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Volumn 146, Issue , 2014, Pages 1-51

Investigation of microbial biofilm structure by laser scanning microscopy

Author keywords

1 photon excitation; 2 photon excitation; Bioaggregates; Biofilms; Confocal laser scanning microscopy; Fluorescence

Indexed keywords

FLUORESCENT DYE; LECTIN;

EID: 84921657630     PISSN: 07246145     EISSN: None     Source Type: Book Series    
DOI: 10.1007/10_2014_272     Document Type: Article
Times cited : (75)

References (425)
  • 1
    • 4243606128 scopus 로고    scopus 로고
    • Confocal laser scanning microscopy for examination of microbial biofilms
    • An YH, Friedman RJ (eds), Humana Press, Totowa
    • Adair CG, Gorman SP, Byers LB, Jones DS, Gardiner TA (2000) Confocal laser scanning microscopy for examination of microbial biofilms. In: An YH, Friedman RJ (eds) Handbook of bacterial adhesion. Humana Press, Totowa, pp 249–256
    • (2000) Handbook of Bacterial Adhesion , pp. 249-256
    • Adair, C.G.1    Gorman, S.P.2    Byers, L.B.3    Jones, D.S.4    Gardiner, T.A.5
  • 2
    • 40749120924 scopus 로고    scopus 로고
    • Extracellular polymeric substances and structural stability of aerobic granule
    • Adav SS, Lee D-J, Tay J-H (2008) Extracellular polymeric substances and structural stability of aerobic granule. Water Res 42:1644–1650
    • (2008) Water Res , vol.42 , pp. 1644-1650
    • Adav, S.S.1    Lee, D.-J.2    Tay, J.-H.3
  • 4
    • 0028946084 scopus 로고
    • Phylogenetic identification and in situ detection of individual microbial cells without cultivation
    • Amann R, Ludwig W, Schleifer K (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59:143–169
    • (1995) Microbiol Rev , vol.59 , pp. 143-169
    • Amann, R.1    Ludwig, W.2    Schleifer, K.3
  • 5
    • 0029890507 scopus 로고    scopus 로고
    • In situ visualization of high genetic diversity in a natural microbial community
    • Amann R, Snaidr J, Wagner M, Ludwig W, Schleifer K-H (1996) In situ visualization of high genetic diversity in a natural microbial community. J Bacteriol 178:3496–3500
    • (1996) J Bacteriol , vol.178 , pp. 3496-3500
    • Amann, R.1    Snaidr, J.2    Wagner, M.3    Ludwig, W.4    Schleifer, K.-H.5
  • 7
    • 0031001285 scopus 로고    scopus 로고
    • Computer-assisted laser scanning and video microscopy for analysis of Cryptosporidium parvum oocysts in soil, sediment, and feces
    • Anguish LJ, Ghiorse WC (1997) Computer-assisted laser scanning and video microscopy for analysis of Cryptosporidium parvum oocysts in soil, sediment, and feces. Appl Environ Microbiol 63:724–733
    • (1997) Appl Environ Microbiol , vol.63 , pp. 724-733
    • Anguish, L.J.1    Ghiorse, W.C.2
  • 9
    • 28644445396 scopus 로고    scopus 로고
    • Combined bromodeoxyuridine immunocapture and terminal-restriction fragment length polymorphism analysis highlights differences in the active soil bacterial metagenome due to Glomus mosseae inoculation or plant species
    • Artursson V, Finlay RD, Jansson JK (2005) Combined bromodeoxyuridine immunocapture and terminal-restriction fragment length polymorphism analysis highlights differences in the active soil bacterial metagenome due to Glomus mosseae inoculation or plant species. Environ Microbiol 7:1952–1966
    • (2005) Environ Microbiol , vol.7 , pp. 1952-1966
    • Artursson, V.1    Finlay, R.D.2    Jansson, J.K.3
  • 10
    • 0142072740 scopus 로고    scopus 로고
    • Use of bromodeoxyuridine immunocapture to identify active bacteria associated with arbuscular mycorrhizal hyphae
    • Artursson V, Jansson JK (2003) Use of bromodeoxyuridine immunocapture to identify active bacteria associated with arbuscular mycorrhizal hyphae. Appl Environ Microbiol 69:6208–6215
    • (2003) Appl Environ Microbiol , vol.69 , pp. 6208-6215
    • Artursson, V.1    Jansson, J.K.2
  • 11
    • 0036886495 scopus 로고    scopus 로고
    • New approaches to the study of Antarctic lithobiontic microorganisms and their inorganic traces, and their application in the detection of life in Martian rocks
    • Ascaso C, Wierzchos J (2003) New approaches to the study of Antarctic lithobiontic microorganisms and their inorganic traces, and their application in the detection of life in Martian rocks. Int Microbiol 5:215–222
    • (2003) Int Microbiol , vol.5 , pp. 215-222
    • Ascaso, C.1    Wierzchos, J.2
  • 12
    • 0028906668 scopus 로고
    • In situ localization of Azospirillum brasilense in the rhizosphere of wheat with fluorescently labeled rRNA-targeted oligonucleotide probes and scanning confocal laser microscopy
    • Assmus B, Hutzler P, Kirchhof G, Amann R, Lawrence JR, Hartmann A (1995) In situ localization of Azospirillum brasilense in the rhizosphere of wheat with fluorescently labeled rRNA-targeted oligonucleotide probes and scanning confocal laser microscopy. Appl Environ Microbiol 61:1013–1019
    • (1995) Appl Environ Microbiol , vol.61 , pp. 1013-1019
    • Assmus, B.1    Hutzler, P.2    Kirchhof, G.3    Amann, R.4    Lawrence, J.R.5    Hartmann, A.6
  • 13
    • 1842413729 scopus 로고    scopus 로고
    • Improved in situ tracking of rhizosphere bacteria using dual staining with fluorescence-labeled antibodies and rRNA-targeted oligonucleotides
    • Assmus B, Schloter M, Kirchhof G, Hutzler P, Hartmann A (1997) Improved in situ tracking of rhizosphere bacteria using dual staining with fluorescence-labeled antibodies and rRNA-targeted oligonucleotides. Microb Ecol 33:32–40
    • (1997) Microb Ecol , vol.33 , pp. 32-40
    • Assmus, B.1    Schloter, M.2    Kirchhof, G.3    Hutzler, P.4    Hartmann, A.5
  • 14
    • 0040366266 scopus 로고    scopus 로고
    • Adhesion of Acinetobacter venetianus to diesel fuel droplets studied with in situ electrochemical and molecular probes
    • Baldi F, Ivosevic N, Minacci A, Pepi M, Fani R, Svetlicic V, Zutic V (1999) Adhesion of Acinetobacter venetianus to diesel fuel droplets studied with in situ electrochemical and molecular probes. Appl Environ Microbiol 65:2041–2048
    • (1999) Appl Environ Microbiol , vol.65 , pp. 2041-2048
    • Baldi, F.1    Ivosevic, N.2    Minacci, A.3    Pepi, M.4    Fani, R.5    Svetlicic, V.6    Zutic, V.7
  • 15
    • 0041528255 scopus 로고    scopus 로고
    • Growth of Rhodosporium toruloides strain DBVPG 6662 on dibenzothiophene crystals and orimulsion
    • Baldi F, Pepi M, Fava F (2003) Growth of Rhodosporium toruloides strain DBVPG 6662 on dibenzothiophene crystals and orimulsion. Appl Environ Microbiol 69:4689–4696
    • (2003) Appl Environ Microbiol , vol.69 , pp. 4689-4696
    • Baldi, F.1    Pepi, M.2    Fava, F.3
  • 16
    • 78149384003 scopus 로고    scopus 로고
    • Granule formation mechanisms within an aerobic wastewater system for phosphorus removal
    • Barr JJ, Cook AE, Bond PL (2010) Granule formation mechanisms within an aerobic wastewater system for phosphorus removal. Appl Environ Microbiol 76:7588–7597
    • (2010) Appl Environ Microbiol , vol.76 , pp. 7588-7597
    • Barr, J.J.1    Cook, A.E.2    Bond, P.L.3
  • 17
    • 0345414146 scopus 로고    scopus 로고
    • Contributions of microbial biofilms to ecosystem processes in stream mesocosms
    • Battin TJ, Kaplan LA, Newbold JD, Hansen CME (2003) Contributions of microbial biofilms to ecosystem processes in stream mesocosms. Nature 426:439–442
    • (2003) Nature , vol.426 , pp. 439-442
    • Battin, T.J.1    Kaplan, L.A.2    Newbold, J.D.3    Hansen, C.4
  • 19
    • 84881662848 scopus 로고    scopus 로고
    • Mapping glycoconjugate-mediated interactions of marine Bacteroidetes with diatoms
    • Bennke CM, Neu TR, Fuchs BM, Amann R (2013) Mapping glycoconjugate-mediated interactions of marine Bacteroidetes with diatoms. Systematic Appl Microbiol 36:417–425
    • (2013) Systematic Appl Microbiol , vol.36 , pp. 417-425
    • Bennke, C.M.1    Neu, T.R.2    Fuchs, B.M.3    Amann, R.4
  • 20
    • 77955362784 scopus 로고    scopus 로고
    • A bacterial extracellular DNA inhibits settling of motile progeny cells within a biofilm
    • Berne C, Kysela DT, Brun YV (2010) A bacterial extracellular DNA inhibits settling of motile progeny cells within a biofilm. Mol Microbiol 77:815–829
    • (2010) Mol Microbiol , vol.77 , pp. 815-829
    • Berne, C.1    Kysela, D.T.2    Brun, Y.V.3
  • 21
    • 34249702940 scopus 로고    scopus 로고
    • Assessment and interpretation of bacterial viability by using the LIVE/DEAD baclight kit in combination with flow cytometry
    • Berney M, Hammes F, Bosshard F, Weilenmann H-U, Egli T (2007) Assessment and interpretation of bacterial viability by using the LIVE/DEAD baclight kit in combination with flow cytometry. Appl Environ Microbiol 73:3283–3290
    • (2007) Appl Environ Microbiol , vol.73 , pp. 3283-3290
    • Berney, M.1    Hammes, F.2    Bosshard, F.3    Weilenmann, H.-U.4    Egli, T.5
  • 22
    • 80052368168 scopus 로고    scopus 로고
    • Application of the standard addition method for the absolute quantification of neutral lipids in microalgae using Nile red
    • Bertozzini E, Galluzzi L, Penna A, Magnani M (2011) Application of the standard addition method for the absolute quantification of neutral lipids in microalgae using Nile red. J Microbiol Methods 87:17–23
    • (2011) J Microbiol Methods , vol.87 , pp. 17-23
    • Bertozzini, E.1    Galluzzi, L.2    Penna, A.3    Magnani, M.4
  • 23
    • 70449429190 scopus 로고    scopus 로고
    • Bacterial community composition of stream biofilms in spatially variable-flow environments
    • Besemer K, Singer G, Hödl I, Battin TJ (2009) Bacterial community composition of stream biofilms in spatially variable-flow environments. Appl Environ Microbiol 75:7189–7195
    • (2009) Appl Environ Microbiol , vol.75 , pp. 7189-7195
    • Besemer, K.1    Singer, G.2    Hödl, I.3    Battin, T.J.4
  • 26
    • 0036142849 scopus 로고    scopus 로고
    • A new combined technique of fluorescent in situ hybridization and lectin-binding-analysis (FISH-LBA) for the investigation of lotic microbial aggregates
    • Böckelmann U, Manz W, Neu TR, Szewzyk U (2002) A new combined technique of fluorescent in situ hybridization and lectin-binding-analysis (FISH-LBA) for the investigation of lotic microbial aggregates. J Microbiol Methods 49:75–87
    • (2002) J Microbiol Methods , vol.49 , pp. 75-87
    • Böckelmann, U.1    Manz, W.2    Neu, T.R.3    Szewzyk, U.4
  • 27
    • 4344695138 scopus 로고    scopus 로고
    • Growth, structure and oxygen penetration in particle supported autotrophic biofilms
    • Boessmann M, Neu TR, Horn H, Hempel DC (2004) Growth, structure and oxygen penetration in particle supported autotrophic biofilms. Water Sci Technol 49:371–377
    • (2004) Water Sci Technol , vol.49 , pp. 371-377
    • Boessmann, M.1    Neu, T.R.2    Horn, H.3    Hempel, D.C.4
  • 28
    • 67650505323 scopus 로고    scopus 로고
    • Protists with different feeding modes change biofilm morphology
    • Böhme A, Risse-Buhl U, Küsel K (2009) Protists with different feeding modes change biofilm morphology. FEMS Microbiol Ecol 69:158–169
    • (2009) FEMS Microbiol Ecol , vol.69 , pp. 158-169
    • Böhme, A.1    Risse-Buhl, U.2    Küsel, K.3
  • 30
    • 0032587252 scopus 로고    scopus 로고
    • LIVE/DEAD _ BacLightTM: Application of a new rapid staining method for direct enumeration of viable and total bacteria in drinking water
    • Boulos L, Prevost M, Barbeau B, Coallier J, Desjardins R (1999) LIVE/DEAD _ BacLightTM: application of a new rapid staining method for direct enumeration of viable and total bacteria in drinking water. J Microbiol Methods 37:77–86
    • (1999) J Microbiol Methods , vol.37 , pp. 77-86
    • Boulos, L.1    Prevost, M.2    Barbeau, B.3    Coallier, J.4    Desjardins, R.5
  • 31
    • 0034630406 scopus 로고    scopus 로고
    • Assessment of viability of microorganisms employing fluorescence techniques
    • Breeuwer P, Abee T (2000) Assessment of viability of microorganisms employing fluorescence techniques. Int J Food Microbiol 55:193–200
    • (2000) Int J Food Microbiol , vol.55 , pp. 193-200
    • Breeuwer, P.1    Abee, T.2
  • 32
    • 33646112653 scopus 로고    scopus 로고
    • Culture conditions of Roseobacter strain 27-4 affect its attachment and biofilm formation as quantified by realtime PCR
    • Bruhn JB, Haagensen JAJ, Bagge-Ravn D, Gram L (2006) Culture conditions of Roseobacter strain 27-4 affect its attachment and biofilm formation as quantified by realtime PCR. Appl Environ Microbiol 72:3011–3015
    • (2006) Appl Environ Microbiol , vol.72 , pp. 3011-3015
    • Bruhn, J.B.1    Haagensen, J.2    Bagge-Ravn, D.3    Gram, L.4
  • 33
    • 0030908830 scopus 로고    scopus 로고
    • Fluorescent probes for wall porosity and membrane integrity in filamentous fungi
    • Brul S, Nussbaum J, Dielbandhoesing SK (1997) Fluorescent probes for wall porosity and membrane integrity in filamentous fungi. J Microbiol Methods 28:169–178
    • (1997) J Microbiol Methods , vol.28 , pp. 169-178
    • Brul, S.1    Nussbaum, J.2    Dielbandhoesing, S.K.3
  • 34
    • 0034927726 scopus 로고    scopus 로고
    • Two-photon excitation microscopy for analyses of biofilm processes
    • Bryers JD (2001) Two-photon excitation microscopy for analyses of biofilm processes. Methods Enzymol 337:259–269
    • (2001) Methods Enzymol , vol.337 , pp. 259-269
    • Bryers, J.D.1
  • 35
    • 79251607435 scopus 로고    scopus 로고
    • Testate amoebae examined by confocal and two-photon microscopy: Implications for taxonomy and ecophysiology
    • Burdikova Z, Capek M, Ostasov P, Machac J, Pelc R, Mitchell EAD, Kubinova L (2010) Testate amoebae examined by confocal and two-photon microscopy: Implications for taxonomy and ecophysiology. Microsc Anal 16:735–746
    • (2010) Microsc Anal , vol.16 , pp. 735-746
    • Burdikova, Z.1    Capek, M.2    Ostasov, P.3    Machac, J.4    Pelc, R.5    Mitchell, E.6    Kubinova, L.7
  • 36
    • 0033765066 scopus 로고    scopus 로고
    • Attachment of Escherichia coli O157:H7 to the surfaces and internal structures of apples as detected by confocal scanning laser microscopy
    • Burnett SL, Chen J, Beuchat LR (2000) Attachment of Escherichia coli O157:H7 to the surfaces and internal structures of apples as detected by confocal scanning laser microscopy. Appl Environ Microbiol 66:4679–4687
    • (2000) Appl Environ Microbiol , vol.66 , pp. 4679-4687
    • Burnett, S.L.1    Chen, J.2    Beuchat, L.R.3
  • 37
    • 0002345937 scopus 로고
    • Confocal laser scanning microscopy and digital image analysis in microbial ecology
    • Caldwell DE, Korber DR, Lawrence JR (1992) Confocal laser scanning microscopy and digital image analysis in microbial ecology. Adv Microb Ecol 12:1–67
    • (1992) Adv Microb Ecol , vol.12 , pp. 1-67
    • Caldwell, D.E.1    Korber, D.R.2    Lawrence, J.R.3
  • 38
    • 0032827383 scopus 로고    scopus 로고
    • Effectiveness of CSE to counterstain particles and dead bacterial cells with permeabilised membranes: Application to viability assessment in waters
    • Catala P, Parthuisot N, Bernard L, Baudart J, Lemarchand K, Lebaron P (1999) Effectiveness of CSE to counterstain particles and dead bacterial cells with permeabilised membranes: application to viability assessment in waters. FEMS Microbiol Lett 178:219–226
    • (1999) FEMS Microbiol Lett , vol.178 , pp. 219-226
    • Catala, P.1    Parthuisot, N.2    Bernard, L.3    Baudart, J.4    Lemarchand, K.5    Lebaron, P.6
  • 39
    • 78349278370 scopus 로고    scopus 로고
    • Association of marine viral and bacterial communities with reference black carbon particles under experimental conditions: An analysis with scanning electron, epifluorescence and confocal laser scanning microscopy
    • Cattaneo R, Rouviere C, Rassoulzadegan F, Weinbauer MG (2010) Association of marine viral and bacterial communities with reference black carbon particles under experimental conditions: an analysis with scanning electron, epifluorescence and confocal laser scanning microscopy. FEMS Microbiol Ecol 74:382–396
    • (2010) FEMS Microbiol Ecol , vol.74 , pp. 382-396
    • Cattaneo, R.1    Rouviere, C.2    Rassoulzadegan, F.3    Weinbauer, M.G.4
  • 41
    • 0035143656 scopus 로고    scopus 로고
    • Application of digital image analysis and flow cytometry to enumerate marine viruses stained with SYBR gold
    • Chen F, Lu JR, Binder BJ, Liu YC, Hodson RE (2001) Application of digital image analysis and flow cytometry to enumerate marine viruses stained with SYBR gold. Appl Environ Microbiol 67:539–545
    • (2001) Appl Environ Microbiol , vol.67 , pp. 539-545
    • Chen, F.1    Lu, J.R.2    Binder, B.J.3    Liu, Y.C.4    Hodson, R.E.5
  • 42
    • 33846170571 scopus 로고    scopus 로고
    • Distribution of extracellular polymeric substances in aerobic granules
    • Chen MY, Lee DJ, Tay JH (2007) Distribution of extracellular polymeric substances in aerobic granules. Appl Microbiol Biotechnol 73:1463–1469
    • (2007) Appl Microbiol Biotechnol , vol.73 , pp. 1463-1469
    • Chen, M.Y.1    Lee, D.J.2    Tay, J.H.3
  • 43
    • 34249864395 scopus 로고    scopus 로고
    • Staining of extracellular polymeric substances and cells in bioaggregates
    • Chen M-Y, Lee D-J, Tay J-H, Show K-Y (2007) Staining of extracellular polymeric substances and cells in bioaggregates. Appl Microbiol Biotechnol 75:467–474
    • (2007) Appl Microbiol Biotechnol , vol.75 , pp. 467-474
    • Chen, M.-Y.1    Lee, D.-J.2    Tay, J.-H.3    Show, K.-Y.4
  • 44
    • 0036254810 scopus 로고    scopus 로고
    • Metabolic commensalism and competition in a two-species microbial consortium
    • Christensen BB, Haagensen JAJ, Heydorn A, Molin S (2002) Metabolic commensalism and competition in a two-species microbial consortium. Appl Environ Microbiol 68:2495–2502
    • (2002) Appl Environ Microbiol , vol.68 , pp. 2495-2502
    • Christensen, B.B.1    Haagensen, J.2    Heydorn, A.3    Molin, S.4
  • 47
    • 0034054029 scopus 로고    scopus 로고
    • ER-tracker dye and BODIPY-breveldin A differentiate the endoplasmic reticulum and golgi bodies from the tubularvacuole system in living hyphae of Pisolithus tinctorius
    • Cole L, Davies D, Hyde GJ, Ashford AE (2000) ER-tracker dye and BODIPY-breveldin A differentiate the endoplasmic reticulum and golgi bodies from the tubularvacuole system in living hyphae of Pisolithus tinctorius. J Microsc 197:239–248
    • (2000) J Microsc , vol.197 , pp. 239-248
    • Cole, L.1    Davies, D.2    Hyde, G.J.3    Ashford, A.E.4
  • 48
    • 0042530106 scopus 로고    scopus 로고
    • Colonization of Arabidopsis thaliana with Salmonella enterica and enterohemorrhagic Escherichia coli O157:H7 and competition by Enterobacter asburiae
