow Superfund Site
    • Klecka G.M., Davis J.W., Gray D.R., Madsen S.S. Natural bioremediation of organic contaminants in groundwater: Cliffs-Dow Superfund Site. Groundwater. 28(4):1994;534-543.
    • (1994) Groundwater , vol.28 , Issue.4 , pp. 534-543
    • Klecka, G.M.1    Davis, J.W.2    Gray, D.R.3    Madsen, S.S.4
  • 27
    • 0001545871 scopus 로고
    • Biological methods for the restoration of contaminated aquifers
    • Lee M.D., Ward C.H. Biological methods for the restoration of contaminated aquifers. Environ. Toxicol. Chem. 4(6):1985;743-750.
    • (1985) Environ. Toxicol. Chem. , vol.4 , Issue.6 , pp. 743-750
    • Lee, M.D.1    Ward, C.H.2
  • 29
    • 0025859711 scopus 로고
    • Design and testing of a functional group-specific DNA probe for the study of natural populations of acetogenic bacteria
    • Lovell C.R., Hui Y. Design and testing of a functional group-specific DNA probe for the study of natural populations of acetogenic bacteria. Appl. Environ. Microbiol. 57(9):1991;2602-2609.
    • (1991) Appl. Environ. Microbiol. , vol.57 , Issue.9 , pp. 2602-2609
    • Lovell, C.R.1    Hui, Y.2
  • 30
    • 0024094004 scopus 로고
    • Nucleotide sequence and transcriptional start site of the Methylobacterium organophilum XX methanol dehydrogenase structural gene
    • Machlin A.M., Hanson R.S. Nucleotide sequence and transcriptional start site of the Methylobacterium organophilum XX methanol dehydrogenase structural gene. J. Bacteriol. 170(10):1988;4739-4747.
    • (1988) J. Bacteriol. , vol.170 , Issue.10 , pp. 4739-4747
    • Machlin, A.M.1    Hanson, R.S.2
  • 31
    • 0027332770 scopus 로고
    • Degradation kinetics of aromatic organic solutes introduced into a heterogeneous aquifer
    • MacIntyre W.G., Antworth C.P., Stauffer T.B., Boggs J.M. Degradation kinetics of aromatic organic solutes introduced into a heterogeneous aquifer. Water Resour. Res. 29(12):1993;4045-4051.
    • (1993) Water Resour. Res. , vol.29 , Issue.12 , pp. 4045-4051
    • MacIntyre, W.G.1    Antworth, C.P.2    Stauffer, T.B.3    Boggs, J.M.4
  • 32
    • 0025918927 scopus 로고
    • In situ biodegradation: Microbiological patterns in a contaminated aquifer
    • Madsen E.L., Sinclair J.L., Ghiorse W.C. In situ biodegradation: microbiological patterns in a contaminated aquifer. Science. 252:1991;830-833.
    • (1991) Science , vol.252 , pp. 830-833
    • Madsen, E.L.1    Sinclair, J.L.2    Ghiorse, W.C.3
  • 33
    • 0023461268 scopus 로고
    • Specific synthesis of DNA in vitro via a polymerase chain reaction
    • Mullis K.B., Faloona F. Specific synthesis of DNA in vitro via a polymerase chain reaction. Methods Enzymol. 155:1987;335-350.
    • (1987) Methods Enzymol. , vol.155 , pp. 335-350
    • Mullis, K.B.1    Faloona, F.2
  • 34
    • 0003597396 scopus 로고
    • National Research Council, National Academy Press, Washington, DC
    • National Research Council, 1993. In situ bioremediation: when does it work? National Academy Press, Washington, DC.
    • (1993) In Situ Bioremediation: When Does It Work?
  • 35
    • 12744281935 scopus 로고
    • The extraction and purification of microbial DNA from sediments
    • Ogram A., Sayler G.S., Barkay T. The extraction and purification of microbial DNA from sediments. J. Microbiol. Methods. 7:1987;57-66.
    • (1987) J. Microbiol. Methods , vol.7 , pp. 57-66
    • Ogram, A.1    Sayler, G.S.2    Barkay, T.3
  • 36
    • 0028851170 scopus 로고
    • Isolation and characterization of RNA from low-biomass deep-subsurface sediments
    • Ogram A.V., Sun W., Brockman F.J., Fredrickson J.K. Isolation and characterization of RNA from low-biomass deep-subsurface sediments. Appl. Environ. Microbiol. 61(2):1995;763-768.
