-
1
-
-
2142763872
-
Cleaning up with genomics: applying molecular biology to bioremediation
-
Lovley DR. 2003. Cleaning up with genomics: applying molecular biology to bioremediation. Nat. Rev. Microbiol. 1:35-44.
-
(2003)
Nat. Rev. Microbiol.
, vol.1
, pp. 35-44
-
-
Lovley, D.R.1
-
2
-
-
75749106646
-
Correlation of Dehalococcoides 16S rRNA and chloroethene- reductive dehalogenase genes with geochemical conditions in chloroethene-contaminated groundwater
-
van der Zaan B, Hannes F, Hoekstra N, Rijnaarts H, de Vos WM, Smidt H, Gerritse J. 2010. Correlation of Dehalococcoides 16S rRNA and chloroethene- reductive dehalogenase genes with geochemical conditions in chloroethene-contaminated groundwater. Appl. Environ. Microbiol. 76: 843-850.
-
(2010)
Appl. Environ. Microbiol.
, vol.76
, pp. 843-850
-
-
Vander Zaan, B.1
Hannes, F.2
Hoekstra, N.3
Rijnaarts, H.4
De Vos, W.M.5
Smidt, H.6
Gerritse, J.7
-
3
-
-
58149143148
-
Concurrent ethene generation and growth of Dehalococcoides containing vinyl chloride reductive dehalogenase genes during an enhanced reductive dechlorination field demonstration
-
Scheutz C, Durant ND, Dennis P, Hansen MH, Jorgensen T, Jakobsen R, Cox EE, Bjerg PL. 2008. Concurrent ethene generation and growth of Dehalococcoides containing vinyl chloride reductive dehalogenase genes during an enhanced reductive dechlorination field demonstration. Environ. Sci. Technol. 42:9302-9309.
-
(2008)
Environ. Sci. Technol.
, vol.42
, pp. 9302-9309
-
-
Scheutz, C.1
Durant, N.D.2
Dennis, P.3
Hansen, M.H.4
Jorgensen, T.5
Jakobsen, R.6
Cox, E.E.7
Bjerg, P.L.8
-
4
-
-
77955277119
-
Assessing the correlation between anaerobic toluene degradation activity and bssA concentrations in hydrocarbon-contaminated aquifer material
-
Kazy SK, Monier AL, Alvarez PJJ. 2010. Assessing the correlation between anaerobic toluene degradation activity and bssA concentrations in hydrocarbon-contaminated aquifer material. Biodegradation 21:793- 800.
-
(2010)
Biodegradation
, vol.21
, pp. 793-800
-
-
Kazy, S.K.1
Monier, A.L.2
Alvarez, P.J.J.3
-
5
-
-
0036704664
-
Processes in microbial transport in the natural subsurface
-
Ginn TR, Wood BD, Nelson KE, Scheibe TD, Murphy EM, Prabhakar Clement T. 2002. Processes in microbial transport in the natural subsurface. Adv. Water Res. 25:1017-1042.
-
(2002)
Adv. Water Res.
, vol.25
, pp. 1017-1042
-
-
Ginn, T.R.1
Wood, B.D.2
Nelson, K.E.3
Scheibe, T.D.4
Murphy, E.M.5
Prabhakar Clement, T.6
-
7
-
-
33748770056
-
Reductive dehalogenase gene expression as a biomarker for physiological activity of Dehalococcoides spp
-
Lee PK, Johnson DR, Holmes VF, He J, Alvarez-Cohen L. 2006. Reductive dehalogenase gene expression as a biomarker for physiological activity of Dehalococcoides spp. Appl. Environ. Microbiol. 72:6161-6168.
-
(2006)
Appl. Environ. Microbiol.
, vol.72
, pp. 6161-6168
-
-
Lee, P.K.1
Johnson, D.R.2
Holmes, V.F.3
He, J.4
Alvarez-Cohen, L.5
-
8
-
-
43049130733
-
Quantifying genes and transcripts to assess the in situ physiology of "Dehalococcoides" spp
-
Lee PK, Macbeth TW, Sorenson KS, Jr, Deeb RA, Alvarez-Cohen L. 2008. Quantifying genes and transcripts to assess the in situ physiology of "Dehalococcoides" spp. in a trichloroethene-contaminated groundwater site. Appl. Environ. Microbiol. 74:2728-2739.