    • Cooley MB, Miller WG, Mandrell RE (2003) Colonization of Arabidopsis thaliana with Salmonella enterica and enterohemorrhagic Escherichia coli O157:H7 and competition by Enterobacter asburiae. Appl Environ Microbiol 69:4915–4926
    • (2003) Appl Environ Microbiol , vol.69 , pp. 4915-4926
    • Cooley, M.B.1    Miller, W.G.2    Mandrell, R.E.3
  • 49
    • 0028929012 scopus 로고
    • The use of confocal scanning laser microscopy (CSLM) to study the germination of individual spores of Bacillus cereus
    • Coote PJ, Billon CMP, Pennell S, McClure PJ, Ferdinando DP, Cole MB (1995) The use of confocal scanning laser microscopy (CSLM) to study the germination of individual spores of Bacillus cereus. J Microbiol Methods 21:193–208
    • (1995) J Microbiol Methods , vol.21 , pp. 193-208
    • Coote, P.J.1    Billon, C.2    Pennell, S.3    McClure, P.J.4    Ferdinando, D.P.5    Cole, M.B.6
  • 50
    • 0035839320 scopus 로고    scopus 로고
    • Double-stranded DNA measurement in lakes with the fluorescent stain PicoGreen and the application to bacterial assays
    • Cotner JB, Ogdahl ML, Biddanda BA (2001) Double-stranded DNA measurement in lakes with the fluorescent stain PicoGreen and the application to bacterial assays. Aquat Microb Ecol 25:65–74
    • (2001) Aquat Microb Ecol , vol.25 , pp. 65-74
    • Cotner, J.B.1    Ogdahl, M.L.2    Biddanda, B.A.3
  • 52
    • 0033775378 scopus 로고    scopus 로고
    • Commensal interactions in a dualspecies biofilm exposed to mixed organic compounds
    • Cowan SE, Gilbert E, Liepmann D, Keasling JD (2000) Commensal interactions in a dualspecies biofilm exposed to mixed organic compounds. Appl Environ Microbiol 66:4481–4485
    • (2000) Appl Environ Microbiol , vol.66 , pp. 4481-4485
    • Cowan, S.E.1    Gilbert, E.2    Liepmann, D.3    Keasling, J.D.4
  • 53
    • 0029660667 scopus 로고    scopus 로고
    • Structural and chemical analysis of marine aggregates: In situ macrophotography and laser confocal and electron microscopy
    • Cowen JP, Holloway CF (1996) Structural and chemical analysis of marine aggregates: in situ macrophotography and laser confocal and electron microscopy. Mar Biol 126:163–174
    • (1996) Mar Biol , vol.126 , pp. 163-174
    • Cowen, J.P.1    Holloway, C.F.2
  • 55
    • 0034051181 scopus 로고    scopus 로고
    • Identification of polyphosphate-accumulating organisms and design of 16S rRNA-directed probes for their detection and quantification
    • Crocetti GR, Hugenholtz P, Bond PL, Schuler A, Keller J, Jenkins D, Blackall LL (2000) Identification of polyphosphate-accumulating organisms and design of 16S rRNA-directed probes for their detection and quantification. Appl Environ Microbiol 66:1175–1182
    • (2000) Appl Environ Microbiol , vol.66 , pp. 1175-1182
    • Crocetti, G.R.1    Hugenholtz, P.2    Bond, P.L.3    Schuler, A.4    Keller, J.5    Jenkins, D.6    Blackall, L.L.7
  • 56
    • 84855974367 scopus 로고    scopus 로고
    • Reversible and irreversible pollutant-induced bacterial cellular stress effects measured by ethidium bromide uptake and efflux
    • Czechowska K, van der Meer JR (2011) Reversible and irreversible pollutant-induced bacterial cellular stress effects measured by ethidium bromide uptake and efflux. Environ Sci Technol 46:1201–1208
    • (2011) Environ Sci Technol , vol.46 , pp. 1201-1208
    • Czechowska, K.1    Van Der Meer, J.R.2
  • 58
    • 0035512205 scopus 로고    scopus 로고
    • In situ characterization of Nitrospira-like nitrite-oxidizing bacteria active in waste water treatments plants
    • Daims H, Nielsen JL, Nielsen PH, Schleifer K-H, Wagner M (2001) In situ characterization of Nitrospira-like nitrite-oxidizing bacteria active in waste water treatments plants. Appl Environ Microbiol 67:5273–5284
    • (2001) Appl Environ Microbiol , vol.67 , pp. 5273-5284
    • Daims, H.1    Nielsen, J.L.2    Nielsen, P.H.3    Schleifer, K.-H.4    Wagner, M.5
  • 59
    • 0035653625 scopus 로고    scopus 로고
    • Cultivation-independent, semiautomatic determination of absolute bacterial cell numbers in environmental samples by fluorescence in situ hybridization
    • Daims H, Ramsing NB, Schleifer K-H, Wagner M (2001) Cultivation-independent, semiautomatic determination of absolute bacterial cell numbers in environmental samples by fluorescence in situ hybridization. Appl Environ Microbiol 67:5810–5818
    • (2001) Appl Environ Microbiol , vol.67 , pp. 5810-5818
    • Daims, H.1    Ramsing, N.B.2    Schleifer, K.-H.3    Wagner, M.4
  • 60
    • 78650772915 scopus 로고    scopus 로고
    • Red but not dead? Membranes of stressed Saccharomyces cerevisiae are permeable to propidium iodide
    • Davey HM, Hexley P (2011) Red but not dead? Membranes of stressed Saccharomyces cerevisiae are permeable to propidium iodide. Environ Microbiol 13:163–171
    • (2011) Environ Microbiol , vol.13 , pp. 163-171
    • Davey, H.M.1    Hexley, P.2
  • 61
    • 80052633307 scopus 로고    scopus 로고
    • Life, death, and in-between: Meanings and methods in microbiology
    • Davey HM (2011) Life, death, and in-between: meanings and methods in microbiology. Appl Environ Microbiol 77:5571–5576
    • (2011) Appl Environ Microbiol , vol.77 , pp. 5571-5576
    • Davey, H.M.1
  • 63
    • 0037385273 scopus 로고    scopus 로고
    • Acid microenvironments in microbial biofilms of antarctic endolithic microecosystems
    • de los Rios A, Wierzchos J, Sancho LG, Ascaso C (2003) Acid microenvironments in microbial biofilms of antarctic endolithic microecosystems. Environ Microbiol 5:231–237
    • (2003) Environ Microbiol , vol.5 , pp. 231-237
    • De Los Rios, A.1    Wierzchos, J.2    Sancho, L.G.3    Ascaso, C.4
  • 64
    • 0029789243 scopus 로고    scopus 로고
    • Flow cytometric determination of bacterial abundance in lake plankton with the green nucleic acid stain SYTO 13
    • del Giorgio PA, Bird DF, Prairie YT, Planas D (1996) Flow cytometric determination of bacterial abundance in lake plankton with the green nucleic acid stain SYTO 13. Limnol Oceanogr 41:783–789
    • (1996) Limnol Oceanogr , vol.41 , pp. 783-789
    • Del Giorgio, P.A.1    Bird, D.F.2    Prairie, Y.T.3    Planas, D.4
  • 65
    • 0030833334 scopus 로고    scopus 로고
    • Use of confocal laser scanning microscopy on soil thin-sections for improved characterization of microbial growth in unconsolidated soils and aquifer materials
    • DeLeo PC, Baveye P, Ghiorse WC (1997) Use of confocal laser scanning microscopy on soil thin-sections for improved characterization of microbial growth in unconsolidated soils and aquifer materials. J Microbiol Methods 30:193–203
    • (1997) J Microbiol Methods , vol.30 , pp. 193-203
    • Deleo, P.C.1    Baveye, P.2    Ghiorse, W.C.3
  • 66
    • 0024507744 scopus 로고
    • Phylogenetic stains: Ribosomal RNA-based probes for the identification of single cells
    • DeLong EF, Wickham GS, Pace NR (1989) Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells. Science 243:1360–1363
    • (1989) Science , vol.243 , pp. 1360-1363
    • Delong, E.F.1    Wickham, G.S.2    Pace, N.R.3
  • 67
    • 0025342635 scopus 로고
    • Two-photon laser scanning fluorescence microscopy
    • Denk W, Strickler JH, Webb WW (1990) Two-photon laser scanning fluorescence microscopy. Science 248:73–76
    • (1990) Science , vol.248 , pp. 73-76
    • Denk, W.1    Strickler, J.H.2    Webb, W.W.3
  • 68
    • 77953484522 scopus 로고    scopus 로고
    • Fluorometric quantification of natural inorganic polyphosphate
    • Diaz JM, Ingall ED (2010) Fluorometric quantification of natural inorganic polyphosphate. Environ Sci Technol 44:4665–4671
    • (2010) Environ Sci Technol , vol.44 , pp. 4665-4671
    • Diaz, J.M.1    Ingall, E.D.2
  • 70
    • 77955664335 scopus 로고    scopus 로고
    • Use of viability staining in combination with flow cytometry for rapid viability assessment of Lactobacillus rhamnosus GG in complex protein matrices
    • Doherty SB, Wang L, Ross RP, Stanton C, Fitzgerald GF, Brodkorb A (2010) Use of viability staining in combination with flow cytometry for rapid viability assessment of Lactobacillus rhamnosus GG in complex protein matrices. J Microbiol Methods 82:301–310
    • (2010) J Microbiol Methods , vol.82 , pp. 301-310
    • Doherty, S.B.1    Wang, L.2    Ross, R.P.3    Stanton, C.4    Fitzgerald, G.F.5    Brodkorb, A.6
  • 71
    • 79952085066 scopus 로고    scopus 로고
    • Extracellular DNA is abundant and important for microcolony strength in mixed microbial biofilms
    • Dominiak DM, Nielsen JL, Nielsen PH (2011) Extracellular DNA is abundant and important for microcolony strength in mixed microbial biofilms. Environ Microbiol 13:710–721
    • (2011) Environ Microbiol , vol.13 , pp. 710-721
    • Dominiak, D.M.1    Nielsen, J.L.2    Nielsen, P.H.3
  • 72
    • 60649119122 scopus 로고    scopus 로고
    • Preventing biofilms of clinically relevant organisms using bacteriaphage
    • Donlan RM (2009) Preventing biofilms of clinically relevant organisms using bacteriaphage. Trends Microbiol 17:66–72
    • (2009) Trends Microbiol , vol.17 , pp. 66-72
    • Donlan, R.M.1
  • 74
    • 0029744081 scopus 로고    scopus 로고
    • Tracing the interaction of bacteriophage with bacterial biofilms using fluorescent and chromogenetic probes
    • Doolittle MM, Cooney JJ, Caldwell DE (1996) Tracing the interaction of bacteriophage with bacterial biofilms using fluorescent and chromogenetic probes. J Ind Microbiol 16:331–341
    • (1996) J Ind Microbiol , vol.16 , pp. 331-341
    • Doolittle, M.M.1    Cooney, J.J.2    Caldwell, D.E.3
  • 75
    • 79960106902 scopus 로고    scopus 로고
    • Preferential feeding by the ciliates Chilodonella and Tetrahymena spp. And effects of these protozoa on bacterial biofilm structure and composition
    • Dopheide A, Lear G, Stott R, Lewis G (2011) Preferential feeding by the ciliates Chilodonella and Tetrahymena spp. and effects of these protozoa on bacterial biofilm structure and composition. Appl Environ Microbiol 77:4564–4572
    • (2011) Appl Environ Microbiol , vol.77 , pp. 4564-4572
    • Dopheide, A.1    Lear, G.2    Stott, R.3    Lewis, G.4
  • 78
  • 79
    • 0036177301 scopus 로고    scopus 로고
    • Nuclease activities and cell death processes associated with the development of surface cultures of Streptomyces antibioticus ETH 7451
    • Fernandez M, Sanchez J (2002) Nuclease activities and cell death processes associated with the development of surface cultures of Streptomyces antibioticus ETH 7451. Microbiology 148:405–412
    • (2002) Microbiology , vol.148 , pp. 405-412
    • Fernandez, M.1    Sanchez, J.2
  • 80
    • 33644865138 scopus 로고    scopus 로고
    • Catalyzed reporter deposition— fluorescence in situ hybridization allows for enrichment—independent detection of microcolony—forming soil bacteria
    • Ferrari BC, Tujula N, Stoner K, Kjelleberg S (2006) Catalyzed reporter deposition— fluorescence in situ hybridization allows for enrichment—independent detection of microcolony—forming soil bacteria. Appl Environ Microbiol 72:918–922
    • (2006) Appl Environ Microbiol , vol.72 , pp. 918-922
    • Ferrari, B.C.1    Tujula, N.2    Stoner, K.3    Kjelleberg, S.4
  • 81
    • 34247617203 scopus 로고    scopus 로고
    • A fluorescence assay to determine the viable biomass of microcosm dental plaque biofilms
    • Filoche SK, Coleman MJ, Angker L, Sissons CH (2007) A fluorescence assay to determine the viable biomass of microcosm dental plaque biofilms. J Microbiol Methods 69:489–496
    • (2007) J Microbiol Methods , vol.69 , pp. 489-496
    • Filoche, S.K.1    Coleman, M.J.2    Angker, L.3    Sissons, C.H.4
  • 82
    • 84921690728 scopus 로고    scopus 로고
    • Use of in-biofilm expression technology to identify genes involved in Pseudomonas aeruginosa biofilm development
    • Finelli A, Gallant CV, Jarvi K, Burrows LL (2003) Use of in-biofilm expression technology to identify genes involved in Pseudomonas aeruginosa biofilm development. Appl Environ Microbiol 69:2700–2710
    • (2003) Appl Environ Microbiol , vol.69 , pp. 2700-2710
    • Finelli, A.1    Gallant, C.V.2    Jarvi, K.3    Burrows, L.L.4
  • 83
    • 0034095749 scopus 로고    scopus 로고
    • Confocal microscopy of FM4-64 as a tool for analysing endocytosis and vesicle trafficking in living fungal hyphae
    • Fischer-Parton S, Parton RM, Hickey PC, Dijksterhuis J, Atkinson HA, Read ND (2000) Confocal microscopy of FM4-64 as a tool for analysing endocytosis and vesicle trafficking in living fungal hyphae. J Microsc 198:246–259
    • (2000) J Microsc , vol.198 , pp. 246-259
    • Fischer-Parton, S.1    Parton, R.M.2    Hickey, P.C.3    Dijksterhuis, J.4    Atkinson, H.A.5    Read, N.D.6
  • 84
    • 0036793712 scopus 로고    scopus 로고
    • Simultaneous fluorescent gram staining and activity assesment of activated sludge bacteria
    • Forster S, Snape JR, Lappin-Scott HM, Porter J (2002) Simultaneous fluorescent gram staining and activity assesment of activated sludge bacteria. Appl Environ Microbiol 68:4772–4779
    • (2002) Appl Environ Microbiol , vol.68 , pp. 4772-4779
    • Forster, S.1    Snape, J.R.2    Lappin-Scott, H.M.3    Porter, J.4
  • 87
    • 77957950356 scopus 로고    scopus 로고
    • Fungal mycelia allow chemotactic dispersal of polycyclic aromatic hydrocarbon-degrading bacteria in waterunsaturated systems
    • Furuno S, Päzolt K, Rabe C, Neu TR, Harms H, Wick LY (2010) Fungal mycelia allow chemotactic dispersal of polycyclic aromatic hydrocarbon-degrading bacteria in waterunsaturated systems. Environ Microbiol 12:1391–1398
    • (2010) Environ Microbiol , vol.12 , pp. 1391-1398
    • Furuno, S.1    Päzolt, K.2    Rabe, C.3    Neu, T.R.4    Harms, H.5    Wick, L.Y.6
  • 89
    • 0037783956 scopus 로고    scopus 로고
    • A novel spectrofluorometric microassay for Streptococcus mutans adherence to hydroxylapatite
    • Gaines S, James TC, Folan M, Baird AW, O’Farrelly C (2003) A novel spectrofluorometric microassay for Streptococcus mutans adherence to hydroxylapatite. J Microbiol Methods 54:315–323
    • (2003) J Microbiol Methods , vol.54 , pp. 315-323
    • Gaines, S.1    James, T.C.2    Folan, M.3    Baird, A.W.4    O’Farrelly, C.5
  • 90
    • 55949125389 scopus 로고    scopus 로고
    • Interaction between biofilm development, structure and detachment in rotating annular reactors
    • Garny K, Horn H, Neu TR (2008) Interaction between biofilm development, structure and detachment in rotating annular reactors. Bioprocess Biosyst Eng 31:619–629
    • (2008) Bioprocess Biosyst Eng , vol.31 , pp. 619-629
    • Garny, K.1    Horn, H.2    Neu, T.R.3
  • 91
    • 67349096751 scopus 로고    scopus 로고
    • Sloughing and limited substrate conditions trigger filamentous growth in heterotrophic biofilms—measurements in flow-through tube reactor
    • Garny K, Neu TR, Horn H (2009) Sloughing and limited substrate conditions trigger filamentous growth in heterotrophic biofilms—measurements in flow-through tube reactor. Chem Eng Sci 64:2723–2732
    • (2009) Chem Eng Sci , vol.64 , pp. 2723-2732
    • Garny, K.1    Neu, T.R.2    Horn, H.3
  • 92
    • 0033231211 scopus 로고    scopus 로고
    • Imaging of optically thick specimen using two-photon excitation microscopy
    • Gerritsen HC, Grauw dCJ (1999) Imaging of optically thick specimen using two-photon excitation microscopy. Microsc Res Tech 47:206–209
    • (1999) Microsc Res Tech , vol.47 , pp. 206-209
    • Gerritsen, H.C.1    Grauw, D.2
  • 93
    • 0038062821 scopus 로고    scopus 로고
    • Structure and acitvity of multiple nitrifying bacterial populations co-existing in a biofilm
    • Gieseke A, Bjerrum L, Wagner M, Amann R (2003) Structure and acitvity of multiple nitrifying bacterial populations co-existing in a biofilm. Environ Microbiol 5:355–369
    • (2003) Environ Microbiol , vol.5 , pp. 355-369
    • Gieseke, A.1    Bjerrum, L.2    Wagner, M.3    Amann, R.4
  • 94
    • 0035286749 scopus 로고    scopus 로고
    • Community structure and activity dynamics of nitrifying bacteria in a phosphate-removing biofilm
    • Gieseke A, Purkhold U, Wagner M, Amann R, Schramm A (2001) Community structure and activity dynamics of nitrifying bacteria in a phosphate-removing biofilm. Appl Environ Microbiol 67:1351–1362
    • (2001) Appl Environ Microbiol , vol.67 , pp. 1351-1362
    • Gieseke, A.1    Purkhold, U.2    Wagner, M.3    Amann, R.4    Schramm, A.5
  • 95
    • 33745170356 scopus 로고    scopus 로고
    • Nitrification in a biofilm at low pH values: Role of in situ microenvironments and acid tolerance
    • Gieseke A, Tarre S, Green M, de Beer D (2006) Nitrification in a biofilm at low pH values: role of in situ microenvironments and acid tolerance. Appl Environ Microbiol 72:4283–4292
    • (2006) Appl Environ Microbiol , vol.72 , pp. 4283-4292
    • Gieseke, A.1    Tarre, S.2    Green, M.3    De Beer, D.4
  • 96
    • 0344269342 scopus 로고    scopus 로고
    • In situ localization of two methanotrophic strains in the rhizosphere of rice plants
    • Gilbert B, Assmus B, Hartmann A, Frenzel P (1998) In situ localization of two methanotrophic strains in the rhizosphere of rice plants. FEMS Microbiol Ecol 25:117–128
    • (1998) FEMS Microbiol Ecol , vol.25 , pp. 117-128
    • Gilbert, B.1    Assmus, B.2    Hartmann, A.3    Frenzel, P.4
  • 98
    • 79953024811 scopus 로고    scopus 로고
    • Phage-induced lysis enhances biofilm formation in Shewanella oneidensis MR-1
    • Godeke J, Paul K, Lassak J, Thormann KM (2011) Phage-induced lysis enhances biofilm formation in Shewanella oneidensis MR-1. ISME J 5:613–626
    • (2011) ISME J , vol.5 , pp. 613-626
    • Godeke, J.1    Paul, K.2    Lassak, J.3    Thormann, K.M.4
  • 99
    • 2742524037 scopus 로고
    • Confocal laser scanning microscopy of adherent microorganisms, biofilms and surfaces
    • In: Denyer SP, Gorman SP, Sussman M, Blackwell, London
    • Gorman SP, Mawhinney WM, Adair CG (1993) Confocal laser scanning microscopy of adherent microorganisms, biofilms and surfaces. In: Denyer SP, Gorman SP, Sussman M (eds) Microbial biofilms: formation and control. Blackwell, London, pp 95–107
    • (1993) Microbial Biofilms: Formation and Control , pp. 95-107
    • Gorman, S.P.1    Mawhinney, W.M.2    Adair, C.G.3
  • 100
    • 84860377600 scopus 로고    scopus 로고
    • A comparison of TO-PRO-1 iodide and 5- CFDA-AM staining methods for assessing viability of planktonic algae with epifluorescence microscopy
    • Gorokhova E, Mattsson L, Sundström AM (2012) A comparison of TO-PRO-1 iodide and 5- CFDA-AM staining methods for assessing viability of planktonic algae with epifluorescence microscopy. J Microbiol Methods 89:216–221
    • (2012) J Microbiol Methods , vol.89 , pp. 216-221