    • (1995) Appl. Environ. Microbiol. , vol.61 , Issue.2 , pp. 763-768
    • Ogram, A.V.1    Sun, W.2    Brockman, F.J.3    Fredrickson, J.K.4
  • 37
    • 0024444795 scopus 로고
    • Degradation of chlorinated aliphatic hydrocarbons by Methylosinus trichosporum OB3b expressing soluble methane monooxygenase
    • Oldenhuis R., Vink M.J.L.R., Janssen D.B., Witholt B. Degradation of chlorinated aliphatic hydrocarbons by Methylosinus trichosporum OB3b expressing soluble methane monooxygenase. Appl. Environ. Microbiol. 55:1989;2819-2826.
    • (1989) Appl. Environ. Microbiol. , vol.55 , pp. 2819-2826
    • Oldenhuis, R.1    Vink, M.J.L.R.2    Janssen, D.B.3    Witholt, B.4
  • 39
    • 0022372670 scopus 로고
    • Enzymatic amplification of β-globin genomic sequences and restriction site analysis for sickle cell anemia
    • Saiki R.K., Schart S., Faloona F., Mullis K.B., Horn G.T., Ehrlich H.A., Arnheim N. Enzymatic amplification of β-globin genomic sequences and restriction site analysis for sickle cell anemia. Science. 230:1985;1350-1354.
    • (1985) Science , vol.230 , pp. 1350-1354
    • Saiki, R.K.1    Schart, S.2    Faloona, F.3    Mullis, K.B.4    Horn, G.T.5    Ehrlich, H.A.6    Arnheim, N.7
  • 41
    • 0027133938 scopus 로고
    • Molecular diagnostics of polycyclic aromatic hydrocarbon biodegradation in manufactured gas plant soils
    • Sanseverino J., Werner C., Flemming J., Applegate B., King J.M.H., Sayler G.S. Molecular diagnostics of polycyclic aromatic hydrocarbon biodegradation in manufactured gas plant soils. Biodegradation. 4:1993;303-321.
    • (1993) Biodegradation , vol.4 , pp. 303-321
    • Sanseverino, J.1    Werner, C.2    Flemming, J.3    Applegate, B.4    King, J.M.H.5    Sayler, G.S.6
  • 42
    • 0025092974 scopus 로고
    • Environmental application of nucleic acid hybridization
    • Sayler G.S., Layton A.C. Environmental application of nucleic acid hybridization. Annu. Rev. Microbiol. 44:1990;625-648.
    • (1990) Annu. Rev. Microbiol. , vol.44 , pp. 625-648
    • Sayler, G.S.1    Layton, A.C.2
  • 43
    • 0003207558 scopus 로고    scopus 로고
    • Microbial community analysis using environmental nucleic acid extracts
    • In: Hattori, T., Ishida, Y., Maruyama, Y., Morita, R., Uchida, A. (Eds.), Japan Scientific Societies Press, Tokyo, Japan
    • Sayler, G.S., Flemming, J., Applegate, B., Werner, C., Nikbakht, K. Microbial community analysis using environmental nucleic acid extracts. In: Hattori, T., Ishida, Y., Maruyama, Y., Morita, R., Uchida, A. (Eds.), Recent Advances in Microbial Ecology, Japan Scientific Societies Press, Tokyo, Japan.
    • Recent Advances in Microbial Ecology
    • Sayler, G.S.1    Flemming, J.2    Applegate, B.3    Werner, C.4    Nikbakht, K.5
  • 48
    • 0024005650 scopus 로고
    • Use of phyllogenetically based hybridization probes for studies of ruminal microbial ecology
    • Stahl D.A., Flescher B., Mansfield H.R., Montgomery L. Use of phyllogenetically based hybridization probes for studies of ruminal microbial ecology. Appl. Environ. Microbiol. 54(5):1988;1079-1084.
    • (1988) Appl. Environ. Microbiol. , vol.54 , Issue.5 , pp. 1079-1084
    • Stahl, D.A.1    Flescher, B.2    Mansfield, H.R.3    Montgomery, L.4
  • 49
    • 0006611154 scopus 로고    scopus 로고
    • Ten years of research in groundwater transport studies at Columbus Air Force Base, Mississippi
    • In: Davis, K., Sanseverino, J., Sayler, G.S. (Eds.), Plenum Press, New York
    • Stauffer, T.B., Boggs, J.M., MacIntyre, W.G., 1997. Ten years of research in groundwater transport studies at Columbus Air Force Base, Mississippi. In: Davis, K., Sanseverino, J., Sayler, G.S. (Eds.), Biotechnology in the Sustainable Environment, Plenum Press, New York.