-
(2008)
in a trichloroethene-contaminated groundwater site. Appl. Environ. Microbiol.
, vol.74
, pp. 2728-2739
-
-
Lee, P.K.1
Macbeth, T.W.2
Sorenson, K.S.3
Deeb, R.A.4
Alvarez-Cohen, L.5
-
9
-
-
40949129223
-
Correlation of respiratory gene expression levels and pseudosteady-state PCE respiration rates in Dehalococcoides ethenogenes
-
Rahm BG, Richardson RE. 2008. Correlation of respiratory gene expression levels and pseudosteady-state PCE respiration rates in Dehalococcoides ethenogenes. Environ. Sci. Technol. 42:416-421.
-
(2008)
Environ. Sci. Technol.
, vol.42
, pp. 416-421
-
-
Rahm, B.G.1
Richardson, R.E.2
-
10
-
-
48749095131
-
Oxygen effect on Dehalococcoides viability and biomarker quantification
-
Amos BK, Ritalahti KM, Cruz-Garcia C, Padilla-Crespo E, Loffler FE. 2008. Oxygen effect on Dehalococcoides viability and biomarker quantification. Environ. Sci. Technol. 42:5718-5726.
-
(2008)
Environ. Sci. Technol.
, vol.42
, pp. 5718-5726
-
-
Amos, B.K.1
Ritalahti, K.M.2
Cruz-Garcia, C.3
Padilla-Crespo, E.4
Loffler, F.E.5
-
11
-
-
78651386906
-
Effects of elevated temperature on Dehalococcoides dechlorination performance and DNA and RNA biomarker abundance
-
Fletcher KE, Costanza J, Cruz-Garcia C, Ramaswamy NS, Pennell KD, Loffler FE. 2011. Effects of elevated temperature on Dehalococcoides dechlorination performance and DNA and RNA biomarker abundance. Environ. Sci. Technol. 45:712-718.
-
(2011)
Environ. Sci. Technol.
, vol.45
, pp. 712-718
-
-
Fletcher, K.E.1
Costanza, J.2
Cruz-Garcia, C.3
Ramaswamy, N.S.4
Pennell, K.D.5
Loffler, F.E.6
-
12
-
-
0344622120
-
Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene
-
Maymo-Gatell X, Chien Y, Gossett JM, Zinder SH. 1997. Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene. Science 276:1568-1571.
-
(1997)
Science
, vol.276
, pp. 1568-1571
-
-
Maymo-Gatell, X.1
Chien, Y.2
Gossett, J.M.3
Zinder, S.H.4
-
13
-
-
32044454849
-
Transcriptional expression of the tceA gene in a Dehalococcoidescontaining microbial enrichment
-
Johnson DR, Lee PK, Holmes VF, Fortin AC, Alvarez-Cohen L. 2005. Transcriptional expression of the tceA gene in a Dehalococcoidescontaining microbial enrichment. Appl. Environ. Microbiol. 71:7145- 7151.
-
(2005)
Appl. Environ. Microbiol.
, vol.71
, pp. 7145-7151
-
-
Johnson, D.R.1
Lee, P.K.2
Holmes, V.F.3
Fortin, A.C.4
Alvarez-Cohen, L.5
-
14
-
-
78149452850
-
Seasonal changes in bacterial and archaeal gene expression patterns across salinity gradients of the Columbia River coastal margin
-
doi:10.1371/journal.pone.0013312
-
Smith M, Herfort L, Tyrol K, Suciu D, Campbell V, Crump BC, Peterson TD, Zuber P, Baptista AM, Simon HM. 2010. Seasonal changes in bacterial and archaeal gene expression patterns across salinity gradients of the Columbia River coastal margin. PLoS One 5:e13312. doi:10.1371 /journal.pone.0013312.