    • Gorokhova, E.1    Mattsson, L.2    Sundström, A.M.3
  • 101
    • 0033775691 scopus 로고    scopus 로고
    • Use of combined microautoradiography and fluorescence in situ hybridization to determine carbon metabolism in mixed natural communities of uncultured from the genus Achromatium
    • Gray ND, Howarth R, Pickup RW, Jones JG, Head IM (2000) Use of combined microautoradiography and fluorescence in situ hybridization to determine carbon metabolism in mixed natural communities of uncultured from the genus Achromatium. Appl Environ Microbiol 66:4518–4522
    • (2000) Appl Environ Microbiol , vol.66 , pp. 4518-4522
    • Gray, N.D.1    Howarth, R.2    Pickup, R.W.3    Jones, J.G.4    Head, I.M.5
  • 102
    • 0035490892 scopus 로고    scopus 로고
    • DenisM(2001) Resolution of vial and membrane-compromised bacteria in freshwater and marine waters based on analytical flow cytometry and nucleic acid double staining
    • Gregori G, Citterio S, Ghiani A, Labra M, Sgorbati S, Brown S, DenisM(2001) Resolution of vial and membrane-compromised bacteria in freshwater and marine waters based on analytical flow cytometry and nucleic acid double staining. Appl Environ Microbiol 67:4662–4670
    • Appl Environ Microbiol , vol.67 , pp. 4662-4670
    • Gregori, G.1    Citterio, S.2    Ghiani, A.3    Labra, M.4    Sgorbati, S.5    Brown, S.6
  • 104
    • 70349446753 scopus 로고    scopus 로고
    • Species-specific structural and functional diversity of bacterial communities in lichen symbiosis
    • Grube M, Cardinale M, de Castro JV Jr, Müller H, Berg G (2009) Species-specific structural and functional diversity of bacterial communities in lichen symbiosis. ISME J 3:1105–1115
    • (2009) ISME J , vol.3 , pp. 1105-1115
    • Grube, M.1    Cardinale, M.2    De Castro, J.V.3    Müller, H.4    Berg, G.5
  • 105
    • 76749084187 scopus 로고    scopus 로고
    • Microbial consortia of bacteria and fungi with focus on the lichen symbiosis
    • Grube M, Berg G (2009) Microbial consortia of bacteria and fungi with focus on the lichen symbiosis. Fungal Biol Rev 23:72–85
    • (2009) Fungal Biol Rev , vol.23 , pp. 72-85
    • Grube, M.1    Berg, G.2
  • 107
    • 0035289823 scopus 로고    scopus 로고
    • Spatial arrangements and associative behavior of species in an in vitro oral biofilm model
    • Guggenheim M, Shapiro S, Gmür R, Guggenheim B (2001) Spatial arrangements and associative behavior of species in an in vitro oral biofilm model. Appl Environ Microbiol 67:1343–1350
    • (2001) Appl Environ Microbiol , vol.67 , pp. 1343-1350
    • Guggenheim, M.1    Shapiro, S.2    Gmür, R.3    Guggenheim, B.4
  • 108
    • 0030661565 scopus 로고    scopus 로고
    • Use of nucleic acid dyes SYTO-13, TOTO-1, and YOYO-1 in the study of Escherichia coli and marine prokaryotic populations by flow cytometry
    • Guindulain T, Comas J, Vives-Rego J (1997) Use of nucleic acid dyes SYTO-13, TOTO-1, and YOYO-1 in the study of Escherichia coli and marine prokaryotic populations by flow cytometry. Appl Environ Microbiol 63:4608–4611
    • (1997) Appl Environ Microbiol , vol.63 , pp. 4608-4611
    • Guindulain, T.1    Comas, J.2    Vives-Rego, J.3
  • 110
    • 0036849918 scopus 로고    scopus 로고
    • In situ detection of horizontal transfer of mobile genetic elements
    • Haagensen JAJ, Hansen SK, Johansen T, Molin S (2002) In situ detection of horizontal transfer of mobile genetic elements. FEMS Microbiol Ecol 42:261–268
    • (2002) FEMS Microbiol Ecol , vol.42 , pp. 261-268
    • Haagensen, J.1    Hansen, S.K.2    Johansen, T.3    Molin, S.4
  • 111
    • 33845938063 scopus 로고    scopus 로고
    • Differentiation and distribution of colistin—and sodium dodecyl sulfate—tolerant cells in Pseudomonas aeruginosa biofilms
    • Haagensen JAJ, Klausen M, Ernst RK, Miller SI, Folkesson A, Tolker-Nielsen T, Molin S (2007) Differentiation and distribution of colistin—and sodium dodecyl sulfate—tolerant cells in Pseudomonas aeruginosa biofilms. J Bacteriol 189:28–37
    • (2007) J Bacteriol , vol.189 , pp. 28-37
    • Haagensen, J.1    Klausen, M.2    Ernst, R.K.3    Miller, S.I.4    Folkesson, A.5    Tolker-Nielsen, T.6    Molin, S.7
  • 112
    • 4143089332 scopus 로고    scopus 로고
    • Individual cell growth rates of marine bacteria, measured by bromodeoxyuridine incorporation
    • Hamasaki K, Long RA, Azam F (2004) Individual cell growth rates of marine bacteria, measured by bromodeoxyuridine incorporation. Aquat Microb Ecol 35:217–227
    • (2004) Aquat Microb Ecol , vol.35 , pp. 217-227
    • Hamasaki, K.1    Long, R.A.2    Azam, F.3
  • 113
    • 0030854009 scopus 로고    scopus 로고
    • Early colonization of barley roots by Pseudomons fluorescens studies by immunofluorescence technique and confocal laser scanning microscopy
    • Hansen M, Kragelund L, Nybroe O, Sörensen J (1997) Early colonization of barley roots by Pseudomons fluorescens studies by immunofluorescence technique and confocal laser scanning microscopy. FEMS Microbiol Ecol 23:353–360
    • (1997) FEMS Microbiol Ecol , vol.23 , pp. 353-360
    • Hansen, M.1    Kragelund, L.2    Nybroe, O.3    Sörensen, J.4
  • 114
    • 34347379742 scopus 로고    scopus 로고
    • Characterization of a Pseudomonas putida rough varient evolved in a mixed-species biofilm with Acinetobacter sp. Strain C6
    • Hansen SK, Haagensen JAJ, Gjermansen M, Jorgensen TM, Tolker-Nielsen T, Molin S (2007) Characterization of a Pseudomonas putida rough varient evolved in a mixed-species biofilm with Acinetobacter sp. strain C6. J Bacteriol 189:4932–4943
    • (2007) J Bacteriol , vol.189 , pp. 4932-4943
    • Hansen, S.K.1    Haagensen, J.2    Gjermansen, M.3    Jorgensen, T.M.4    Tolker-Nielsen, T.5    Molin, S.6
  • 115
    • 33845928921 scopus 로고    scopus 로고
    • The use of microscopy and three-dimensional visualisation to evaluate the structure of microbial biofilms cultivated in the Calgary biofilm device
    • Harrison JJ, Ceri H, Yerly J, Stremick CA, Hu Y, Martinuzzi RJ, Turner RJ (2006) The use of microscopy and three-dimensional visualisation to evaluate the structure of microbial biofilms cultivated in the Calgary biofilm device. Biol Proced 8:194–215
    • (2006) Biol Proced , vol.8 , pp. 194-215
    • Harrison, J.J.1    Ceri, H.2    Yerly, J.3    Stremick, C.A.4    Hu, Y.5    Martinuzzi, R.J.6    Turner, R.J.7
  • 116
    • 0032766408 scopus 로고    scopus 로고
    • High rates of conjugation in bacterial biofilms as determined by quantitative in situ analysis
    • Hausner M, Wuertz S (1999) High rates of conjugation in bacterial biofilms as determined by quantitative in situ analysis. Appl Environ Microbiol 65:-3710
    • (1999) Appl Environ Microbiol , vol.65
    • Hausner, M.1    Wuertz, S.2
  • 117
    • 0024231279 scopus 로고
    • Enumeration and identification of bacteria from environmental samples using nucleic acid probes
    • Hazen TC, Jiménez L (1988) Enumeration and identification of bacteria from environmental samples using nucleic acid probes. Microbiol Sci 5:340–343
    • (1988) Microbiol Sci , vol.5 , pp. 340-343
    • Hazen, T.C.1    Jiménez, L.2
  • 118
    • 84155172916 scopus 로고    scopus 로고
    • Influence of cell surface structures on crenarchaeal biofilm formation using a thermostable green fluorescent protein
    • Henche AL, Koerdt A, Ghosh A, Albers SV (2012) Influence of cell surface structures on crenarchaeal biofilm formation using a thermostable green fluorescent protein. Environ Microbiol 14:779–793
    • (2012) Environ Microbiol , vol.14 , pp. 779-793
    • Henche, A.L.1    Koerdt, A.2    Ghosh, A.3    Albers, S.V.4
  • 119
    • 0031194933 scopus 로고    scopus 로고
    • The role of sorption in the transport of Klebsiella oxytoca through saturated silica sand
    • Hendry MJ, Lawrence JR, Maloszewski P (1997) The role of sorption in the transport of Klebsiella oxytoca through saturated silica sand. Ground Water 35:574–583
    • (1997) Ground Water , vol.35 , pp. 574-583
    • Hendry, M.J.1    Lawrence, J.R.2    Maloszewski, P.3
  • 120
    • 5344227637 scopus 로고    scopus 로고
    • Adaptation of FUN-1 and Calcofluor white stains to assess the ability of viable and non-viable yeast to adhere to and be internalized by cultured mammalian cells
    • Henry-Stanley MJ, Garni RM, Wells CL (2004) Adaptation of FUN-1 and Calcofluor white stains to assess the ability of viable and non-viable yeast to adhere to and be internalized by cultured mammalian cells. J Microbiol Methods 59:289–292
    • (2004) J Microbiol Methods , vol.59 , pp. 289-292
    • Henry-Stanley, M.J.1    Garni, R.M.2    Wells, C.L.3
  • 122
    • 0036208369 scopus 로고    scopus 로고
    • Statistical analysis of Pseudomonas aeruginosa biofilm development: Impact of mutations in genes involved in twitching motility, cell-to-cell signaling, and stationaryphase sigma factor expression
    • Heydorn A, Ersboll B, Kato J, Hentzer M, Parsek MR, Tolker-Nielsen T, Givskov M, Molin S (2002) Statistical analysis of Pseudomonas aeruginosa biofilm development: impact of mutations in genes involved in twitching motility, cell-to-cell signaling, and stationaryphase sigma factor expression. Appl Environ Microbiol 68:2008–2017
    • (2002) Appl Environ Microbiol , vol.68 , pp. 2008-2017
    • Heydorn, A.1    Ersboll, B.2    Kato, J.3    Hentzer, M.4    Parsek, M.R.5    Tolker-Nielsen, T.6    Givskov, M.7    Molin, S.8
  • 124
    • 36148999443 scopus 로고    scopus 로고
    • Live-cell imaging of filamentous fungi using vital fluorescent dyes and confocal microscopy
    • Hickey PC, Swift SR, Roca MG, Read ND (2004) Live-cell imaging of filamentous fungi using vital fluorescent dyes and confocal microscopy. Methods Microbiol 34:63–87
    • (2004) Methods Microbiol , vol.34 , pp. 63-87
    • Hickey, P.C.1    Swift, S.R.2    Roca, M.G.3    Read, N.D.4
  • 125
    • 0037346720 scopus 로고    scopus 로고
    • A comparative study of carboxyfluorescein diacetate and carboxyfluorescein diacetate succinimidyl ester as indicators of bacterial activity
    • Hoefel D, Grooby WL, Monis PT, Andrews S, Saint CP (2003) A comparative study of carboxyfluorescein diacetate and carboxyfluorescein diacetate succinimidyl ester as indicators of bacterial activity. J Microbiol Methods 52:379–388
    • (2003) J Microbiol Methods , vol.52 , pp. 379-388
    • Hoefel, D.1    Grooby, W.L.2    Monis, P.T.3    Rews, S.4    Saint, C.P.5
  • 126
    • 0036245081 scopus 로고    scopus 로고
    • Assessing the role of Pseudomonas aeruginosa surface-active gene expression in hexadecane biodegradation in sand
    • Holden PA, LaMontagne MG, Bruce AK, Miller WG, Lindow SE (2002) Assessing the role of Pseudomonas aeruginosa surface-active gene expression in hexadecane biodegradation in sand. Appl Environ Microbiol 68:2509–2518
    • (2002) Appl Environ Microbiol , vol.68 , pp. 2509-2518
    • Holden, P.A.1    Lamontagne, M.G.2    Bruce, A.K.3    Miller, W.G.4    Lindow, S.E.5
  • 127
    • 0031395978 scopus 로고    scopus 로고
    • Development of a scanning confocal laser microscopic technique to examine the structure and composition of marine snow
    • Holloway CF, Cowen JP (1997) Development of a scanning confocal laser microscopic technique to examine the structure and composition of marine snow. Limnol Oceanogr 42:1340–1352
    • (1997) Limnol Oceanogr , vol.42 , pp. 1340-1352
    • Holloway, C.F.1    Cowen, J.P.2
  • 128
    • 0038121638 scopus 로고    scopus 로고
    • Measuring the thickness of an outer layer of viable bacteria in an oral biofilm by viability mapping
    • Hope CK, Wilson M (2003) Measuring the thickness of an outer layer of viable bacteria in an oral biofilm by viability mapping. J Microbiol Methods 54:403–410
    • (2003) J Microbiol Methods , vol.54 , pp. 403-410
    • Hope, C.K.1    Wilson, M.2
  • 129
    • 78449246396 scopus 로고    scopus 로고
    • The use of laser scanning confocal microscopy (LSCM) in materials science
    • Hovis DB, Heuer AH (2010) The use of laser scanning confocal microscopy (LSCM) in materials science. J Microsc 240:173–180
    • (2010) J Microsc , vol.240 , pp. 173-180
    • Hovis, D.B.1    Heuer, A.H.2
  • 130
    • 22144444950 scopus 로고    scopus 로고
    • Determination of spatial distribution of zinc and active biomass in microbial biofilms by two-photon laser scanning microscopy
    • Hu Z, Hidalgo G, Houston PL, Hay AG, Shuler ML, Abruna HD, Ghiorse WC, Lion LW (2005) Determination of spatial distribution of zinc and active biomass in microbial biofilms by two-photon laser scanning microscopy. Appl Environ Microbiol 71:4014–4021
    • (2005) Appl Environ Microbiol , vol.71 , pp. 4014-4021
    • Hu, Z.1    Hidalgo, G.2    Houston, P.L.3    Hay, A.G.4    Shuler, M.L.5    Abruna, H.D.6    Ghiorse, W.C.7    Lion, L.W.8
  • 131
    • 41049083881 scopus 로고    scopus 로고
    • Confocal laser scanning microscopy as an analytical tool in chromatographic research
    • Hubbuch J, Kula M-R (2008) Confocal laser scanning microscopy as an analytical tool in chromatographic research. Bioprocess Biosyst Eng 31:241–259
    • (2008) Bioprocess Biosyst Eng , vol.31 , pp. 241-259
    • Hubbuch, J.1    Kula, M.-R.2
  • 132
    • 0029970177 scopus 로고    scopus 로고
    • Identifying microbial diversity in the natural environment: A molecular phylogenetic approach
    • Hugenholtz P, Pace NR (1996) Identifying microbial diversity in the natural environment: a molecular phylogenetic approach. Trends Biotechnol 14:190–197
    • (1996) Trends Biotechnol , vol.14 , pp. 190-197
    • Hugenholtz, P.1    Pace, N.R.2
  • 133
    • 0031468614 scopus 로고    scopus 로고
    • SYTO 16 labelling and flow cytometry of Mycobacterium avium
    • Ibrahim P, Whiteley AS, Barer MR (1997) SYTO 16 labelling and flow cytometry of Mycobacterium avium. Lett Appl Microbiol 25:437–441
    • (1997) Lett Appl Microbiol , vol.25 , pp. 437-441
    • Ibrahim, P.1    Whiteley, A.S.2    Barer, M.R.3
  • 134
    • 0036136673 scopus 로고    scopus 로고
    • Phylogenetic identification and substrate uptake patterns of sulfate-reducing bacteria inhabiting an oxic-anoxic sewer biofilm fluorescent in situ hybridization
    • Ito T, Nielsen JL, Okabe S, Watanabe Y, Nielsen PH (2002) Phylogenetic identification and substrate uptake patterns of sulfate-reducing bacteria inhabiting an oxic-anoxic sewer biofilm fluorescent in situ hybridization. Appl Environ Microbiol 68:356–364
    • (2002) Appl Environ Microbiol , vol.68 , pp. 356-364
    • Ito, T.1    Nielsen, J.L.2    Okabe, S.3    Watanabe, Y.4    Nielsen, P.H.5
  • 135
    • 2442696848 scopus 로고    scopus 로고
    • Isolation, characterization, and in situ detection of a novel chemolithoautotrophic sulfur-oxidizing bacterium in wastewater biofilms growing under microaerophilic conditions
    • Ito T, Sugita K, Okabe S (2004) Isolation, characterization, and in situ detection of a novel chemolithoautotrophic sulfur-oxidizing bacterium in wastewater biofilms growing under microaerophilic conditions. Appl Environ Microbiol 70:3122–3129
    • (2004) Appl Environ Microbiol , vol.70 , pp. 3122-3129
    • Ito, T.1    Sugita, K.2    Okabe, S.3
  • 136
    • 0031055447 scopus 로고    scopus 로고
    • Viability staining and flow cytometric detection of Listeria monocytogenes
    • Jacobsen CN, Rasmussen J, Jakobsen M (1997) Viability staining and flow cytometric detection of Listeria monocytogenes. J Microbiol Methods 28:35–43
    • (1997) J Microbiol Methods , vol.28 , pp. 35-43
    • Jacobsen, C.N.1    Rasmussen, J.2    Jakobsen, M.3
  • 137
    • 0038265115 scopus 로고    scopus 로고
    • Marker and reporter genes: Illuminating tools for environmental microbiologists
    • Jansson JK (2003) Marker and reporter genes: illuminating tools for environmental microbiologists. Curr Opin Microbiol 6:310–316
    • (2003) Curr Opin Microbiol , vol.6 , pp. 310-316
    • Jansson, J.K.1
  • 139
  • 140
    • 0033902785 scopus 로고    scopus 로고
    • Evaluation of fluorescently labeled lectins for noninvasive localization of extracellular polymeric substances in Sphingomonas biofilms
    • Johnsen AR, Hausner M, Schnell A, Wuertz S (2000) Evaluation of fluorescently labeled lectins for noninvasive localization of extracellular polymeric substances in Sphingomonas biofilms. Appl Environ Microbiol 66:3487–3491
    • (2000) Appl Environ Microbiol , vol.66 , pp. 3487-3491
    • Johnsen, A.R.1    Hausner, M.2    Schnell, A.3    Wuertz, S.4
  • 142
    • 77249167281 scopus 로고    scopus 로고
    • Influence of internal biofilm growth on residual permeability loss in aerobic granular membrane reactors
    • Juang Y-C, Adav SS, Lee D-J, Lai J-Y (2010) Influence of internal biofilm growth on residual permeability loss in aerobic granular membrane reactors. Environ Sci Technol 44:1267–1273
    • (2010) Environ Sci Technol , vol.44 , pp. 1267-1273
    • Juang, Y.-C.1    Adav, S.S.2    Lee, D.-J.3    Lai, J.-Y.4
  • 143
    • 34248375138 scopus 로고    scopus 로고
    • Biofilms formed by nontypeable Haemophilus influenzae in vivo contain both double-stranded DNA and type IV pilin protein
    • Jurcisek JA, Bakaletz LO (2007) Biofilms formed by nontypeable Haemophilus influenzae in vivo contain both double-stranded DNA and type IV pilin protein. J Bacteriol 189:3868–3875
    • (2007) J Bacteriol , vol.189 , pp. 3868-3875
    • Jurcisek, J.A.1    Bakaletz, L.O.2
  • 144
    • 0034663137 scopus 로고    scopus 로고
    • Characterization of contaminated soils using confocal laser scanning microscopy and cryogenic-scanning electron microscopy
    • Karimi-Lotfabad S, Gray MR (2000) Characterization of contaminated soils using confocal laser scanning microscopy and cryogenic-scanning electron microscopy. Environ Sci Technol 34:3408–3414
    • (2000) Environ Sci Technol , vol.34 , pp. 3408-3414
    • Karimi-Lotfabad, S.1    Gray, M.R.2
  • 145
    • 0037401010 scopus 로고    scopus 로고
    • Molecular methods for the assessment of bacterial viability
    • Keer JT, Birch L (2003) Molecular methods for the assessment of bacterial viability. J Microbiol Methods 53:175–183
    • (2003) J Microbiol Methods , vol.53 , pp. 175-183
    • Keer, J.T.1    Birch, L.2
  • 146
  • 147
    • 76749086117 scopus 로고    scopus 로고
    • Biofilm morphology as related to the porous media clogging
    • Kim J-W, Choi H, Pachepsky YA (2010) Biofilm morphology as related to the porous media clogging. Water Res 44:1193–1201
    • (2010) Water Res , vol.44 , pp. 1193-1201
    • Kim, J.-W.1    Choi, H.2    Pachepsky, Y.A.3
  • 149
    • 33846704237 scopus 로고    scopus 로고
    • Evolution of species interactions in a biofilm community