    • (1997) Biotechnology in the Sustainable Environment
    • Stauffer, T.B.1    Boggs, J.M.2    MacIntyre, W.G.3
  • 50
    • 0025919581 scopus 로고
    • Polymerase chain reaction in environmental microbiology
    • Steffan R.J., Atlas R.M. Polymerase chain reaction in environmental microbiology. Annu. Rev. Microbiol. 45:1991;137-161.
    • (1991) Annu. Rev. Microbiol. , vol.45 , pp. 137-161
    • Steffan, R.J.1    Atlas, R.M.2
  • 51
    • 0025963052 scopus 로고
    • Primary structure of xylene monooxygenase: Similarities to and differences from the alkane hydroxylation system
    • Suzuki M., Hayakawa T., Shaw J.P., Rekik M., Harayama S. Primary structure of xylene monooxygenase: similarities to and differences from the alkane hydroxylation system. J. Bacteriol. 173(5):1991;1690-1695.
    • (1991) J. Bacteriol. , vol.173 , Issue.5 , pp. 1690-1695
    • Suzuki, M.1    Hayakawa, T.2    Shaw, J.P.3    Rekik, M.4    Harayama, S.5
  • 52
    • 0001894963 scopus 로고
    • Isolation of bacterial DNA from soil
    • Torsvik V.L. Isolation of bacterial DNA from soil. Soil Biol. Biochem. 12:1980;15-21.
    • (1980) Soil Biol. Biochem. , vol.12 , pp. 15-21
    • Torsvik, V.L.1
  • 53
    • 0002683139 scopus 로고
    • Determination of bacterial DNA in soil
    • Torsvik V.L., Goksoyr J. Determination of bacterial DNA in soil. Soil Biol. Biochem. 10:1978;7-12.
    • (1978) Soil Biol. Biochem. , vol.10 , pp. 7-12
    • Torsvik, V.L.1    Goksoyr, J.2
  • 55
    • 0026596126 scopus 로고
    • Soluble methane monooxygenase component B gene probe for identification of methanotrophs that rapidly degrade trichloroethylene
    • Tsien H., Hanson R.S. Soluble methane monooxygenase component B gene probe for identification of methanotrophs that rapidly degrade trichloroethylene. Appl. Environ. Microbiol. 58(3):1992;953-960.
    • (1992) Appl. Environ. Microbiol. , vol.58 , Issue.3 , pp. 953-960
    • Tsien, H.1    Hanson, R.S.2
  • 56
    • 0023687618 scopus 로고
    • Degradation of trichloroethylene by toluene dioxygenase in whole cell studies with Pseudomonas putida F1
    • Wackett L.P., Gibson D.T. Degradation of trichloroethylene by toluene dioxygenase in whole cell studies with Pseudomonas putida F1. Appl. Environ. Microbiol. 54:1988;1703-1708.
    • (1988) Appl. Environ. Microbiol. , vol.54 , pp. 1703-1708
    • Wackett, L.P.1    Gibson, D.T.2
  • 58
    • 0023184331 scopus 로고
    • Bacterial evolution
    • Woese C.R. Bacterial evolution. Microbiol. Rev. 51:1987;221-271.
    • (1987) Microbiol. Rev. , vol.51 , pp. 221-271
    • Woese, C.R.1
  • 59
    • 0024266222 scopus 로고
    • Nucleotide sequence of plasmid NAH7 gene nahR and DNA binding of the nahR product
    • You I.S., Ghosal D., Gunsalus I.C. Nucleotide sequence of plasmid NAH7 gene nahR and DNA binding of the nahR product. J. Bacteriol. 170(12):1988;5409-5415.
    • (1988) J. Bacteriol. , vol.170 , Issue.12 , pp. 5409-5415
    • You, I.S.1    Ghosal, D.2    Gunsalus, I.C.3
  • 60
    • 0025801743 scopus 로고
    • Nucleotide sequence analysis of the Pseudomonas putida PpG7 salicylate hydroxylase gene (nahG) and its 3′-flanking region
    • You I.S., Ghosal D., Gunsalus I.C. Nucleotide sequence analysis of the Pseudomonas putida PpG7 salicylate hydroxylase gene (nahG) and its 3′-flanking region. Biochemistry. 30:1991;1635-1641.
    • (1991) Biochemistry , vol.30 , pp. 1635-1641
    • You, I.S.1    Ghosal, D.2    Gunsalus, I.C.3
  • 61
    • 0024427069 scopus 로고
    • Toluene degradation by Pseudomonas putida F1
    • Zylstra G.J., Gibson D.T. Toluene degradation by Pseudomonas putida F1. J. Biol. Chem. 264(5):1989;14940-14946.
    • (1989) J. Biol. Chem. , vol.264 , Issue.5 , pp. 14940-14946
    • Zylstra, G.J.1    Gibson, D.T.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.