-
(2010)
PLoS One
, vol.5
-
-
Smith, M.1
Herfort, L.2
Tyrol, K.3
Suciu, D.4
Campbell, V.5
Crump, B.C.6
Peterson, T.D.7
Zuber, P.8
Baptista, A.M.9
Simon, H.M.10
-
15
-
-
38949131277
-
Depth-resolved quantification of anaerobic toluene degraders and aquifer microbial community patterns in distinct redox zones of a tar oil contaminant plume
-
Winderl C, Anneser B, Griebler C, Meckenstock RU, Lueders T. 2008. Depth-resolved quantification of anaerobic toluene degraders and aquifer microbial community patterns in distinct redox zones of a tar oil contaminant plume. Appl. Environ. Microbiol. 74:792-801.
-
(2008)
Appl. Environ. Microbiol.
, vol.74
, pp. 792-801
-
-
Winderl, C.1
Anneser, B.2
Griebler, C.3
Meckenstock, R.U.4
Lueders, T.5
-
16
-
-
33947128111
-
Detection of anaerobic toluene and hydrocarbon degraders in contaminated aquifers using benzylsuccinate synthase (bssA) genes as a functional marker
-
Winderl C, Schaefer S, Lueders T. 2007. Detection of anaerobic toluene and hydrocarbon degraders in contaminated aquifers using benzylsuccinate synthase (bssA) genes as a functional marker. Environ. Microbiol. 9:1035-1046.
-
(2007)
Environ. Microbiol.
, vol.9
, pp. 1035-1046
-
-
Winderl, C.1
Schaefer, S.2
Lueders, T.3
-
17
-
-
64549150047
-
Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data
-
Ruijter JM, Ramakers C, Hoogaars WM, Karlen Y, Bakker O, van den Hoff MJ, Moorman AF. 2009. Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data. Nucleic Acids Res. 37: e45.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Ruijter, J.M.1
Ramakers, C.2
Hoogaars, W.M.3
Karlen, Y.4
Bakker, O.5
Vanden Hoff, M.J.6
Moorman, A.F.7
-
18
-
-
0034022014
-
Relationship between electron donor and microorganism on the dechlorination of carbon tetrachloride by an anaerobic enrichment culture
-
Doong RA, Chang SM. 2000. Relationship between electron donor and microorganism on the dechlorination of carbon tetrachloride by an anaerobic enrichment culture. Chemosphere 40:1427-1433.
-
(2000)
Chemosphere
, vol.40
, pp. 1427-1433
-
-
Doong, R.A.1
Chang, S.M.2
-
19
-
-
49249114550
-
Spatial heterogeneity in sediment-associated bacterial and eukaryotic communities in a landfill leachate-contaminated aquifer
-
Brad T, van Breukelen BM, Braster M, van Straalen NM, Roling WF. 2008. Spatial heterogeneity in sediment-associated bacterial and eukaryotic communities in a landfill leachate-contaminated aquifer. FEMS Microbiol. Ecol. 65:534-543.
-
(2008)
FEMS Microbiol. Ecol.
, vol.65
, pp. 534-543
-
-
Brad, T.1
Van Breukelen, B.M.2
Braster, M.3
Van Straalen, N.M.4
Roling, W.F.5
-
20
-
-
7044274171
-
Challenges in monitoring the natural attenuation of spatially variable plumes
-
Wilson RD, Thornton SF, Mackay DM. 2004. Challenges in monitoring the natural attenuation of spatially variable plumes. Biodegradation 15: 359-369.
-
(2004)
Biodegradation
, vol.15
, pp. 359-369
-
-
Wilson, R.D.1
Thornton, S.F.2
Mackay, D.M.3
-
22
-
-
0035167057
-
Ferrographic tracking of bacterial transport in the field at the narrow channel focus area, Oyster, VA
-
Johnson WP, Zhang P, Fuller ME, Scheibe TD, Mailloux BJ, Onstott TC, Deflaun MF, Hubbard SS, Radtke J, Kovacik WP, Holben W. 2001. Ferrographic tracking of bacterial transport in the field at the narrow channel focus area, Oyster, VA. Environ. Sci. Technol. 35: 182-191.