    • Kirkelund Hansen S, Rainey P, Haagensen JAJ, Molin S (2007) Evolution of species interactions in a biofilm community. Nature 445:533–536
    • (2007) Nature , vol.445 , pp. 533-536
    • Kirkelund Hansen, S.1    Rainey, P.2    Haagensen, J.3    Molin, S.4
  • 150
    • 0141818949 scopus 로고    scopus 로고
    • Involvement of bacterial migration in the development of complex multicellular structures in Pseudomonas aeruginosa biofilms
    • Klausen M, Aaes-Jörgensen A, Molin S, Tolker-Nielsen T (2003) Involvement of bacterial migration in the development of complex multicellular structures in Pseudomonas aeruginosa biofilms. Mol Microbiol 50:61–68
    • (2003) Mol Microbiol , vol.50 , pp. 61-68
    • Klausen, M.1    Aaes-Jörgensen, A.2    Molin, S.3    Tolker-Nielsen, T.4
  • 151
    • 0032737630 scopus 로고    scopus 로고
    • Localization and identification of populations of phosphatase—active bacterial cells associated with activated sludge flocs
    • Van Ommen Kloecke F, Geesey GG (1999) Localization and identification of populations of phosphatase—active bacterial cells associated with activated sludge flocs. Microbial Ecol 38:201–214
    • (1999) Microbial Ecol , vol.38 , pp. 201-214
    • Van Ommen Kloecke, F.1    Geesey, G.G.2
  • 153
    • 0030858018 scopus 로고    scopus 로고
    • Substratum topography influences susceptibility of Salmonella enteritidis biofilms to trisodium phosphate
    • Korber DR, Choi A, Wolfaardt GM, Ingham SC, Caldwell DE (1997) Substratum topography influences susceptibility of Salmonella enteritidis biofilms to trisodium phosphate. Appl Environ Microbiol 63:3352–3358
    • (1997) Appl Environ Microbiol , vol.63 , pp. 3352-3358
    • Korber, D.R.1    Choi, A.2    Wolfaardt, G.M.3    Ingham, S.C.4    Caldwell, D.E.5
  • 154
    • 0035024924 scopus 로고    scopus 로고
    • Time-resolved study of biofilm architecture and transport processes using experimental and simulation techniques: The role of EPS
    • Kuehn M, Mehl M, Hausner M, Bungartz H-J, Wuertz S (2001) Time-resolved study of biofilm architecture and transport processes using experimental and simulation techniques: the role of EPS. Water Sci Technol 43:143–151
    • (2001) Water Sci Technol , vol.43 , pp. 143-151
    • Kuehn, M.1    Mehl, M.2    Hausner, M.3    Bungartz, H.-J.4    Wuertz, S.5
  • 156
    • 0032713282 scopus 로고    scopus 로고
    • Protein diffusion in alginate beads monitored by confocal microscopy. The application of wavelets for data reconstruction and analysis
    • Laca A, Garcia LA, Argüeso F, Diaz M (1999) Protein diffusion in alginate beads monitored by confocal microscopy. The application of wavelets for data reconstruction and analysis. J Ind Microbiol Biotechnol 23:155–165
    • (1999) J Ind Microbiol Biotechnol , vol.23 , pp. 155-165
    • Laca, A.1    Garcia, L.A.2    Argüeso, F.3    Diaz, M.4
  • 157
    • 0036322699 scopus 로고    scopus 로고
    • Microstructure of anaerobic granules bioaugmented with Desulfitobacterium frappieri PCP-1
    • Lanthier M, Tartakovsky B, Villemur R, DeLuca G, Guiot SR (2002) Microstructure of anaerobic granules bioaugmented with Desulfitobacterium frappieri PCP-1. Appl Environ Microbiol 68:4035–4043
    • (2002) Appl Environ Microbiol , vol.68 , pp. 4035-4043
    • Lanthier, M.1    Tartakovsky, B.2    Villemur, R.3    Deluca, G.4    Guiot, S.R.5
  • 159
    • 27144452560 scopus 로고    scopus 로고
    • Applications of autofluorescent proteins for in situ studies in microbial ecology
    • Larrainzar E, O’Gara F, Morrissey JP (2005) Applications of autofluorescent proteins for in situ studies in microbial ecology. Annu Rev Microbiol 59:257–277
    • (2005) Annu Rev Microbiol , vol.59 , pp. 257-277
    • Larrainzar, E.1    O’Gara, F.2    Morrissey, J.P.3
  • 162
    • 3242781033 scopus 로고    scopus 로고
    • Microscale and molecular assessment of the impacts of nickel, nutrients, and oxygen level on the structure and function of river biofilm communities
    • Lawrence JR, Chenier MR, Roy R, Beaumier D, Swerhone GDW, Neu TR, Greer CW (2004) Microscale and molecular assessment of the impacts of nickel, nutrients, and oxygen level on the structure and function of river biofilm communities. Appl Environ Microbiol 70:4326–4339
    • (2004) Appl Environ Microbiol , vol.70 , pp. 4326-4339
    • Lawrence, J.R.1    Chenier, M.R.2    Roy, R.3    Beaumier, D.4    Swerhone, G.5    Neu, T.R.6    Greer, C.W.7
  • 163
    • 0029667957 scopus 로고    scopus 로고
    • Transport of bacteria through geologic media
    • Lawrence JR, Hendry MJ (1996) Transport of bacteria through geologic media. Can J Microbiol 42:410–422
    • (1996) Can J Microbiol , vol.42 , pp. 410-422
    • Lawrence, J.R.1    Hendry, M.J.2
  • 164
    • 0034891322 scopus 로고    scopus 로고
    • Sorption and metabolism of selected herbicides in river biofilm communities
    • Lawrence JR, Kopf G, Headley JV, Neu TR (2001) Sorption and metabolism of selected herbicides in river biofilm communities. Can J Microbiol 47:634–641
    • (2001) Can J Microbiol , vol.47 , pp. 634-641
    • Lawrence, J.R.1    Kopf, G.2    Headley, J.V.3    Neu, T.R.4
  • 165
    • 35148837794 scopus 로고    scopus 로고
    • Analytical imaging and microscopy techniques
    • Hurst CJ, Crawford RL, Garland JL, Lipson DA, Mills AL, Stetzenbach LD (eds), ASM Press, Washington D.C.
    • Lawrence JR, Korber D, Neu TR (2007) Analytical imaging and microscopy techniques. In: Hurst CJ, Crawford RL, Garland JL, Lipson DA, Mills AL, Stetzenbach LD (eds) Manual of environmental microbiology. ASM Press, Washington D.C., pp 40–68
    • (2007) Manual of Environmental Microbiology , pp. 40-68
    • Lawrence, J.R.1    Korber, D.2    Neu, T.R.3
  • 167
    • 0002819515 scopus 로고    scopus 로고
    • Analytical imaging and microscopy techniques
    • Hurst CJ, Knudsen GR, McInerney MJ, Stetzenbach LD, Walter MV (eds), ASM, Washington
    • Lawrence JR, Korber DR, Wolfaardt GM, Caldwell DE (1996) Analytical imaging and microscopy techniques. In: Hurst CJ, Knudsen GR, McInerney MJ, Stetzenbach LD, Walter MV (eds) Manual of environmental microbiology. ASM, Washington, pp 29–51
    • (1996) Manual of Environmental Microbiology , pp. 29-51
    • Lawrence, J.R.1    Korber, D.R.2    Wolfaardt, G.M.3    Caldwell, D.E.4
  • 168
    • 0012455723 scopus 로고    scopus 로고
    • Analytical imaging and microscopy techniques
    • Hurst CJ, Crawford RL, Knudsen GR, McInerney MJ, Stetzenbach LD (eds), ASM, Washington
    • Lawrence JR, Korber DR, Wolfaardt GM, Caldwell DE, Neu TR (2002) Analytical imaging and microscopy techniques. In: Hurst CJ, Crawford RL, Knudsen GR, McInerney MJ, Stetzenbach LD (eds) Manual of environmental microbiology. ASM, Washington, pp 39–61
    • (2002) Manual of Environmental Microbiology , pp. 39-61
    • Lawrence, J.R.1    Korber, D.R.2    Wolfaardt, G.M.3    Caldwell, D.E.4    Neu, T.R.5
  • 169
    • 0030619417 scopus 로고    scopus 로고
    • Colonization and weathering of natural sulfide mineral assemblages by Thiobacillus ferrooxidans
    • Lawrence JR, Kwong YTJ, Swerhone GDW (1997) Colonization and weathering of natural sulfide mineral assemblages by Thiobacillus ferrooxidans. Can J Microbiol 43:178–188
    • (1997) Can J Microbiol , vol.43 , pp. 178-188
    • Lawrence, J.R.1    Kwong, Y.2    Swerhone, G.3
  • 170
    • 0032698928 scopus 로고    scopus 로고
    • Confocal laser scanning microscopy for analysis of microbial biofilms
    • Lawrence JR, Neu TR (1999) Confocal laser scanning microscopy for analysis of microbial biofilms. Methods Enzymol 310:131–144
    • (1999) Methods Enzymol , vol.310 , pp. 131-144
    • Lawrence, J.R.1    Neu, T.R.2
  • 171
    • 34247388191 scopus 로고    scopus 로고
    • Microscale analyses of the formation and nature of microbial biofilm communities in river systems
    • Lawrence JR, Neu TR (2003) Microscale analyses of the formation and nature of microbial biofilm communities in river systems. Rev Environ Sci Bio/Technol 2:85–97
    • (2003) Rev Environ Sci Bio/Technol , vol.2 , pp. 85-97
    • Lawrence, J.R.1    Neu, T.R.2
  • 172
    • 55949099939 scopus 로고    scopus 로고
    • Laser scanning microscopy
    • Reddy CA, Beveridge TJ, Breznak JA, Marzluf GA, Schmidt TM, Snyder LR (eds), ASM, Washington DC
    • Lawrence JR, Neu TR (2007) Laser scanning microscopy. In: Reddy CA, Beveridge TJ, Breznak JA, Marzluf GA, Schmidt TM, Snyder LR (eds) Methods for general and molecular microbiology. ASM, Washington DC, pp 34–53
    • (2007) Methods for General and Molecular Microbiology , pp. 34-53
    • Lawrence, J.R.1    Neu, T.R.2
  • 173
    • 80455170683 scopus 로고    scopus 로고
    • Laser scanning microscopy for microbial flocs and particles
    • In: Wilkinson KJ, Lead JR, Wiley, Chichester
    • Lawrence JR, Neu TR (2007) Laser scanning microscopy for microbial flocs and particles. In: Wilkinson KJ, Lead JR (eds) Environmental colloids: behavior, structure and characterisation. Wiley, Chichester, pp 469–505
    • (2007) Environmental Colloids: Behavior, Structure and Characterisation , pp. 469-505
    • Lawrence, J.R.1    Neu, T.R.2
  • 174
    • 0032076978 scopus 로고    scopus 로고
    • Application of multiple parameter imaging for the quantification of algal, bacterial and exopolymer components of microbial biofilms
    • Lawrence JR, Neu TR, Swerhone GDW (1998) Application of multiple parameter imaging for the quantification of algal, bacterial and exopolymer components of microbial biofilms. J Microbiol Methods 32:253–261
    • (1998) J Microbiol Methods , vol.32 , pp. 253-261
    • Lawrence, J.R.1    Neu, T.R.2    Swerhone, G.3
  • 175
    • 0036782811 scopus 로고    scopus 로고
    • Microscale evaluation of the effects of grazing by invertebrates with contrasting feeding modes on river biofilm architecture and composition
    • Lawrence JR, Scharf B, Packroff G, Neu TR (2002) Microscale evaluation of the effects of grazing by invertebrates with contrasting feeding modes on river biofilm architecture and composition. Microb Ecol 43:199–207
    • (2002) Microb Ecol , vol.43 , pp. 199-207
    • Lawrence, J.R.1    Scharf, B.2    Packroff, G.3    Neu, T.R.4
  • 176
    • 85047679457 scopus 로고    scopus 로고
    • Natural attenuation of aqueous metal contamination by an algal mat
    • Lawrence JR, Swerhone GDW, Kwong YTJ (1998) Natural attenuation of aqueous metal contamination by an algal mat. Can J Microbiol 44:825–832
    • (1998) Can J Microbiol , vol.44 , pp. 825-832
    • Lawrence, J.R.1    Swerhone, G.2    Kwong, Y.3
  • 177
    • 0033820759 scopus 로고    scopus 로고
    • A simple rotating annular reactor for replicated biofilm studies
    • Lawrence JR, Swerhone GDW, Neu TR (2000) A simple rotating annular reactor for replicated biofilm studies. J Microbiol Methods 42:215–224
    • (2000) J Microbiol Methods , vol.42 , pp. 215-224
    • Lawrence, J.R.1    Swerhone, G.2    Neu, T.R.3
  • 178
    • 34247528873 scopus 로고    scopus 로고
    • Structural and functional responses of river biofilms communities to the non-steroidal anti-inflammatory diclofenac
    • Lawrence JR, Swerhone GDW, Topp E, Korber D, Neu TR, Wassenaar LI (2007) Structural and functional responses of river biofilms communities to the non-steroidal anti-inflammatory diclofenac. Environ Toxicol Chem 26:573–582
    • (2007) Environ Toxicol Chem , vol.26 , pp. 573-582
    • Lawrence, J.R.1    Swerhone, G.2    Topp, E.3    Korber, D.4    Neu, T.R.5    Wassenaar, L.I.6
  • 179
    • 29144471983 scopus 로고    scopus 로고
    • Effects of selected pharmaceuticals on riverine biofilm communities
    • Lawrence JR, Swerhone GDW, Wasenaar LI, Neu TR (2005) Effects of selected pharmaceuticals on riverine biofilm communities. Can J Microbiol 51:655–669
    • (2005) Can J Microbiol , vol.51 , pp. 655-669
    • Lawrence, J.R.1    Swerhone, G.2    Wasenaar, L.I.3    Neu, T.R.4
  • 180
    • 0002483135 scopus 로고    scopus 로고
    • The study of microbial biofilms by confocal laser scanning microscopy
    • Wilkinson MHF, Shut F (eds), Wiley, Chichester
    • Lawrence JR, Wolfaardt G, Neu TR (1998) The study of microbial biofilms by confocal laser scanning microscopy. In: Wilkinson MHF, Shut F (eds) Digital image analysis of microbes. Wiley, Chichester, pp 431–465
    • (1998) Digital Image Analysis of Microbes , pp. 431-465
    • Lawrence, J.R.1    Wolfaardt, G.2    Neu, T.R.3
  • 181
    • 44949161252 scopus 로고    scopus 로고
    • Community-level assessment of the effects of the broad-spectrum antimicrobial chlorhexidine on the outcome of river microbial biofilm development
    • Lawrence JR, Zhu B, Swerhone GDW, Topp E, Roy J, Wasenaar LI, Rema T, Korber DR (2008) Community-level assessment of the effects of the broad-spectrum antimicrobial chlorhexidine on the outcome of river microbial biofilm development. Appl Environ Microbiol 74:3541–3550
    • (2008) Appl Environ Microbiol , vol.74 , pp. 3541-3550
    • Lawrence, J.R.1    Zhu, B.2    Swerhone, G.3    Topp, E.4    Roy, J.5    Wasenaar, L.I.6    Rema, T.7    Korber, D.R.8
  • 182
    • 33750319228 scopus 로고    scopus 로고
    • A novel fluorescence imaging technique combining deconvolution mircoscopy and spectral analysis for quantitative detection of opportunistic pathogens
    • Le Puil M, Biggerstaff JP, Weidow BL, Price JR, Naser SA, White DC, Alberte RS (2006) A novel fluorescence imaging technique combining deconvolution mircoscopy and spectral analysis for quantitative detection of opportunistic pathogens. J Microbiol Methods 67:597–602
    • (2006) J Microbiol Methods , vol.67 , pp. 597-602
    • Le Puil, M.1    Biggerstaff, J.P.2    Weidow, B.L.3    Price, J.R.4    Naser, S.A.5    White, D.C.6    Alberte, R.S.7
  • 183
    • 0031813853 scopus 로고    scopus 로고
    • Effectiveness of SYTOX green stain for bacterial viability assessment
    • Lebaron P, Catala P, Parthuisot N (1998) Effectiveness of SYTOX green stain for bacterial viability assessment. Appl Environ Microbiol 64:2697–2700
    • (1998) Appl Environ Microbiol , vol.64 , pp. 2697-2700
    • Lebaron, P.1    Catala, P.2    Parthuisot, N.3
  • 184
    • 0031596935 scopus 로고    scopus 로고
    • Comparison of blue nucleic acid dyes for flow cytometric enumeration of bacteria in aquatic systems
    • Lebaron P, Parthuisot N, Catala P (1998) Comparison of blue nucleic acid dyes for flow cytometric enumeration of bacteria in aquatic systems. Appl Environ Microbiol 64:1725–1730
    • (1998) Appl Environ Microbiol , vol.64 , pp. 1725-1730
    • Lebaron, P.1    Parthuisot, N.2    Catala, P.3
  • 185
    • 0032986790 scopus 로고    scopus 로고
    • Combination of fluorescent in situ hybridisation and microautoradiography—a new tool for structure-function analyses in microbial ecology
    • Lee N, Nielsen PH, Andreasen KH, Juretschko S, Nielsen JL, Schleifer K, Wagner M (1999) Combination of fluorescent in situ hybridisation and microautoradiography—a new tool for structure-function analyses in microbial ecology. Appl Environ Microbiol 65:1289–1297
    • (1999) Appl Environ Microbiol , vol.65 , pp. 1289-1297
    • Lee, N.1    Nielsen, P.H.2    Reasen, K.H.3    Juretschko, S.4    Nielsen, J.L.5    Schleifer, K.6    Wagner, M.7
  • 186
    • 8744240479 scopus 로고    scopus 로고
    • Evaluation of the LIVE/DEAD BacLight kit for detection of Extremophilic archaea and visualisation of microorganisms in environmental hypersaline samples
    • Leuko S, Legat A, Fendrihan S, Stan-Lotter H (2004) Evaluation of the LIVE/DEAD BacLight kit for detection of Extremophilic archaea and visualisation of microorganisms in environmental hypersaline samples. Appl Environ Microbiol 70:6884–6886
    • (2004) Appl Environ Microbiol , vol.70 , pp. 6884-6886
    • Leuko, S.1    Legat, A.2    Fendrihan, S.3    Stan-Lotter, H.4
  • 187
    • 0032868345 scopus 로고    scopus 로고
    • GFP-aided confocal laser scanning microscopy can monitor Agrobacterium tumefacians cell morphology and gene expression associated with infection
    • Li L, Li Y, Lim TM, Pan SQ (1999) GFP-aided confocal laser scanning microscopy can monitor Agrobacterium tumefacians cell morphology and gene expression associated with infection. FEMS Microbiol Lett 179:141–146
    • (1999) FEMS Microbiol Lett , vol.179 , pp. 141-146
    • Li, L.1    Li, Y.2    Lim, T.M.3    Pan, S.Q.4
  • 188
    • 0030833688 scopus 로고    scopus 로고
    • Quantitative fluorescence in situ hybridization of Aureobasidium pullulans on microscope slides and leaf surfaces
    • Li S, Spear N, Andrews JH (1997) Quantitative fluorescence in situ hybridization of Aureobasidium pullulans on microscope slides and leaf surfaces. Appl Environ Microbiol 63:3261–3267
    • (1997) Appl Environ Microbiol , vol.63 , pp. 3261-3267
    • Li, S.1    Spear, N.2    Rews, J.H.3
  • 189
    • 0028995826 scopus 로고
    • DNA distributions in planktonic bacteria stained with TOTO or TO-PRO
    • Li WKW, Jellett JF, Dickie PM (1995) DNA distributions in planktonic bacteria stained with TOTO or TO-PRO. Limnol Oceanogr 40:1485–1495
    • (1995) Limnol Oceanogr , vol.40 , pp. 1485-1495
    • Li, W.1    Jellett, J.F.2    Dickie, P.M.3
  • 190
    • 2142794629 scopus 로고    scopus 로고
    • Fluorescence microscopy for visualisation of soil microorganisms—a review
    • Li Y, Dick WA, Tuovinen OH (2004) Fluorescence microscopy for visualisation of soil microorganisms—a review. Biol Fertil Soils 39:301–311
    • (2004) Biol Fertil Soils , vol.39 , pp. 301-311
    • Li, Y.1    Dick, W.A.2    Tuovinen, O.H.3
  • 191
    • 0033590259 scopus 로고    scopus 로고
    • Visualizing two-component protein diffusion in porous adsorbents by confocal scanning laser microscopy
    • Linden T, Ljunglöf A, Kula M-R, Thömmes J (1999) Visualizing two-component protein diffusion in porous adsorbents by confocal scanning laser microscopy. Biotechnol Bioeng 65:622–630
    • (1999) Biotechnol Bioeng , vol.65 , pp. 622-630
    • Linden, T.1    Ljunglöf, A.2    Kula, M.-R.3    Thömmes, J.4
  • 193
    • 0028838839 scopus 로고
    • Vigour, vitality and viability of microorganisms
    • Lloyd D, Hayes AJ (1995) Vigour, vitality and viability of microorganisms. FEMS Microbiol Lett 133:1–7
    • (1995) FEMS Microbiol Lett , vol.133 , pp. 1-7
    • Lloyd, D.1    Hayes, A.J.2
  • 194
    • 0031909554 scopus 로고    scopus 로고
    • Micro-ecology of peat: Minimally invasive analysis using confocal laser scanning microscopy, membrane inlet mass spectrometry and PCR amplification of methanogen-specific gene sequences
    • Lloyd D, Thomas KL, Hayes A, Hill B, Hales BA, Edwards C, Saunders JR, Ritchie DA, Upton M (1998) Micro-ecology of peat: minimally invasive analysis using confocal laser scanning microscopy, membrane inlet mass spectrometry and PCR amplification of methanogen-specific gene sequences. FEMS Microbiol Ecol 25:179–188
    • (1998) FEMS Microbiol Ecol , vol.25 , pp. 179-188
    • Lloyd, D.1    Thomas, K.L.2    Hayes, A.3    Hill, B.4    Hales, B.A.5    Edwards, C.6    Saunders, J.R.7    Ritchie, D.A.8    Upton, M.9
  • 195
    • 14644436333 scopus 로고    scopus 로고
    • Simultaneous force and fluorescence measurements of a protein that forms a bond between a living bacterium and a solid surface
    • Lower BH, Yongsunthon R, Vellano FP III, Lower SK (2005) Simultaneous force and fluorescence measurements of a protein that forms a bond between a living bacterium and a solid surface. J Bacteriol 187:2127–2137
    • (2005) J Bacteriol , vol.187 , pp. 2127-2137
    • Lower, B.H.1    Yongsunthon, R.2    Vellano, F.3    Lower, S.K.4
  • 196
    • 34547448587 scopus 로고    scopus 로고
    • Dispersing biofilms with engineered enzymatic bacteriophage
    • Lu TK, Collins JJ (2007) Dispersing biofilms with engineered enzymatic bacteriophage. Proc Nat Acad Sci USA 104:11197–11202
    • (2007) Proc Nat Acad Sci USA , vol.104 , pp. 11197-11202
    • Lu, T.K.1    Collins, J.J.2
  • 197
    • 0342588007 scopus 로고    scopus 로고
    • Simultaneous detection of the establishment of seed-inoculated Pseudomonas fluorescens strain DR54 and native soil bacteria on sugar beet root surfaces using fluorescence antibody and in situ hybridization techniques
    • Lübeck PS, Hansen M, Sörensen J (2000) Simultaneous detection of the establishment of seed-inoculated Pseudomonas fluorescens strain DR54 and native soil bacteria on sugar beet root surfaces using fluorescence antibody and in situ hybridization techniques. FEMS Microbiol Ecol 33:11–19
    • (2000) FEMS Microbiol Ecol , vol.33 , pp. 11-19
    • Lübeck, P.S.1    Hansen, M.2    Sörensen, J.3
  • 198
    • 65549085365 scopus 로고    scopus 로고
    • Imaging and quantifying virus fluorescence signals on aquatic aggregates: A new method and its implication for aquatic microbial ecology
    • Luef B, Neu TR, Peduzzi P (2009) Imaging and quantifying virus fluorescence signals on aquatic aggregates: a new method and its implication for aquatic microbial ecology. FEMS Microbiol Ecol 68:372–380
    • (2009) FEMS Microbiol Ecol , vol.68 , pp. 372-380
    • Luef, B.1    Neu, T.R.2    Peduzzi, P.3
  • 199
    • 70149088597 scopus 로고    scopus 로고
    • Structure and composition of aggregates in two large European rivers, based on confocal laser scanning microscopy and image and statistical analysis
    • Luef B, Neu TR, Zweimüller I, Peduzzi P (2009) Structure and composition of aggregates in two large European rivers, based on confocal laser scanning microscopy and image and statistical analysis. Appl Environ Microbiol 75:5952–5962
    • (2009) Appl Environ Microbiol , vol.75 , pp. 5952-5962
    • Luef, B.1    Neu, T.R.2    Zweimüller, I.3    Peduzzi, P.4
  • 200
    • 0036300808 scopus 로고    scopus 로고
    • Large fraction of dead and inactiv bacteria in coastal marine sediments: Comparison of protocols for determination and ecological significance
    • Luna GM, Manini E, Danovaro R (2002) Large fraction of dead and inactiv bacteria in coastal marine sediments: comparison of protocols for determination and ecological significance. Appl Environ Microbiol 68:3509–3513
    • (2002) Appl Environ Microbiol , vol.68 , pp. 3509-3513
    • Luna, G.M.1    Manini, E.2    Danovaro, R.3
  • 201
    • 20444440388 scopus 로고    scopus 로고
    • An improved method for counting bacteria from sediments and turbid environments by epifluorescence microscopy
    • Lunau M, Lemke A, Walther K, Martens-Habbena W, Simon M (2005) An improved method for counting bacteria from sediments and turbid environments by epifluorescence microscopy. Environ Microbiol 7:961–968
    • (2005) Environ Microbiol , vol.7 , pp. 961-968
    • Lunau, M.1    Lemke, A.2    Walther, K.3    Martens-Habbena, W.4    Simon, M.5
  • 202
    • 79959700923 scopus 로고    scopus 로고
    • CARD-FISH and confocal laser scanner microscopy to assess successional changes of the bacterial community in freshwater biofilms
    • Lupini G, Proia L, Di Maio M, Amalfitano S, Fazi S (2011) CARD-FISH and confocal laser scanner microscopy to assess successional changes of the bacterial community in freshwater biofilms. J Microbiol Methods 86:248–251
    • (2011) J Microbiol Methods , vol.86 , pp. 248-251
    • Lupini, G.1    Proia, L.2    Di Maio, M.3    Amalfitano, S.4    Fazi, S.5
  • 203
    • 33749393225 scopus 로고    scopus 로고
    • Vertical distribution of nitrifying populations in bacterial biofilms from a full—scale nitrifying trickling filter
    • Lydmark P, Lind M, Sörensson F, Hermansson M (2006) Vertical distribution of nitrifying populations in bacterial biofilms from a full—scale nitrifying trickling filter. Environ Microbiol 8:2036–2049
    • (2006) Environ Microbiol , vol.8 , pp. 2036-2049
    • Lydmark, P.1    Lind, M.2    Sörensson, F.3    Hermansson, M.4
  • 204
  • 206
    • 0030220521 scopus 로고    scopus 로고
    • Physical stabilization and confocal microscopy of bacteria on roots using 16S rRNA targeted, fluorescent-labeled oligonucleotide probes
    • Macnaughton SJ, Booth T, Embley TM, O’Donnell AG (1996) Physical stabilization and confocal microscopy of bacteria on roots using 16S rRNA targeted, fluorescent-labeled oligonucleotide probes. J Microbiol Methods 26:279–285
    • (1996) J Microbiol Methods , vol.26 , pp. 279-285
    • Macnaughton, S.J.1    Booth, T.2    Embley, T.M.3    O’Donnell, A.G.4
  • 207
    • 40249091291 scopus 로고    scopus 로고
    • Architectural adaptation and protein expression patterns of Salmonella enterica serovar enteritidis biofilms under laminar flow conditions
    • Mangalappalli-Illathu AK, Lawrence JR, Swerhone GDW, Korber DR (2008) Architectural adaptation and protein expression patterns of Salmonella enterica serovar enteritidis biofilms under laminar flow conditions. Int J Food Microbiol 123:109–120
    • (2008) Int J Food Microbiol , vol.123 , pp. 109-120
    • Mangalappalli-Illathu, A.K.1    Lawrence, J.R.2    Swerhone, G.3    Korber, D.R.4
  • 208
    • 33644962459 scopus 로고    scopus 로고
    • Synoptic determination of living/dead and active/dormant bacterial fractions in marine sediments
    • Manini E, Danovaro R (2006) Synoptic determination of living/dead and active/dormant bacterial fractions in marine sediments. FEMS Microbiol Ecol 55:416–423
    • (2006) FEMS Microbiol Ecol , vol.55 , pp. 416-423
    • Manini, E.1    Danovaro, R.2
  • 210
    • 0029031011 scopus 로고
    • Use of confocal microscopy in studying bacterial adhesion and invasion
    • Manning PA (1995) Use of confocal microscopy in studying bacterial adhesion and invasion. Methods Enzymol 253:159–167
    • (1995) Methods Enzymol , vol.253 , pp. 159-167
    • Manning, P.A.1
  • 211
    • 0033973010 scopus 로고    scopus 로고
    • Widefield deconvolution epifluorescence microscopy combined with fluorescence in situ hybridization reveals the spatial arrangement of bacteria in sponge tissue
    • Manz W, Arp G, Schumann-Kindel G, Szewzyk U, Reitner J (2000) Widefield deconvolution epifluorescence microscopy combined with fluorescence in situ hybridization reveals the spatial arrangement of bacteria in sponge tissue. J Microbiol Methods 40:125–134
    • (2000) J Microbiol Methods , vol.40 , pp. 125-134
    • Manz, W.1    Arp, G.2    Schumann-Kindel, G.3    Szewzyk, U.4    Reitner, J.5
  • 212
    • 0033061147 scopus 로고    scopus 로고
    • Phylogenetic composition, spatial structure, and dynamics of lotic bacterial biofilms investigated by fluorescent in situ hybridization and confocal laser scanning microscopy
    • Manz W, Wendt-Potthoff K, Neu TR, Szewzyk U, Lawrence JR (1999) Phylogenetic composition, spatial structure, and dynamics of lotic bacterial biofilms investigated by fluorescent in situ hybridization and confocal laser scanning microscopy. Microb Ecol 37:225–237
    • (1999) Microb Ecol , vol.37 , pp. 225-237
    • Manz, W.1    Wendt-Potthoff, K.2    Neu, T.R.3    Szewzyk, U.4    Lawrence, J.R.5
  • 213
    • 0030620443 scopus 로고    scopus 로고
    • Enumeration and cell cycle analysis of natural populations of marine picoplankton by flow cytometry using the nucleic acid stain SYBR Green I
    • Marie D, Partensky F, Jacquet S, Vaulot D (1997) Enumeration and cell cycle analysis of natural populations of marine picoplankton by flow cytometry using the nucleic acid stain SYBR Green I. Appl Environ Microbiol 63:186–193
    • (1997) Appl Environ Microbiol , vol.63 , pp. 186-193
    • Marie, D.1    Partensky, F.2    Jacquet, S.3    Vaulot, D.4
  • 214
    • 0029883988 scopus 로고    scopus 로고
    • Application of the novel nucleic acid dyes YOYO-1, Yo-Pro-1, and PicoGreen for flow cytometric analysis of marine procaryotes
    • Marie D, Vaulot D, Partensky F (1996) Application of the novel nucleic acid dyes YOYO-1, Yo-Pro-1, and PicoGreen for flow cytometric analysis of marine procaryotes. Appl Environ Microbiol 62:1649–1655
    • (1996) Appl Environ Microbiol , vol.62 , pp. 1649-1655
    • Marie, D.1    Vaulot, D.2    Partensky, F.3
  • 216
    • 33644854313 scopus 로고    scopus 로고
    • Sensitive determination of microbial growth by nucleic acid staining in aqueous suspension
    • Martens-Habbena W, Sass H (2006) Sensitive determination of microbial growth by nucleic acid staining in aqueous suspension. Appl Environ Microbiol 72:87–95
    • (2006) Appl Environ Microbiol , vol.72 , pp. 87-95
    • Martens-Habbena, W.1    Sass, H.2
  • 217
    • 0035662736 scopus 로고    scopus 로고
    • Confocal and light microscope examination of protozoa and other microorganisms in the biofilms from a rotating biological contactor wastewater treatment plant
    • Martin-Cereceda M, Alvarez AM, Serrano S, Guinea A (2001) Confocal and light microscope examination of protozoa and other microorganisms in the biofilms from a rotating biological contactor wastewater treatment plant. Acta Protozoologica 40:263–272
    • (2001) Acta Protozoologica , vol.40 , pp. 263-272
    • Martin-Cereceda, M.1    Alvarez, A.M.2    Serrano, S.3    Guinea, A.4
  • 218
    • 0242405552 scopus 로고    scopus 로고
    • Long-term succession of structure and diversity of a biofilm formed in a model drinking water distribution system
    • Martiny AC, Jorgensen TM, Albrechtsen H-J, Arvin E, Molin S (2003) Long-term succession of structure and diversity of a biofilm formed in a model drinking water distribution system. Appl Environ Microbiol 69:6899–6907
    • (2003) Appl Environ Microbiol , vol.69 , pp. 6899-6907
    • Martiny, A.C.1    Jorgensen, T.M.2    Albrechtsen, H.-J.3    Arvin, E.4    Molin, S.5
  • 219
    • 0028933689 scopus 로고
    • The ability of membrane potential dyes and calcofluor white to distinguish between viable and non-viable bacteria
    • Mason DJ, Lopez-Amoros R, Allman R, Stark JM, Lloyd D (1995) The ability of membrane potential dyes and calcofluor white to distinguish between viable and non-viable bacteria. J Appl Bacteriol 78:309–315
    • (1995) J Appl Bacteriol , vol.78 , pp. 309-315
    • Mason, D.J.1    Lopez-Amoros, R.2    Allman, R.3    Stark, J.M.4    Lloyd, D.5
  • 221
    • 0028801861 scopus 로고
    • Channel structures in aerobic biofilms on fixed-film reactors treating contaminated groundwater
    • Massol-Deya AA, Whallon J, Hickey RF, Tiedje JM (1995) Channel structures in aerobic biofilms on fixed-film reactors treating contaminated groundwater. Appl Environ Microbiol 61:769–777
    • (1995) Appl Environ Microbiol , vol.61 , pp. 769-777
    • Massol-Deya, A.A.1    Whallon, J.2    Hickey, R.F.3    Tiedje, J.M.4
  • 222
    • 1342332585 scopus 로고    scopus 로고
    • Microcolonies, quorum sensing and cytotoxicity determine the survival of Pseudomonas aeruginosa biofilms exposed to protozoan grazing
    • Matz C, Bergfeld T, Rice SA, Kjelleberg S (2004) Microcolonies, quorum sensing and cytotoxicity determine the survival of Pseudomonas aeruginosa biofilms exposed to protozoan grazing. Environ Microbiol 6:218–226
    • (2004) Environ Microbiol , vol.6 , pp. 218-226
    • Matz, C.1    Bergfeld, T.2    Rice, S.A.3    Kjelleberg, S.4
  • 223
    • 79953026216 scopus 로고    scopus 로고
    • Exposure of conjugative plasmid carrying Escherichia coli biofilms to male-specific bacteriophages
    • May T, Tsuruta K, Okabe S (2011) Exposure of conjugative plasmid carrying Escherichia coli biofilms to male-specific bacteriophages. ISME J 5:771–775
    • (2011) ISME J , vol.5 , pp. 771-775
    • May, T.1    Tsuruta, K.2    Okabe, S.3
  • 224
    • 33645553754 scopus 로고    scopus 로고
    • Biofilm formation by mycoplasma species and its role in environmental persistance and survival
    • McAuliffe L, Ellis RJ, Miles K, Ayling RD, Nicholas RAJ (2006) Biofilm formation by mycoplasma species and its role in environmental persistance and survival. Microbiology 152:913–922
    • (2006) Microbiology , vol.152 , pp. 913-922
    • McAuliffe, L.1    Ellis, R.J.2    Miles, K.3    Ayling, R.D.4    Nicholas, R.5
  • 227
    • 13544275580 scopus 로고    scopus 로고
    • Composition and distribution of extracellular polymeric substances in aerobic flocs and granular sludge
    • McSwain BS, Irvine RL, Hausner M, Wilderer PA (2005) Composition and distribution of extracellular polymeric substances in aerobic flocs and granular sludge. Appl Environ Microbiol 71:1051–1057
    • (2005) Appl Environ Microbiol , vol.71 , pp. 1051-1057
    • McSwain, B.S.1    Irvine, R.L.2    Hausner, M.3    Wilderer, P.A.4
  • 228
    • 0028976512 scopus 로고
    • Lectins probe molecular films in biofouling: Characterization of early films on non-living and living surfaces
    • Michael T, Smith CM (1995) Lectins probe molecular films in biofouling: characterization of early films on non-living and living surfaces. Mar Ecol Prog Ser 119:229–236
    • (1995) Mar Ecol Prog Ser , vol.119 , pp. 229-236
    • Michael, T.1    Smith, C.M.2
  • 229
    • 0030788865 scopus 로고    scopus 로고
    • Development of the FUN-1 family of fluorescent probes for vacuole labeling and viability testing of yeasts
    • Millard PJ, Roth BL, Thi HT, Yue ST, Haugland RP (1997) Development of the FUN-1 family of fluorescent probes for vacuole labeling and viability testing of yeasts. Appl Environ Microbiol 63:2897–2905
    • (1997) Appl Environ Microbiol , vol.63 , pp. 2897-2905
    • Millard, P.J.1    Roth, B.L.2    Thi, H.T.3    Yue, S.T.4    Haugland, R.P.5
  • 230
    • 67149113275 scopus 로고    scopus 로고
    • Coaggregation by the freshwater bacterium Sphingomonas natatoria alters dual-species biofilm formation
    • Min KR, Rickard AH (2009) Coaggregation by the freshwater bacterium Sphingomonas natatoria alters dual-species biofilm formation. Appl Environ Microbiol 75:3987–3997
    • (2009) Appl Environ Microbiol , vol.75 , pp. 3987-3997
    • Min, K.R.1    Rickard, A.H.2
  • 231
    • 84863001314 scopus 로고    scopus 로고
    • Visualizing Escherichia coli sub-cellular structure using sparse deconvolution spatial light interference tomography
    • e39816
    • Mir M, Babacan SD, Bednarz M, Do MN, Golding I, Popescu G (2012) Visualizing Escherichia coli sub-cellular structure using sparse deconvolution spatial light interference tomography. PLoS ONE 7:e39816
    • (2012) Plos ONE
    • Mir, M.1    Babacan, S.D.2    Bednarz, M.3    Do, M.N.4    Golding, I.5    Popescu, G.6
  • 232
    • 54749106626 scopus 로고    scopus 로고
    • Quantification of cell specific uptake activity of microbial products by uncultured Chloroflexi by microautoradiography combined with fluorescence in situ hybridization
    • Miura Y, Okabe S (2008) Quantification of cell specific uptake activity of microbial products by uncultured Chloroflexi by microautoradiography combined with fluorescence in situ hybridization. Environ Sci Technol 42:7380–7386
    • (2008) Environ Sci Technol , vol.42 , pp. 7380-7386
    • Miura, Y.1    Okabe, S.2
  • 233
    • 0031827363 scopus 로고    scopus 로고
    • Phosphorus limitation of heterotrophic biofilms from the Fraser River, British Columbia, and the effect of pulp mill effluent
    • Mohamed MN, Lawrence JR, Robarts RD (1998) Phosphorus limitation of heterotrophic biofilms from the Fraser River, British Columbia, and the effect of pulp mill effluent. Microb Ecol 36:121–130
    • (1998) Microb Ecol , vol.36 , pp. 121-130
    • Mohamed, M.N.1    Lawrence, J.R.2    Robarts, R.D.3
  • 234
    • 35648972818 scopus 로고    scopus 로고
    • Structure and shear strength of microbial biofilms as determined with confocal laser scanning microscopy and fluid dynamic gauging using a novel rotating disc biofilm reactor
    • Möhle RB, Langemann T, Haesner M, Augustin W, Scholl S, Neu TR, Hempel DC, Horn H (2007) Structure and shear strength of microbial biofilms as determined with confocal laser scanning microscopy and fluid dynamic gauging using a novel rotating disc biofilm reactor. Biotechnol Bioeng 98:747–755
    • (2007) Biotechnol Bioeng , vol.98 , pp. 747-755
    • Möhle, R.B.1    Langemann, T.2    Haesner, M.3    Augustin, W.4    Scholl, S.5    Neu, T.R.6    Hempel, D.C.7    Horn, H.8
  • 235
    • 0029659247 scopus 로고    scopus 로고
    • Activity and threedimensional distribution of toluene-degrading Pseudomonas putida in a multispecies biofilm assessed by quantitative in situ hybridization and scanning confocal laser microscopy
    • Möller S, Pedersen AR, Poulsen LK, Arvin E, Molin S (1996) Activity and threedimensional distribution of toluene-degrading Pseudomonas putida in a multispecies biofilm assessed by quantitative in situ hybridization and scanning confocal laser microscopy. Appl Environ Microbiol 62:4632–4640
    • (1996) Appl Environ Microbiol , vol.62 , pp. 4632-4640
    • Möller, S.1    Pedersen, A.R.2    Poulsen, L.K.3    Arvin, E.4    Molin, S.5
  • 237
    • 0030960565 scopus 로고    scopus 로고
    • Methods for observing microbial biofilms directly on leaf surfaces and recovering them for isolation of culturable microorganisms
    • Morris C, Monier J-M, Jacques M-A (1997) Methods for observing microbial biofilms directly on leaf surfaces and recovering them for isolation of culturable microorganisms. Appl Environ Microbiol 63:1570–1576
    • (1997) Appl Environ Microbiol , vol.63 , pp. 1570-1576
    • Morris, C.1    Monier, J.-M.2    Jacques, M.-A.3
  • 239
    • 0343192453 scopus 로고    scopus 로고
    • Fluorescence in situ hybridization (FISH) for direct visualization of microorganisms
    • Moter A, Göbel UB (2000) Fluorescence in situ hybridization (FISH) for direct visualization of microorganisms. J Microbiol Methods 41:85–112