-
(2001)
Environ. Sci. Technol.
, vol.35
, pp. 182-191
-
-
Johnson, W.P.1
Zhang, P.2
Fuller, M.E.3
Scheibe, T.D.4
Mailloux, B.J.5
Onstott, T.C.6
Deflaun, M.F.7
Hubbard, S.S.8
Radtke, J.9
Kovacik, W.P.10
Holben, W.11
-
23
-
-
15244343863
-
mRNA decay in prokaryotes and eukaryotes: different approaches to a similar problem
-
Kushner SR. 2004. mRNA decay in prokaryotes and eukaryotes: different approaches to a similar problem. IUBMB Life 56:585-594.
-
(2004)
IUBMB Life
, vol.56
, pp. 585-594
-
-
Kushner, S.R.1
-
24
-
-
1642415111
-
Aerobic and anaerobic toluene degradation by a newly isolated denitrifying bacterium, Thauera sp
-
Shinoda Y, Sakai Y, Uenishi H, Uchihashi Y, Hiraishi A, Yukawa H, Yurimoto H, Kato N. 2004. Aerobic and anaerobic toluene degradation by a newly isolated denitrifying bacterium, Thauera sp. DNT-1. Appl. Environ. Microbiol. 70:1385-1392.
-
(2004)
DNT-1. Appl. Environ. Microbiol.
, vol.70
, pp. 1385-1392
-
-
Shinoda, Y.1
Sakai, Y.2
Uenishi, H.3
Uchihashi, Y.4
Hiraishi, A.5
Yukawa, H.6
Yurimoto, H.7
Kato, N.8
-
25
-
-
0035162901
-
Cloning, sequencing, transcriptional organization, and its role in anaerobic toluene and m-xylene mineralization
-
Achong G, Rodriguez A, Spormann A. 2001.Cloning, sequencing, transcriptional organization, and its role in anaerobic toluene and m-xylene mineralization. J. Bacteriol. 183:6763-6770.
-
(2001)
J. Bacteriol.
, vol.183
, pp. 6763-6770
-
-
Achong, G.1
Rodriguez, A.2
Spormann, A.3
-
26
-
-
14544281667
-
Substrate-dependent regulation of anaerobic degradation pathways for toluene and ethylbenzene in a denitrifying bacterium, strain EbN1
-
Kühner S, Wöhlbrand L, Fritz I, Wruck W, Hultschig C, Hufnagel P, Kube M, Reinhardt R, Rabus R. 2005. Substrate-dependent regulation of anaerobic degradation pathways for toluene and ethylbenzene in a denitrifying bacterium, strain EbN1. J. Bacteriol. 187:1493-1503.
-
(2005)
J. Bacteriol.
, vol.187
, pp. 1493-1503
-
-
Kühner, S.1
Wöhlbrand, L.2
Fritz, I.3
Wruck, W.4
Hultschig, C.5
Hufnagel, P.6
Kube, M.7
Reinhardt, R.8
Rabus, R.9
-
27
-
-
17644423172
-
Detachment-influenced transport of an adhesion-deficient bacterial strain within water-reactive porous media
-
Tong M, Li X, Brow CN, Johnson WP. 2005. Detachment-influenced transport of an adhesion-deficient bacterial strain within water-reactive porous media. Environ. Sci. Technol. 39:2500-2508.
-
(2005)
Environ. Sci. Technol.
, vol.39
, pp. 2500-2508
-
-
Tong, M.1
Li, X.2
Brow, C.N.3
Johnson, W.P.4
-
28
-
-
77954673425
-
Bacterial attachment and detachment in aluminum-coated quartz sand in response to ionic strength change
-
Lee CG, Park SJ, Han YU, Park JA, Kim SB. 2010. Bacterial attachment and detachment in aluminum-coated quartz sand in response to ionic strength change. Water Environ. Res. 82:499-505.
-
(2010)
Water Environ. Res.