    • (2000) J Microbiol Methods , vol.41 , pp. 85-112
    • Moter, A.1    Göbel, U.B.2
  • 240
    • 57149111485 scopus 로고    scopus 로고
    • Extracellular DNA chelates cations and induces antibiotic resistance in Pseudomonas aeruginosa biofilms
    • e1000213
    • Mulcahy H, Charron-Mazenod L, Lewenza S (2009) Extracellular DNA chelates cations and induces antibiotic resistance in Pseudomonas aeruginosa biofilms. PLoS Pathogens 4(11):e1000213
    • (2009) Plos Pathogens , vol.4 , Issue.11
    • Mulcahy, H.1    Charron-Mazenod, L.2    Lewenza, S.3
  • 241
    • 10044257664 scopus 로고    scopus 로고
    • Compatibility of the green fluorescent protein and a general nucleic acid stain for quantitative description of a Pseudomonas putida biofilm
    • Nancharaiah YV, Venugopalan VP, Wuertz S, Wilderer PA, Hausner M (2005) Compatibility of the green fluorescent protein and a general nucleic acid stain for quantitative description of a Pseudomonas putida biofilm. J Microbiol Methods 60:179–187
    • (2005) J Microbiol Methods , vol.60 , pp. 179-187
    • Nancharaiah, Y.V.1    Venugopalan, V.P.2    Wuertz, S.3    Wilderer, P.A.4    Hausner, M.5
  • 242
    • 0029130649 scopus 로고
    • Viability assessment of bacteria in mixed populations using flow cytometry
    • Nebe-von Caron G, Badley RA (1995) Viability assessment of bacteria in mixed populations using flow cytometry. J Microsc 179:55–66
    • (1995) J Microsc , vol.179 , pp. 55-66
    • Nebe-Von Caron, G.1    Badley, R.A.2
  • 243
    • 0031851254 scopus 로고    scopus 로고
    • Assessment of bacterial viability status by flow cytometry and single cell sorting
    • Nebe-von Caron G, Stephens P, Badley RA (1998) Assessment of bacterial viability status by flow cytometry and single cell sorting. J Appl Microbiol 84:988–998
    • (1998) J Appl Microbiol , vol.84 , pp. 988-998
    • Nebe-Von Caron, G.1    Stephens, P.2    Badley, R.A.3
  • 244
    • 0029912111 scopus 로고    scopus 로고
    • Population analysis in a denitrifying sand filter: Conventional and in situ identification of Paracoccus spp. in methanol-fed biofilms
    • Neef A, Zaglauer A, Meier H, Amann R, Lemmer H, Schleifer K-H (1996) Population analysis in a denitrifying sand filter: conventional and in situ identification of Paracoccus spp. in methanol-fed biofilms. Appl Environ Microbiol 62:4329–4339
    • (1996) Appl Environ Microbiol , vol.62 , pp. 4329-4339
    • Neef, A.1    Zaglauer, A.2    Meier, H.3    Amann, R.4    Lemmer, H.5    Schleifer, K.-H.6
  • 245
    • 84855517711 scopus 로고    scopus 로고
    • Dynamic metabolic labeling of DNA in vivo with arabinosyl nucleosides
    • Neef AB, Luedtke NW (2011) Dynamic metabolic labeling of DNA in vivo with arabinosyl nucleosides. Proc Natl Acad Sci 108:20404–20409
    • (2011) Proc Natl Acad Sci , vol.108 , pp. 20404-20409
    • Neef, A.B.1    Luedtke, N.W.2
  • 246
    • 0034695991 scopus 로고    scopus 로고
    • In situ cell and glycoconjugate distribution in river snow studied by confocal laser scanning microscopy
    • Neu TR (2000) In situ cell and glycoconjugate distribution in river snow studied by confocal laser scanning microscopy. Aquat Microb Ecol 21:85–95
    • (2000) Aquat Microb Ecol , vol.21 , pp. 85-95
    • Neu, T.R.1
  • 247
    • 0036158084 scopus 로고    scopus 로고
    • Assessment of fluorochromes for two-photon laser scanning microscopy biofilms
    • Neu TR, Kuhlicke U, Lawrence JR (2002) Assessment of fluorochromes for two-photon laser scanning microscopy biofilms. Appl Environ Microbiol 68:901–909
    • (2002) Appl Environ Microbiol , vol.68 , pp. 901-909
    • Neu, T.R.1    Kuhlicke, U.2    Lawrence, J.R.3
  • 248
    • 0030819616 scopus 로고    scopus 로고
    • Development and structure of microbial biofilms in river water studied by confocal laser scanning microscopy
    • Neu TR, Lawrence JR (1997) Development and structure of microbial biofilms in river water studied by confocal laser scanning microscopy. FEMS Microbiol Ecol 24:11–25
    • (1997) FEMS Microbiol Ecol , vol.24 , pp. 11-25
    • Neu, T.R.1    Lawrence, J.R.2
  • 249
    • 0032720668 scopus 로고    scopus 로고
    • Lectin-binding-analysis in biofilm systems
    • Neu TR, Lawrence JR (1999) Lectin-binding-analysis in biofilm systems. Methods Enzymol 310:145–152
    • (1999) Methods Enzymol , vol.310 , pp. 145-152
    • Neu, T.R.1    Lawrence, J.R.2
  • 250
    • 1642473072 scopus 로고    scopus 로고
    • Laser scanning microscopy in combination with fluorescence techniques for biofilm study
    • In: Bitton G, Wiley, New York
    • Neu TR, Lawrence JR (2002) Laser scanning microscopy in combination with fluorescence techniques for biofilm study. In: Bitton G (ed) The encyclopedia of environmental microbiology, vol 4. Wiley, New York, pp 1772–1788
    • (2002) The Encyclopedia of Environmental Microbiology , vol.4 , pp. 1772-1788
    • Neu, T.R.1    Lawrence, J.R.2
  • 251
    • 85120230246 scopus 로고    scopus 로고
    • One-photon versus two-photon laser scanning microscopy and digital image analysis of microbial biofilms
    • Neu TR, Lawrence JR (2005) One-photon versus two-photon laser scanning microscopy and digital image analysis of microbial biofilms. Methods Microbiol 34:87–134
    • (2005) Methods Microbiol , vol.34 , pp. 87-134
    • Neu, T.R.1    Lawrence, J.R.2
  • 252
    • 79957667383 scopus 로고    scopus 로고
    • Examination of microbial communities on hydrocarbons by means of laser scanning microscopy
    • In: Timmis KN, Springer, Heidelberg
    • Neu TR, Lawrence JR (2010) Examination of microbial communities on hydrocarbons by means of laser scanning microscopy. In: Timmis KN (ed) Microbiology of hydrocarbons, oils, lipids and derived compounds. Springer, Heidelberg, pp 4073–4084
    • (2010) Microbiology of Hydrocarbons, Oils, Lipids and Derived Compounds , pp. 4073-4084
    • Neu, T.R.1    Lawrence, J.R.2
  • 253
    • 77949290454 scopus 로고    scopus 로고
    • Advanced imaging techniques for assessment of structure, composition and function in biofilm systems
    • Neu TR, Manz B, Volke F, Dynes JJ, Hitchcock AP, Lawrence JR (2010) Advanced imaging techniques for assessment of structure, composition and function in biofilm systems. FEMS Microbiol Ecol 72:1–21
    • (2010) FEMS Microbiol Ecol , vol.72 , pp. 1-21
    • Neu, T.R.1    Manz, B.2    Volke, F.3    Dynes, J.J.4    Hitchcock, A.P.5    Lawrence, J.R.6
  • 254
    • 17444373930 scopus 로고    scopus 로고
    • Effect of CNP on composition and structure of lotic biofilms as detected with lectin-specific glycoconjugates
    • Neu TR, Swerhone GDW, Böckelmann U, Lawrence JR (2005) Effect of CNP on composition and structure of lotic biofilms as detected with lectin-specific glycoconjugates. Aquat Microb Ecol 38:283–294
    • (2005) Aquat Microb Ecol , vol.38 , pp. 283-294
    • Neu, T.R.1    Swerhone, G.2    Böckelmann, U.3    Lawrence, J.R.4
  • 255
    • 0035137556 scopus 로고    scopus 로고
    • Assessment of lectin-binding analysis for in situ detection of glycoconjugates in biofilm systems
    • Neu TR, Swerhone GDW, Lawrence JR (2001) Assessment of lectin-binding analysis for in situ detection of glycoconjugates in biofilm systems. Microbiology 147:299–313
    • (2001) Microbiology , vol.147 , pp. 299-313
    • Neu, T.R.1    Swerhone, G.2    Lawrence, J.R.3
  • 256
    • 1642482669 scopus 로고    scopus 로고
    • Three-dimensional differentiation of photoautotrophic biofilm constituents by multi-channel laser scanning microscopy (Single-photon and two-photon excitation)
    • Neu TR, Woelfl S, Lawrence JR (2004) Three-dimensional differentiation of photoautotrophic biofilm constituents by multi-channel laser scanning microscopy (single-photon and two-photon excitation). J Microbiol Methods 56:161–172
    • (2004) J Microbiol Methods , vol.56 , pp. 161-172
    • Neu, T.R.1    Woelfl, S.2    Lawrence, J.R.3
  • 258
    • 0034547593 scopus 로고    scopus 로고
    • Role of commensal retionships on the spatial structure of a surface—attached microbial consortium
    • Nielsen AT, Tolker-Nielsen T, Barken KB, Molin S (2000) Role of commensal retionships on the spatial structure of a surface—attached microbial consortium. Environ Microbiol 2:59–68
    • (2000) Environ Microbiol , vol.2 , pp. 59-68
    • Nielsen, A.T.1    Tolker-Nielsen, T.2    Barken, K.B.3    Molin, S.4
  • 259
    • 0037347176 scopus 로고    scopus 로고
    • Quantification of cell-specific substrate uptake by probe-defined bacteria under in situ conditions by microautoradiography and fluorescence in situ hybridization
    • Nielsen JL, Christensen D, Kloppenborg M, Nielsen PH (2003) Quantification of cell-specific substrate uptake by probe-defined bacteria under in situ conditions by microautoradiography and fluorescence in situ hybridization. Environ Microbiol 5:202–211
    • (2003) Environ Microbiol , vol.5 , pp. 202-211
    • Nielsen, J.L.1    Christensen, D.2    Kloppenborg, M.3    Nielsen, P.H.4
  • 260
    • 0037224951 scopus 로고    scopus 로고
    • Evaluation of the redox dye 5-cyano-2,3-tolyltetrazolium chloride for activity studies by simultaneous use of microautoradiography and fluorescence in situ hybridization
    • Nielsen JL, de Muro MA, Nielsen PH (2003) Evaluation of the redox dye 5-cyano-2,3-tolyltetrazolium chloride for activity studies by simultaneous use of microautoradiography and fluorescence in situ hybridization. Appl Environ Microbiol 69:641–643
    • (2003) Appl Environ Microbiol , vol.69 , pp. 641-643
    • Nielsen, J.L.1    De Muro, M.A.2    Nielsen, P.H.3
  • 261
    • 0036727261 scopus 로고    scopus 로고
    • Abundance and phylogenetic affiliation of iron reducers in activated sludge as assessed by fluorescence in situ hybridization and microautoradiography
    • Nielsen JL, Juretschko S, Wagner M, Nielsen PH (2002) Abundance and phylogenetic affiliation of iron reducers in activated sludge as assessed by fluorescence in situ hybridization and microautoradiography. Appl Environ Microbiol 68:4629–4636
    • (2002) Appl Environ Microbiol , vol.68 , pp. 4629-4636
    • Nielsen, J.L.1    Juretschko, S.2    Wagner, M.3    Nielsen, P.H.4
  • 262
    • 27644486738 scopus 로고    scopus 로고
    • Advances in microscopy: Microautoradiography of single cells
    • Nielsen JL, Nielsen PH (2005) Advances in microscopy: Microautoradiography of single cells. Methods Enzymol 397:237–256
    • (2005) Methods Enzymol , vol.397 , pp. 237-256
    • Nielsen, J.L.1    Nielsen, P.H.2
  • 263
    • 31944434759 scopus 로고    scopus 로고
    • Use of microautoradiography to study in situ physiology of bacteria in biofilms
    • Nielsen JL, Wagner M, Nielsen PH (2003) Use of microautoradiography to study in situ physiology of bacteria in biofilms. Rev Environ Sci Bio/Technol 2:261–268
    • (2003) Rev Environ Sci Bio/Technol , vol.2 , pp. 261-268
    • Nielsen, J.L.1    Wagner, M.2    Nielsen, P.H.3
  • 265
    • 0034551726 scopus 로고    scopus 로고
    • Studies on the in situ physiology of Thiothrix spp. Present in activated sludge
    • Nielsen PH, de Muro MA, Nielsen JL (2000) Studies on the in situ physiology of Thiothrix spp. present in activated sludge. Environ Microbiol 2:389–398
    • (2000) Environ Microbiol , vol.2 , pp. 389-398
    • Nielsen, P.H.1    De Muro, M.A.2    Nielsen, J.L.3
  • 266
    • 0035152936 scopus 로고    scopus 로고
    • Role of alginate and its O acetylation in formation of Pseudomonas aeruginosa microcolonies and biofilms
    • Nivens DE, Ohman DE, Williams J, Franklin MJ (2001) Role of alginate and its O acetylation in formation of Pseudomonas aeruginosa microcolonies and biofilms. J Bacteriol 183:1047–1057
    • (2001) J Bacteriol , vol.183 , pp. 1047-1057
    • Nivens, D.E.1    Ohman, D.E.2    Williams, J.3    Franklin, M.J.4
  • 267
    • 0001679973 scopus 로고    scopus 로고
    • Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria
    • Noble RT, Fuhrman JA (1998) Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria. Aquat Microb Ecol 14:113–118
    • (1998) Aquat Microb Ecol , vol.14 , pp. 113-118
    • Noble, R.T.1    Fuhrman, J.A.2
  • 268
    • 0042193017 scopus 로고    scopus 로고
    • Use of cofocal scanning laser microscopy to measure the concentrations of aerial and penetrative hyphae during growth of Rhizopus oligosporus on a solid surface
    • Nopharatana M, Mitchell DA, Howes T (2003) Use of cofocal scanning laser microscopy to measure the concentrations of aerial and penetrative hyphae during growth of Rhizopus oligosporus on a solid surface. Biotechnol Bioeng 84:71–77
    • (2003) Biotechnol Bioeng , vol.84 , pp. 71-77
    • Nopharatana, M.1    Mitchell, D.A.2    Howes, T.3
  • 269
    • 0037456262 scopus 로고    scopus 로고
    • Use of confocal microscopy to follow the development of penetrative hyphae during growth of Rhizopus oligosporus in an artificial solid-state fermentation system
    • Nopharatana M, Mitchell DA, Howes T (2003) Use of confocal microscopy to follow the development of penetrative hyphae during growth of Rhizopus oligosporus in an artificial solid-state fermentation system. Biotechnol Bioeng 81:438–447
    • (2003) Biotechnol Bioeng , vol.81 , pp. 438-447
    • Nopharatana, M.1    Mitchell, D.A.2    Howes, T.3
  • 270
    • 0000359841 scopus 로고    scopus 로고
    • Using confocal laser scanning microscopy, scanning electron microscopy and phase contrast light microscopy to examine marine biofilms
    • Norton TA, Thompson RC, Pope J, Veltkamp CJ, Banks B, Howard CV, Hawkins SJ (1999) Using confocal laser scanning microscopy, scanning electron microscopy and phase contrast light microscopy to examine marine biofilms. Aquat Microb Ecol 16:199–204
    • (1999) Aquat Microb Ecol , vol.16 , pp. 199-204
    • Norton, T.A.1    Thompson, R.C.2    Pope, J.3    Veltkamp, C.J.4    Banks, B.5    Howard, C.V.6    Hawkins, S.J.7
  • 271
    • 0037178023 scopus 로고    scopus 로고
    • Application of fluorescent in situ hybridization coupled with tyramide signal amplification (FISH-TSA) to assess eucaryotic picoplankton composition
    • Not F, Simon N, Biegala IC, Vaulot D (2002) Application of fluorescent in situ hybridization coupled with tyramide signal amplification (FISH-TSA) to assess eucaryotic picoplankton composition. Aquat Microb Ecol 28:157–166
    • (2002) Aquat Microb Ecol , vol.28 , pp. 157-166
    • Not, F.1    Simon, N.2    Biegala, I.C.3    Vaulot, D.4
  • 273
    • 18444397753 scopus 로고    scopus 로고
    • Succesion of internal sulfur cycles and sulfuroxidizing bacterial communities in microaerophilic wastewater biofilms
    • Okabe S, Ito T, Sugita K, Satoh H (2005) Succesion of internal sulfur cycles and sulfuroxidizing bacterial communities in microaerophilic wastewater biofilms. Appl Environ Microbiol 71:2520–2529
    • (2005) Appl Environ Microbiol , vol.71 , pp. 2520-2529
    • Okabe, S.1    Ito, T.2    Sugita, K.3    Satoh, H.4
  • 274
    • 0032746992 scopus 로고    scopus 로고
    • Analysis of spatial distributions of sulfatereducing bacteria and their activity in aerobic wastewater biofilms
    • Okabe S, Itoh T, Satoh H, Watanabe Y (1999) Analysis of spatial distributions of sulfatereducing bacteria and their activity in aerobic wastewater biofilms. Appl Environ Microbiol 65:5107–5116
    • (1999) Appl Environ Microbiol , vol.65 , pp. 5107-5116
    • Okabe, S.1    Itoh, T.2    Satoh, H.3    Watanabe, Y.4
  • 275
    • 33746591373 scopus 로고    scopus 로고
    • MAR-FISH - An ecophysiological approach to link phylogenetic affiliation and in situ metabolic activity of microorganisms at a single-cell resolution
    • Okabe S, Kindaichi T, Ito T (2004) MAR-FISH - An ecophysiological approach to link phylogenetic affiliation and in situ metabolic activity of microorganisms at a single-cell resolution. Microbes Environ 19:83–98
    • (2004) Microbes Environ , vol.19 , pp. 83-98
    • Okabe, S.1    Kindaichi, T.2    Ito, T.3
  • 276
    • 22144472619 scopus 로고    scopus 로고
    • Fate of C-labeled microbial products derived from nitrifying bacteria in autotrophic nitrifying biofilms
    • Okabe S, Kindaichi T, Ito T (2005) Fate of C-labeled microbial products derived from nitrifying bacteria in autotrophic nitrifying biofilms. Appl Environ Microbiol 71:3987–3994
    • (2005) Appl Environ Microbiol , vol.71 , pp. 3987-3994
    • Okabe, S.1    Kindaichi, T.2    Ito, T.3
  • 277
    • 0031887046 scopus 로고    scopus 로고
    • Floc stability and adhesion of green- fluorescent-protein-marked bacteria to flocs in activated sludge
    • Olofsson AC, Zita A, Hermansson M (1998) Floc stability and adhesion of green- fluorescent-protein-marked bacteria to flocs in activated sludge. Microbiology 144:519–528
    • (1998) Microbiology , vol.144 , pp. 519-528
    • Olofsson, A.C.1    Zita, A.2    Hermansson, M.3
  • 278
    • 3342969495 scopus 로고
    • On the use of tetrazolium salts for the measurement of microbial activity in sediments
    • Oren A (1987) On the use of tetrazolium salts for the measurement of microbial activity in sediments. FEMS Microbiol Ecol 45:127–133
    • (1987) FEMS Microbiol Ecol , vol.45 , pp. 127-133
    • Oren, A.1
  • 279
    • 0036056112 scopus 로고    scopus 로고
    • In situ confocal laser scanning microscopy of protozoans in culture and complex biofilm communities
    • Packroff G, Lawrence JR, Neu TR (2002) In situ confocal laser scanning microscopy of protozoans in culture and complex biofilm communities. Acta Protozoologica 41:245–253
    • (2002) Acta Protozoologica , vol.41 , pp. 245-253
    • Packroff, G.1    Lawrence, J.R.2    Neu, T.R.3
  • 280
    • 0038529782 scopus 로고    scopus 로고
    • Coaggregation-mediated interactions of Streptococci and Actinomyces detected in initial human dental plague
    • Palmer RJ Jr, Gordon SM, Cisar JO, Kolenbrander PE (2003) Coaggregation-mediated interactions of Streptococci and Actinomyces detected in initial human dental plague. J Bacteriol 185:3400–3409
    • (2003) J Bacteriol , vol.185 , pp. 3400-3409
    • Palmer, R.J.1    Gordon, S.M.2    Cisar, J.O.3    Kolenbrander, P.E.4
  • 282
    • 0033153162 scopus 로고    scopus 로고
    • Modern microcopy in biofilm research: Confocal microscopy and other approaches
    • Palmer RJ Jr, Sternberg C (1999) Modern microcopy in biofilm research: confocal microscopy and other approaches. Curr Opin Biotechnol 10:263–268
    • (1999) Curr Opin Biotechnol , vol.10 , pp. 263-268
    • Palmer, R.J.1    Sternberg, C.2
  • 283
    • 3042752764 scopus 로고    scopus 로고
    • Protozoan grazing of freshwater biofilms
    • Parry JD (2004) Protozoan grazing of freshwater biofilms. Adv Appl Microbiol 54:167–196
    • (2004) Adv Appl Microbiol , vol.54 , pp. 167-196
    • Parry, J.D.1
  • 284
    • 57349089211 scopus 로고    scopus 로고
    • A fluorescence-based assay for measuring the viable cell concentration of mixed microbial communities in soil
    • Pascaud A, Amellal S, Soulas M-L, Soulas G (2009) A fluorescence-based assay for measuring the viable cell concentration of mixed microbial communities in soil. J Microbiol Methods 76:81–87
    • (2009) J Microbiol Methods , vol.76 , pp. 81-87
    • Pascaud, A.1    Amellal, S.2    Soulas, M.-L.3    Soulas, G.4
  • 285
    • 1842375041 scopus 로고    scopus 로고
    • Activity of toluene-degrading Pseudomonas putida in the early growth phase of a biofilm for waste gas treatment
    • Pedersen AR, Möller S, Molin S, Arvin E (1997) Activity of toluene-degrading Pseudomonas putida in the early growth phase of a biofilm for waste gas treatment. Biotechnol Bioeng 54:131–141
    • (1997) Biotechnol Bioeng , vol.54 , pp. 131-141
    • Pedersen, A.R.1    Möller, S.2    Molin, S.3    Arvin, E.4
  • 287
    • 70350464933 scopus 로고    scopus 로고
    • Mutualistic biofilm communities develop with Porphyromonas gingivalis and initial, early and late colonizers of enamel
    • Periasamy S, Kolenbrander PE (2009) Mutualistic biofilm communities develop with Porphyromonas gingivalis and initial, early and late colonizers of enamel. J Bacteriol 191: 6804–6811
    • (2009) J Bacteriol , vol.191 , pp. 6804-6811
    • Periasamy, S.1    Kolenbrander, P.E.2
  • 288
    • 69049112934 scopus 로고    scopus 로고
    • Aggregatibacter actinomycetemcomitans builds mutualistic biofilm communities with Fusobacterium nucleatum and Veillonella species in saliva
    • Periasamy S, Kolenbrander PE (2009) Aggregatibacter actinomycetemcomitans builds mutualistic biofilm communities with Fusobacterium nucleatum and Veillonella species in saliva. Infect Immun 77:3542–3551
    • (2009) Infect Immun , vol.77 , pp. 3542-3551
    • Periasamy, S.1    Kolenbrander, P.E.2
  • 289
    • 77953993754 scopus 로고    scopus 로고
    • Central role of the early colonizer Veillonella sp. In establishing multispecies biofilm communities with initial, middle, and late colonizers of enamel
    • Periasamy S, Kolenbrander PE (2010) Central role of the early colonizer Veillonella sp. in establishing multispecies biofilm communities with initial, middle, and late colonizers of enamel. J Bacteriol 192:2965–2972
    • (2010) J Bacteriol , vol.192 , pp. 2965-2972
    • Periasamy, S.1    Kolenbrander, P.E.2
  • 290
    • 4644226321 scopus 로고    scopus 로고
    • Simultaneous fluorescence in situ hybridisation of mRNA and rRNA in environmental bacteria
    • Pernthaler A, Amann R (2004) Simultaneous fluorescence in situ hybridisation of mRNA and rRNA in environmental bacteria. Appl Environ Microbiol 70:5426–5433
    • (2004) Appl Environ Microbiol , vol.70 , pp. 5426-5433
    • Pernthaler, A.1    Amann, R.2
  • 291
    • 0036276618 scopus 로고    scopus 로고
    • Fluorescence in situ hybridisation and catalzed reporter deposition for the identification of marine bacteria
    • Pernthaler A, Pernthaler J, Amann R (2002) Fluorescence in situ hybridisation and catalzed reporter deposition for the identification of marine bacteria. Appl Environ Microbiol 68:3094–3101
    • (2002) Appl Environ Microbiol , vol.68 , pp. 3094-3101
    • Pernthaler, A.1    Pernthaler, J.2    Amann, R.3
  • 292
    • 0032742453 scopus 로고    scopus 로고
    • Deconvolution fluorescence microscopy for observation and analysis of membrane biofilm architecture
    • Phipps D, Rodriguez G, Ridgway H (1999) Deconvolution fluorescence microscopy for observation and analysis of membrane biofilm architecture. Methods Enzymol 310:178–194
    • (1999) Methods Enzymol , vol.310 , pp. 178-194
    • Phipps, D.1    Rodriguez, G.2    Ridgway, H.3
  • 293
    • 33144480717 scopus 로고    scopus 로고
    • Temperature-regulated formation of mycelial mat-like biofilms by Legionella pneumophila
    • Piao Z, Sze CC, Barysheva O, Iida K-I, Yoshida S-I (2006) Temperature-regulated formation of mycelial mat-like biofilms by Legionella pneumophila. Appl Environ Microbiol 72:1613–1622
    • (2006) Appl Environ Microbiol , vol.72 , pp. 1613-1622
    • Piao, Z.1    Sze, C.C.2    Barysheva, O.3    Iida, K.-I.4    Yoshida, S.-I.5
  • 294
    • 84856378559 scopus 로고    scopus 로고
    • Kinetic anomalies in the interactions of Nile red with microalgae
    • Pick U, Rachutin-Zalogin T (2012) Kinetic anomalies in the interactions of Nile red with microalgae. J Microbiol Methods 88:189–196
    • (2012) J Microbiol Methods , vol.88 , pp. 189-196
    • Pick, U.1    Rachutin-Zalogin, T.2
  • 295
    • 0034075396 scopus 로고    scopus 로고
    • Phototrophs in high iron microbial mats: Microstructure of mats in iron-depositing hot springs
    • Pierson BK, Parenteau MN (2000) Phototrophs in high iron microbial mats: microstructure of mats in iron-depositing hot springs. FEMS Microbiol Ecol 32:181–196
    • (2000) FEMS Microbiol Ecol , vol.32 , pp. 181-196
    • Pierson, B.K.1    Parenteau, M.N.2
  • 296
    • 0032455386 scopus 로고    scopus 로고
    • Volumetric reconstruction of individual oil inclusions by confocal scanning laser microscopy
    • Pironon J, Canals M, Dubessy J, Walgenwitz F, Laplace-Builhe C (1998) Volumetric reconstruction of individual oil inclusions by confocal scanning laser microscopy. Eur J Mineral 10:1143–1150
    • (1998) Eur J Mineral , vol.10 , pp. 1143-1150
    • Pironon, J.1    Canals, M.2    Dubessy, J.3    Walgenwitz, F.4    Laplace-Builhe, C.5
  • 298
    • 0033754385 scopus 로고    scopus 로고
    • Heavy metal coprecipitation with hydrozincite [Zn5(Co3)2(OH)6] from mine waters caused by photosynthetic microorganisms
    • Podda F, Zuddas P, Minacci A, Pepi M, Baldi F (2000) Heavy metal coprecipitation with hydrozincite [Zn5(Co3)2(OH)6] from mine waters caused by photosynthetic microorganisms. Appl Environ Microbiol 66:5092–5098
    • (2000) Appl Environ Microbiol , vol.66 , pp. 5092-5098
    • Podda, F.1    Zuddas, P.2    Minacci, A.3    Pepi, M.4    Baldi, F.5
  • 299
    • 34447517612 scopus 로고    scopus 로고
    • Role of autolysinmediated DNA release in biofilm formation of Staphylococcus epidermidis
    • Qin Z, Ou Y, Yang L, Zhu Y, Tolker-Nielsen T, Molin S, Qu D (2007) Role of autolysinmediated DNA release in biofilm formation of Staphylococcus epidermidis. Microbiology 153:2083–2092
    • (2007) Microbiology , vol.153 , pp. 2083-2092
    • Qin, Z.1    Ou, Y.2    Yang, L.3    Zhu, Y.4    Tolker-Nielsen, T.5    Molin, S.6    Qu, D.7
  • 300
    • 33745156086 scopus 로고    scopus 로고
    • The role of quorum sensing mediated developmental traits in the resistance of Serratia marcescens biofilms against protozoan grazing
    • Queck SY, Weitere M, Moreno AM, Rice SA, Kjelleberg S (2006) The role of quorum sensing mediated developmental traits in the resistance of Serratia marcescens biofilms against protozoan grazing. Environ Microbiol 8:1017–1025
    • (2006) Environ Microbiol , vol.8 , pp. 1017-1025
    • Queck, S.Y.1    Weitere, M.2    Moreno, A.M.3    Rice, S.A.4    Kjelleberg, S.5
  • 301
    • 0033983467 scopus 로고    scopus 로고
    • Bacterial activity in the rhizosphere analyzed at the single-cell level by monitoring ribosome contents and synthesis rates
    • Ramos C, Mölbak L, Molin S (2000) Bacterial activity in the rhizosphere analyzed at the single-cell level by monitoring ribosome contents and synthesis rates. Appl Environ Microbiol 66:801–809
    • (2000) Appl Environ Microbiol , vol.66 , pp. 801-809
    • Ramos, C.1    Mölbak, L.2    Molin, S.3
  • 302
    • 84858217608 scopus 로고    scopus 로고
    • Pelagic boundary conditions affect the biological formation of iron-rich particles (Iron snow)and their microbial communities
    • Reiche M, Lu S, Cibiota V, Neu TR, Nietzsche S, Rösch P, Popp J, Küsel K (2013) Pelagic boundary conditions affect the biological formation of iron-rich particles (iron snow)and their microbial communities. Limnol Oceanogr 56:1386–1398
    • (2013) Limnol Oceanogr , vol.56 , pp. 1386-1398
    • Reiche, M.1    Lu, S.2    Cibiota, V.3    Neu, T.R.4    Nietzsche, S.5    Rösch, P.6    Popp, J.7    Küsel, K.8
  • 304
    • 21344493017 scopus 로고
    • Fact or fiction—bacterial growth rates and production as determined by [methyl-3H]-thymidine
    • Robarts RD, Zohary T (1993) Fact or fiction—bacterial growth rates and production as determined by [methyl-3H]-thymidine. Adv Microb Ecol 13:371–425
    • (1993) Adv Microb Ecol , vol.13 , pp. 371-425
    • Robarts, R.D.1    Zohary, T.2
  • 305
    • 0032899819 scopus 로고    scopus 로고
    • Differentiation of Methanosaeta concilii and Methanosarcina barkeri in anaerobic mesophilic granular sludge by fluorescent in situ hybridization and confocal scanning laser microscopy
    • Rocheleau S, Greer CW, Lawrence JR, Cantin Ch, Laramee L, Guiot SR (1999) Differentiation of Methanosaeta concilii and Methanosarcina barkeri in anaerobic mesophilic granular sludge by fluorescent in situ hybridization and confocal scanning laser microscopy. Appl Environ Microbiol 65:2222–2229
    • (1999) Appl Environ Microbiol , vol.65 , pp. 2222-2229
    • Rocheleau, S.1    Greer, C.W.2    Lawrence, J.R.3    Cantin, C.4    Laramee, L.5    Guiot, S.R.6
  • 308
    • 2942621910 scopus 로고    scopus 로고
    • Noninvasive pigment identification in single cells from living phototrophic biofilms by confocal imaging spectrofluorometry
    • Roldan M, Thomas F, Castel S, Quesada A, Hernandez-Marine M (2004) Noninvasive pigment identification in single cells from living phototrophic biofilms by confocal imaging spectrofluorometry. Appl Environ Microbiol 70:3745–3750
    • (2004) Appl Environ Microbiol , vol.70 , pp. 3745-3750
    • Roldan, M.1    Thomas, F.2    Castel, S.3    Quesada, A.4    Hernandez-Marine, M.5
  • 309
    • 76649143766 scopus 로고    scopus 로고
    • Amyloid fibers provide structural integrity to Bacillus subtilis biofilms
    • Romero D, Aguilar C, Losick R, Kolter R (2010) Amyloid fibers provide structural integrity to Bacillus subtilis biofilms. Proc Natl Acad Sci 107:2230–2234
    • (2010) Proc Natl Acad Sci , vol.107 , pp. 2230-2234
    • Romero, D.1    Aguilar, C.2    Losick, R.3    Kolter, R.4
  • 310
    • 0030958619 scopus 로고    scopus 로고
    • Bacterial viability and antibiotic susceptibility testing with SYTOX green nucleic acid stain
    • Roth BL, Poot M, Yue ST, Millard PJ (1997) Bacterial viability and antibiotic susceptibility testing with SYTOX green nucleic acid stain. Appl Environ Microbiol 63:2421–2431
    • (1997) Appl Environ Microbiol , vol.63 , pp. 2421-2431
    • Roth, B.L.1    Poot, M.2    Yue, S.T.3    Millard, P.J.4
  • 311
    • 13544254304 scopus 로고    scopus 로고
    • Use of ethidium monoazide and PCR in combination for quantification of viable and dead cells in complex samples
    • Rudi K, Moen B, Dromtorp SM, Holck AL (2005) Use of ethidium monoazide and PCR in combination for quantification of viable and dead cells in complex samples. Appl Environ Microbiol 71:1018–1024
    • (2005) Appl Environ Microbiol , vol.71 , pp. 1018-1024
    • Rudi, K.1    Moen, B.2    Dromtorp, S.M.3    Holck, A.L.4
  • 312
    • 84864317274 scopus 로고    scopus 로고
    • Physiological effects of free fatty acid production in genetically engineered Synechococcus elongatus PCC 7942
    • Ruffing AM, Jones HDT (2012) Physiological effects of free fatty acid production in genetically engineered Synechococcus elongatus PCC 7942. Biotechnol Bioeng 109: 2190–2199
    • (2012) Biotechnol Bioeng , vol.109 , pp. 2190-2199
    • Ruffing, A.M.1    Jones, H.2
  • 314
    • 0034737229 scopus 로고    scopus 로고
    • Structure and architecture of a stromatolite from a mediterranean stream
    • Sabater S (2000) Structure and architecture of a stromatolite from a mediterranean stream. Aquat Microb Ecol 21:161–168
    • (2000) Aquat Microb Ecol , vol.21 , pp. 161-168
    • Sabater, S.1
  • 315
    • 77649210358 scopus 로고    scopus 로고
    • Reliable detection of dead microbial cells by using fluorescent hydrazides
    • Saint-Ruf C, Cordier C, Megret J, Matic I (2010) Reliable detection of dead microbial cells by using fluorescent hydrazides. Appl Environ Microbiol 76:1674–1678
    • (2010) Appl Environ Microbiol , vol.76 , pp. 1674-1678
    • Saint-Ruf, C.1    Cordier, C.2    Megret, J.3    Matic, I.4
  • 316
    • 0029991167 scopus 로고    scopus 로고
    • A dual fluorescence technique for visualization of Staphylococcus epidermidis biofilm using scanning confocal laser microscopy
    • Sanford BA, de Feijter AW, Wade MH, Thomas VL (1996) A dual fluorescence technique for visualization of Staphylococcus epidermidis biofilm using scanning confocal laser microscopy. J Ind Microbiol 16:48–56
    • (1996) J Ind Microbiol , vol.16 , pp. 48-56
    • Sanford, B.A.1    De Feijter, A.W.2    Wade, M.H.3    Thomas, V.L.4
  • 317
    • 64749104169 scopus 로고    scopus 로고
    • The exopolysaccharide of Rhizobium sp. YAS34 is not necessary for biofilm formation on Arabidopsis thaliana and Brassica napus roots but contributes to root colonization
    • Santaella C, Schue M, Berge O, Heulin T, Achouak W (2008) The exopolysaccharide of Rhizobium sp. YAS34 is not necessary for biofilm formation on Arabidopsis thaliana and Brassica napus roots but contributes to root colonization. Environ Microbiol 10:2150–2163
    • (2008) Environ Microbiol , vol.10 , pp. 2150-2163
    • Santaella, C.1    Schue, M.2    Berge, O.3    Heulin, T.4    Achouak, W.5
  • 318
    • 27744568115 scopus 로고    scopus 로고
    • Application of a direct fluorescencebased live/dead staining combined with fluorescence in situ hybridization for assessment of survival rate of Bacteriodes spp. In drinking water
    • Savichtcheva O, Okayama N, Ito T, Okabe S (2005) Application of a direct fluorescencebased live/dead staining combined with fluorescence in situ hybridization for assessment of survival rate of Bacteriodes spp. in drinking water. Biotechnol Bioeng 92:356–363
    • (2005) Biotechnol Bioeng , vol.92 , pp. 356-363
    • Savichtcheva, O.1    Okayama, N.2    Ito, T.3    Okabe, S.4
  • 319
    • 0025092974 scopus 로고
    • Environmental application of nucleic acid hybridization
    • Sayler GS, Layton AC (1990) Environmental application of nucleic acid hybridization. Annu Rev Microbiol 44:625–648
    • (1990) Annu Rev Microbiol , vol.44 , pp. 625-648
    • Sayler, G.S.1    Layton, A.C.2
  • 320
    • 80053572375 scopus 로고    scopus 로고
    • Development of 3D architecture of uropathogenic Proteus mirabilis batch culture biofilms - a quantitative confocal microscopy approach
    • Schlapp G, Scavone P, Zunino P, H+Härtel S (2011) Development of 3D architecture of uropathogenic Proteus mirabilis batch culture biofilms - a quantitative confocal microscopy approach. J Microbiol Methods 87:234–240
    • (2011) J Microbiol Methods , vol.87 , pp. 234-240
    • Schlapp, G.1    Scavone, P.2    Zunino, P.3    H+Härtel, S.4
  • 321
    • 0027183923 scopus 로고
    • Direct identification, and localization of Azospirillum in the rhizosphere of wheat using fluorescence-labelled monoclonal antibodies and confocal scanning laser microscopy
    • Schloter M, Borlinghaus R, Bode W, Hartmann A (1993) Direct identification, and localization of Azospirillum in the rhizosphere of wheat using fluorescence-labelled monoclonal antibodies and confocal scanning laser microscopy. J Microsc 171:173–177
    • (1993) J Microsc , vol.171 , pp. 173-177
    • Schloter, M.1    Borlinghaus, R.2    Bode, W.3    Hartmann, A.4
  • 322
    • 0030956188 scopus 로고    scopus 로고
    • Root colonization of different plants by plant-growth-promoting Rhizobium leguminosarum bv. Trifolii R39 studied with monospecific polyclonal antisera
    • Schloter M, Wiehe W, Assmus B, Steindl H, Becke H, Höflich G, Hartmann A (1997) Root colonization of different plants by plant-growth-promoting Rhizobium leguminosarum bv. trifolii R39 studied with monospecific polyclonal antisera. Appl Environ Microbiol 63:2038–2046
    • (1997) Appl Environ Microbiol , vol.63 , pp. 2038-2046
    • Schloter, M.1    Wiehe, W.2    Assmus, B.3    Steindl, H.4    Becke, H.5    Höflich, G.6    Hartmann, A.7
  • 323
    • 0040737625 scopus 로고    scopus 로고
    • In situ identification of cyanobacteria with horseradish peroxidase-labeled, rRNA-targeted oligonucleotide probes
    • Schönhuber M, Zarda B, Eix S, Rippka R, Herdmann M, Ludwig W, Amann R (1999) In situ identification of cyanobacteria with horseradish peroxidase-labeled, rRNA-targeted oligonucleotide probes. Appl Environ Microbiol 65:1259–1267
    • (1999) Appl Environ Microbiol , vol.65 , pp. 1259-1267
    • Schönhuber, M.1    Zarda, B.2    Eix, S.3    Rippka, R.4    Herdmann, M.5    Ludwig, W.6    Amann, R.7
  • 324
    • 0342711280 scopus 로고    scopus 로고
    • Improved sensitivity of whole-cell hybridization by the combination of horseradish peroxidase-labeled oligonucleotides and tyramide signal amplification
    • Schönhuber W, Fuchs B, Juretschko S, Amann R (1997) Improved sensitivity of whole-cell hybridization by the combination of horseradish peroxidase-labeled oligonucleotides and tyramide signal amplification. Appl Environ Microbiol 63:3268–3273
    • (1997) Appl Environ Microbiol , vol.63 , pp. 3268-3273
    • Schönhuber, W.1    Fuchs, B.2    Juretschko, S.3    Amann, R.4
  • 325
    • 0029659250 scopus 로고    scopus 로고
    • Structure and function of a nitrifying biofilm as determined by in situ hybridization and the use of microelectrodes
    • Schramm A, Larsen LH, Revsbech NP, Ramsing NB, Amann R, Schleifer K-H (1996) Structure and function of a nitrifying biofilm as determined by in situ hybridization and the use of microelectrodes. Appl Environ Microbiol 62:4641–4647
    • (1996) Appl Environ Microbiol , vol.62 , pp. 4641-4647
    • Schramm, A.1    Larsen, L.H.2    Revsbech, N.P.3    Ramsing, N.B.4    Amann, R.5    Schleifer, K.-H.6
  • 327
    • 0037882329 scopus 로고    scopus 로고
    • An improved protocol for quantification of freshwater Actinobacteria by fluorescence in situ hybridization
    • Sekar R, Pernthaler A, Warnecke F, Posch T, Amann R (2003) An improved protocol for quantification of freshwater Actinobacteria by fluorescence in situ hybridization. Appl Environ Microbiol 69:2928–2935
    • (2003) Appl Environ Microbiol , vol.69 , pp. 2928-2935
    • Sekar, R.1    Pernthaler, A.2    Warnecke, F.3    Posch, T.4    Amann, R.5
  • 329
    • 0035073753 scopus 로고    scopus 로고
    • Are the actively respiring cells (CTC+) those responsible for bacterial production in aquatic environments?