, vol.82
, pp. 499-505
-
-
Lee, C.G.1
Park, S.J.2
Han, Y.U.3
Park, J.A.4
Kim, S.B.5
-
29
-
-
33846195397
-
Colloid population heterogeneity drives hyperexponential deviation from classic filtration theory
-
Tong M, Johnson WP. 2007. Colloid population heterogeneity drives hyperexponential deviation from classic filtration theory. Environ. Sci. Technol. 41:493-499.
-
(2007)
Environ. Sci. Technol.
, vol.41
, pp. 493-499
-
-
Tong, M.1
Johnson, W.P.2
-
30
-
-
25144518340
-
Global physiological analysis of carbon- and energylimited growing Escherichia coli confirms a high degree of catabolic flexibility and preparedness for mixed substrate utilization
-
Ihssen J, Egli T. 2005. Global physiological analysis of carbon- and energylimited growing Escherichia coli confirms a high degree of catabolic flexibility and preparedness for mixed substrate utilization. Environ. Microbiol. 7:1568-1581.
-
(2005)
Environ. Microbiol.
, vol.7
, pp. 1568-1581
-
-
Ihssen, J.1
Egli, T.2
-
31
-
-
84861211352
-
Physiological and proteomic adaptation of "Aromatoleum aromaticum" EbN1 to low growth rates in benzoate-limited, anoxic chemostats
-
Trautwein K, Lahme S, Wöhlbrand L, Feenders C, Mangelsdorf K, Harder J, Steinbüchel A, Blasius B, Reinhardt R, Rabus R. 2012. Physiological and proteomic adaptation of "Aromatoleum aromaticum" EbN1 to low growth rates in benzoate-limited, anoxic chemostats. J. Bacteriol. 194:2165-2180.
-
(2012)
J. Bacteriol.
, vol.194
, pp. 2165-2180
-
-
Trautwein, K.1
Lahme, S.2
Wöhlbrand, L.3
Feenders, C.4
Mangelsdorf, K.5
Harder, J.6
Steinbüchel, A.7
Blasius, B.8
Reinhardt, R.9
Rabus, R.10
-
32
-
-
0023629714
-
Survival strategies of bacteria in the natural environment
-
Roszak DB, Colwell RR. 1987. Survival strategies of bacteria in the natural environment. Microbiol. Rev. 51:365-379.
-
(1987)
Microbiol. Rev.
, vol.51
, pp. 365-379
-
-
Roszak, D.B.1
Colwell, R.R.2
-
33
-
-
52949137846
-
The influence of soil pH on the diversity, abundance and transcriptional activity of ammonia oxidising archaea and bacteria
-
Nicol G, Leininger S, Schleper C, Prosser J. 2008. The influence of soil pH on the diversity, abundance and transcriptional activity of ammonia oxidising archaea and bacteria. Environ. Microbiol. 10:2966-2978.
-
(2008)
Environ. Microbiol.
, vol.10
, pp. 2966-2978
-
-
Nicol, G.1
Leininger, S.2
Schleper, C.3
Prosser, J.4
-
34
-
-
38549112329
-
Transcription dynamics of the functional tfdA gene duringMCPAherbicide degradation by Cupriavidus necator AEO106 (pRO101) in agricultural soil
-
Nicolaisen MH, Bælum J, Jacobsen CS, Sørensen J. 2008. Transcription dynamics of the functional tfdA gene duringMCPAherbicide degradation by Cupriavidus necator AEO106 (pRO101) in agricultural soil. Environ. Microbiol. 10:571-579.
-
(2008)
Environ. Microbiol.
, vol.10
, pp. 571-579
-
-
Nicolaisen, M.H.1
Bælum, J.2
Jacobsen, C.S.3
Sørensen, J.4
-
35
-
-
70350475884
-
Correlation of methane production and functional gene transcriptional activity in a peat soil
-
Freitag TE, Prosser JI. 2009. Correlation of methane production and functional gene transcriptional activity in a peat soil. Appl. Environ. Microbiol. 75:6679-6687.
-
(2009)
Appl. Environ. Microbiol.
, vol.75
, pp. 6679-6687
-
-
Freitag, T.E.1
Prosser, J.I.2
|