    • Servais P, Agogue H, Courties C, Joux F, Lebaron P (2001) Are the actively respiring cells (CTC+) those responsible for bacterial production in aquatic environments? FEMS Microbiol Ecol 35:171–179
    • (2001) FEMS Microbiol Ecol , vol.35 , pp. 171-179
    • Servais, P.1    Agogue, H.2    Courties, C.3    Joux, F.4    Lebaron, P.5
  • 330
    • 0033458802 scopus 로고    scopus 로고
    • An in vivo membrane fusion assay implicates SpoIIIE in the final stages of engulfment during Bacillus subtilis sporulation
    • Sharp MD, Pogliano K (1999) An in vivo membrane fusion assay implicates SpoIIIE in the final stages of engulfment during Bacillus subtilis sporulation. Proc Natl Acad Sci 96:14553–14558
    • (1999) Proc Natl Acad Sci , vol.96 , pp. 14553-14558
    • Sharp, M.D.1    Pogliano, K.2
  • 331
    • 33746044531 scopus 로고    scopus 로고
    • Method for assessment of viability and morphological changes of bacteria in the early stage of colony formation on a simulated natural environment
    • Shimomura Y, Ohno R, Kawai F, Kimbara K (2006) Method for assessment of viability and morphological changes of bacteria in the early stage of colony formation on a simulated natural environment. Appl Environ Microbiol 72:5037–5042
    • (2006) Appl Environ Microbiol , vol.72 , pp. 5037-5042
    • Shimomura, Y.1    Ohno, R.2    Kawai, F.3    Kimbara, K.4
  • 333
    • 0024445774 scopus 로고
    • Evaluation of automated threshold selection methods for accurately sizing microscopic fluorescent cells by image analysis
    • Sieracki ME, Reichenbach SE, Webb KL (1989) Evaluation of automated threshold selection methods for accurately sizing microscopic fluorescent cells by image analysis. Appl Environ Microbiol 55:2762–2772
    • (1989) Appl Environ Microbiol , vol.55 , pp. 2762-2772
    • Sieracki, M.E.1    Reichenbach, S.E.2    Webb, K.L.3
  • 336
    • 33750967657 scopus 로고    scopus 로고
    • Quantifying substrate uptake by individual cells of marine bacterioplankton by catalyzed reporter deposition fluorescence in situ hybridization combined with microautoradiography
    • Sintes E, Herndl GJ (2006) Quantifying substrate uptake by individual cells of marine bacterioplankton by catalyzed reporter deposition fluorescence in situ hybridization combined with microautoradiography. Appl Environ Microbiol 72:7022–7028
    • (2006) Appl Environ Microbiol , vol.72 , pp. 7022-7028
    • Sintes, E.1    Herndl, G.J.2
  • 339
    • 0033108163 scopus 로고    scopus 로고
    • Phylogeny and in situ identification of a morphologically conspicuous bacterium, Candidatus Magnospira bakii, present at very low frequency in activated sludge
    • Snaidr J, Fuchs B, Wallner G, Wagner M, Schleifer K-H, Amann R (1999) Phylogeny and in situ identification of a morphologically conspicuous bacterium, Candidatus Magnospira bakii, present at very low frequency in activated sludge. Environ Microbiol 1:125–135
    • (1999) Environ Microbiol , vol.1 , pp. 125-135
    • Snaidr, J.1    Fuchs, B.2    Wallner, G.3    Wagner, M.4    Schleifer, K.-H.5    Amann, R.6
  • 340
    • 65049084856 scopus 로고    scopus 로고
    • Confocal laser scanning microscopy image analysis for cyanobacterial biomass determined at microscale level in different microbial mats
    • Sole A, Diestra E, Esteve I (2009) Confocal laser scanning microscopy image analysis for cyanobacterial biomass determined at microscale level in different microbial mats. Microb Ecol 57:649–656
    • (2009) Microb Ecol , vol.57 , pp. 649-656
    • Sole, A.1    Diestra, E.2    Esteve, I.3
  • 341
    • 0036001073 scopus 로고    scopus 로고
    • Enrichment versus biofilm culture: A functional and phylogenetic comparison of polycyclic aromatic hydrocarbon-degrading microbial communities
    • Stach JEM, Burns RG (2002) Enrichment versus biofilm culture: a functional and phylogenetic comparison of polycyclic aromatic hydrocarbon-degrading microbial communities. Environ Microbiol 4:169–182
    • (2002) Environ Microbiol , vol.4 , pp. 169-182
    • Stach, J.1    Burns, R.G.2
  • 342
    • 0021779934 scopus 로고
    • Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats
    • Staley JT, Konopka A (1985) Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats. Annu Rev Microbiol 39:321–346
    • (1985) Annu Rev Microbiol , vol.39 , pp. 321-346
    • Staley, J.T.1    Konopka, A.2
  • 343
    • 4143139159 scopus 로고    scopus 로고
    • Screening of lectins for staining lectinspecific glycoconjugates in the EPS of biofilms
    • In: Lens P, Moran AP, Mahony T, Stoodley P, O’Flaherty V, IWA Publishing, UK
    • Staudt C, Horn H, Hempel DC, Neu TR (2003) Screening of lectins for staining lectinspecific glycoconjugates in the EPS of biofilms. In: Lens P, Moran AP, Mahony T, Stoodley P, O’Flaherty V (eds) Biofilms in medicine, industry and environmental technology. IWA Publishing, UK, pp 308–327
    • (2003) Biofilms in Medicine, Industry and Environmental Technology , pp. 308-327
    • Staudt, C.1    Horn, H.2    Hempel, D.C.3    Neu, T.R.4
  • 344
    • 10644238864 scopus 로고    scopus 로고
    • Volumetric measurements of bacterial cells and extracellular polymeric substance glycoconjugates in biofilms
    • Staudt C, Horn H, Hempel DC, Neu TR (2004) Volumetric measurements of bacterial cells and extracellular polymeric substance glycoconjugates in biofilms. Biotechnol Bioeng 88:585–592
    • (2004) Biotechnol Bioeng , vol.88 , pp. 585-592
    • Staudt, C.1    Horn, H.2    Hempel, D.C.3    Neu, T.R.4
  • 346
    • 0033530096 scopus 로고    scopus 로고
    • Bromodeoxyuridine as an alternative to 3H-thymidine for measuring bacterial productivity in aquatic samples
    • Steward GF, Azam F (1999) Bromodeoxyuridine as an alternative to 3H-thymidine for measuring bacterial productivity in aquatic samples. Aquat Microb Ecol 19:57–66
    • (1999) Aquat Microb Ecol , vol.19 , pp. 57-66
    • Steward, G.F.1    Azam, F.2
  • 347
    • 0030613097 scopus 로고    scopus 로고
    • Spatial distribution and coexistance of Klebsiella pneumoniae and Pseudomonas aeruginosa in biofilms
    • Stewart PS, Camper AK, Handran SD, Huang C-T, Warnecke M (1997) Spatial distribution and coexistance of Klebsiella pneumoniae and Pseudomonas aeruginosa in biofilms. Microb Ecol 33:2–10
    • (1997) Microb Ecol , vol.33 , pp. 2-10
    • Stewart, P.S.1    Camper, A.K.2    Handran, S.D.3    Huang, C.-T.4    Warnecke, M.5
  • 348
    • 5444240746 scopus 로고    scopus 로고
    • Mechanism and use of the commercially available viability stain BacLight
    • Stocks SM (2004) Mechanism and use of the commercially available viability stain BacLight. Cytometry Part A 61A:189–195
    • (2004) Cytometry Part A , vol.61A , pp. 189-195
    • Stocks, S.M.1
  • 349
    • 4243062640 scopus 로고    scopus 로고
    • Dynamics in bacterial cell surface properties assessed by fluorescent stains and confocal laser scanning microscopy
    • Stoderegger KE, Herndl GJ (2004) Dynamics in bacterial cell surface properties assessed by fluorescent stains and confocal laser scanning microscopy. Aquat Microb Ecol 36:29–40
    • (2004) Aquat Microb Ecol , vol.36 , pp. 29-40
    • Stoderegger, K.E.1    Herndl, G.J.2
  • 350
    • 0035013977 scopus 로고    scopus 로고
    • The use of blue-excitable nucleic-acid dyes for the detection of bacteria in well water using a simple field fluorometer and a flow cytometer
    • Stopa PJ, Mastromanolis SA (2001) The use of blue-excitable nucleic-acid dyes for the detection of bacteria in well water using a simple field fluorometer and a flow cytometer. J Microbiol Methods 45:143–153
    • (2001) J Microbiol Methods , vol.45 , pp. 143-153
    • Stopa, P.J.1    Mastromanolis, S.A.2
  • 351
    • 0242684458 scopus 로고    scopus 로고
    • Visualization of alginate-poly-Llysine- alginate microcapsules by confocal laser scanning microscopy
    • Strand BL, Mörch YA, Espevik T, Skjak-Brak G (2003) Visualization of alginate-poly-Llysine- alginate microcapsules by confocal laser scanning microscopy. Biotechnol Bioeng 82:386–394
    • (2003) Biotechnol Bioeng , vol.82 , pp. 386-394
    • Strand, B.L.1    Mörch, Y.A.2    Espevik, T.3    Skjak-Brak, G.4
  • 352
    • 0036273381 scopus 로고    scopus 로고
    • Application of fluorescently labelled lectins for the visualization and biochemical characterization of polysaccharides in biofilms of Pseudomonas aeruginosa
    • Strathmann M, Wingender J, Flemming H-C (2002) Application of fluorescently labelled lectins for the visualization and biochemical characterization of polysaccharides in biofilms of Pseudomonas aeruginosa. J Microbiol Methods 50:237–248
    • (2002) J Microbiol Methods , vol.50 , pp. 237-248
    • Strathmann, M.1    Wingender, J.2    Flemming, H.-C.3
  • 353
    • 77954260898 scopus 로고    scopus 로고
    • Viability states of bacteria—specific mechanisms of selected probes
    • Sträuber H, Müller S (2010) Viability states of bacteria—specific mechanisms of selected probes. Cytometry Part A 77A:623–634
    • (2010) Cytometry Part A , vol.77A , pp. 623-634
    • Sträuber, H.1    Müller, S.2
  • 354
    • 0031816320 scopus 로고    scopus 로고
    • Use of green fluorescent protein to tag and investigate gene expression in marine bacteria
    • Stretton S, Techkarnjanaruk S, McLennan AM, Goodman AE (1998) Use of green fluorescent protein to tag and investigate gene expression in marine bacteria. Appl Environ Microbiol 64:2554–2559
    • (1998) Appl Environ Microbiol , vol.64 , pp. 2554-2559
    • Stretton, S.1    Techkarnjanaruk, S.2    McLennan, A.M.3    Goodman, A.E.4
  • 355
    • 0344211427 scopus 로고    scopus 로고
    • Spectral imaging detection and counting of microbial cells in marine sediment
    • Sunamura M, Maruyama A, Tsuji T, Kurane R (2003) Spectral imaging detection and counting of microbial cells in marine sediment. J Microbiol Methods 53:57–65
    • (2003) J Microbiol Methods , vol.53 , pp. 57-65
    • Sunamura, M.1    Maruyama, A.2    Tsuji, T.3    Kurane, R.4
  • 356
    • 10144257174 scopus 로고    scopus 로고
    • The use of confocal scanning microscopy and other tools to characterize Escherichia coli in a high-cell-density synthetic biofilm
    • Swope KL, Flickinger MC (1996) The use of confocal scanning microscopy and other tools to characterize Escherichia coli in a high-cell-density synthetic biofilm. Biotechnol Bioeng 52:340–356
    • (1996) Biotechnol Bioeng , vol.52 , pp. 340-356
    • Swope, K.L.1    Flickinger, M.C.2
  • 357
    • 0031877432 scopus 로고    scopus 로고
    • Time-gated fluorescence lifetime imaging and microvolume spectroscopy using two-photon excitation
    • Sytsma J, Vroom JM, Grauw dCJ, Gerritsen HC (1998) Time-gated fluorescence lifetime imaging and microvolume spectroscopy using two-photon excitation. J Microsc 191:39–51
    • (1998) J Microsc , vol.191 , pp. 39-51
    • Sytsma, J.1    Vroom, J.M.2    Grauw, D.3    Gerritsen, H.C.4
  • 358
    • 77954260426 scopus 로고    scopus 로고
    • Phylotype-specific growth rates of marine bacteria measured by bromodeoxyuridine immunocytochemistry and fluorescence in situ hybridisation
    • Tada Y, Taniguchi A, Hamasaki K (2010) Phylotype-specific growth rates of marine bacteria measured by bromodeoxyuridine immunocytochemistry and fluorescence in situ hybridisation. Aquat Microb Ecol 59:229–238
    • (2010) Aquat Microb Ecol , vol.59 , pp. 229-238
    • Tada, Y.1    Taniguchi, A.2    Hamasaki, K.3
  • 359
    • 33751003257 scopus 로고    scopus 로고
    • Spatiometabolic stratification of Shewanella oneidensis biofilms
    • Teal TK, Lies DP, Wold BJ, Newman DK (2006) Spatiometabolic stratification of Shewanella oneidensis biofilms. Appl Environ Microbiol 72:7324–7330
    • (2006) Appl Environ Microbiol , vol.72 , pp. 7324-7330
    • Teal, T.K.1    Lies, D.P.2    Wold, B.J.3    Newman, D.K.4
  • 360
    • 0037393129 scopus 로고    scopus 로고
    • Heavy metal resistance of biofilm and planktonic Pseudomonas aeruginosa
    • Teitzel GM, Parsek MR (2003) Heavy metal resistance of biofilm and planktonic Pseudomonas aeruginosa. Appl Environ Microbiol 69:2313–2320
    • (2003) Appl Environ Microbiol , vol.69 , pp. 2313-2320
    • Teitzel, G.M.1    Parsek, M.R.2
  • 361
    • 0033572433 scopus 로고    scopus 로고
    • Confocal scanning laser microscopy as a tool for the determination of 3D floc structure
    • Thill A, Wagner M, Bottero JY (1999) Confocal scanning laser microscopy as a tool for the determination of 3D floc structure. J Colloid Interface Sci 220:465–467
    • (1999) J Colloid Interface Sci , vol.220 , pp. 465-467
    • Thill, A.1    Wagner, M.2    Bottero, J.Y.3
  • 362
    • 49449108621 scopus 로고    scopus 로고
    • Regulation of autolysis-dependent extracellular DNA release by Enterococcus faecalis extracellular proteases influences biofilm development
    • Thomas VC, Thurlow LR, Boyle D, Hancock LE (2008) Regulation of autolysis-dependent extracellular DNA release by Enterococcus faecalis extracellular proteases influences biofilm development. Appl Environ Microbiol 190:5690–5698
    • (2008) Appl Environ Microbiol , vol.190 , pp. 5690-5698
    • Thomas, V.C.1    Thurlow, L.R.2    Boyle, D.3    Hancock, L.E.4
  • 363
    • 0346099178 scopus 로고    scopus 로고
    • Multiplex FISH analysis of a six-species bacterial biofilm
    • Thurnheer T, Gmür R, Guggenheim B (2004) Multiplex FISH analysis of a six-species bacterial biofilm. J Microbiol Methods 56:37–47
    • (2004) J Microbiol Methods , vol.56 , pp. 37-47
    • Thurnheer, T.1    Gmür, R.2    Guggenheim, B.3
  • 364
    • 0037338216 scopus 로고    scopus 로고
    • Mass transport of macromolecules within an invitro model of supragingival plaque
    • Thurnheer T, Gmür R, Shapiro S, Guggenheim B (2003) Mass transport of macromolecules within an invitro model of supragingival plaque. Appl Environ Microbiol 69:1702–1709
    • (2003) Appl Environ Microbiol , vol.69 , pp. 1702-1709
    • Thurnheer, T.1    Gmür, R.2    Shapiro, S.3    Guggenheim, B.4
  • 367
    • 0033793385 scopus 로고    scopus 로고
    • Spatial organization of microbial biofilm communities
    • Tolker-Nielsen T, Molin S (2000) Spatial organization of microbial biofilm communities. Microb Ecol 40:75–84
    • (2000) Microb Ecol , vol.40 , pp. 75-84
    • Tolker-Nielsen, T.1    Molin, S.2
  • 368
    • 0031410825 scopus 로고    scopus 로고
    • Rapid fluorometric assay of bacterial density in lake water and seawater
    • Tranvik LJ (1997) Rapid fluorometric assay of bacterial density in lake water and seawater. Limnol Oceanogr 42:1629–1634
    • (1997) Limnol Oceanogr , vol.42 , pp. 1629-1634
    • Tranvik, L.J.1
  • 369
    • 0032814029 scopus 로고    scopus 로고
    • Flow cytometric discrimination of bacterial populations in seawater based on SYTO 13 staining of nucleic acid
    • Troussellier M, Courties C, Lebaron P, Servais P (1999) Flow cytometric discrimination of bacterial populations in seawater based on SYTO 13 staining of nucleic acid. FEMS Microbiol Ecol 29:319–330
    • (1999) FEMS Microbiol Ecol , vol.29 , pp. 319-330
    • Troussellier, M.1    Courties, C.2    Lebaron, P.3    Servais, P.4
  • 371
    • 41049088143 scopus 로고    scopus 로고
    • Mass transfer limit of fluorescent dyes during multicolor staining of aerobic granules
    • Tsai M-W, Lee D-J, Lai J-Y (2008) Mass transfer limit of fluorescent dyes during multicolor staining of aerobic granules. Appl Microbiol Biotechnol 78:907–913
    • (2008) Appl Microbiol Biotechnol , vol.78 , pp. 907-913
    • Tsai, M.-W.1    Lee, D.-J.2    Lai, J.-Y.3
  • 372
    • 33947307349 scopus 로고    scopus 로고
    • Development of high-rate anaerobic ammonium-oxidizing (Anammox) biofilm reactors
    • Tsushima I, Ogasawara Y, Kindaichi T, Satoh H, Okabe S (2007) Development of high-rate anaerobic ammonium-oxidizing (anammox) biofilm reactors. Water Res 41:1623–1634
    • (2007) Water Res , vol.41 , pp. 1623-1634
    • Tsushima, I.1    Ogasawara, Y.2    Kindaichi, T.3    Satoh, H.4    Okabe, S.5
  • 374
    • 0029958586 scopus 로고    scopus 로고
    • Toxic effects on bacterial metabolism of the redox dye 5-cyano-2,3-ditolyl tetrazolium chloride
    • Ullrich S, Karrasch B, Hoppe H-G, Jeksulke K, Mehrens M (1996) Toxic effects on bacterial metabolism of the redox dye 5-cyano-2,3-ditolyl tetrazolium chloride. Appl Environ Microbiol 62:4587–4593
    • (1996) Appl Environ Microbiol , vol.62 , pp. 4587-4593
    • Ullrich, S.1    Karrasch, B.2    Hoppe, H.-G.3    Jeksulke, K.4    Mehrens, M.5
  • 375
    • 0034967592 scopus 로고    scopus 로고
    • Monitoring population size, activity, and distribution of gfpluxAB- tagged Pseudomonas fluorescens SBW25 during colonization of wheat
    • Unge A, Jansson J (2001) Monitoring population size, activity, and distribution of gfpluxAB- tagged Pseudomonas fluorescens SBW25 during colonization of wheat. Microb Ecol 41:290–300
    • (2001) Microb Ecol , vol.41 , pp. 290-300
    • Unge, A.1    Jansson, J.2
  • 376
    • 0033030154 scopus 로고    scopus 로고
    • Immunochemical detection and isolation of DNA from metabolically active bacteria
    • Urbach E, Vergin KL, Giovannoni SJ (1999) Immunochemical detection and isolation of DNA from metabolically active bacteria. Appl Environ Microbiol 65:1207–1213
    • (1999) Appl Environ Microbiol , vol.65 , pp. 1207-1213
    • Urbach, E.1    Vergin, K.L.2    Giovannoni, S.J.3
  • 379
    • 0036433011 scopus 로고    scopus 로고
    • Determination of the water droplet size distribution of fats spreads using confocal scanning laser microscopy
    • (2002) J Microsc , vol.208 , pp. 116-133
    • Van Dalen, G.1
  • 380
    • 0042161821 scopus 로고    scopus 로고
    • Visualisation of biopolymer mixtures using confocal scanning laser microscopy (CSLM) and covalent labelling techniques. Colloids Surf
    • van de Velde F, Weinbreck F, Edelman MW, van der Linden E, Tromp RH (2003) Visualisation of biopolymer mixtures using confocal scanning laser microscopy (CSLM) and covalent labelling techniques. Colloids Surf, B 31:159–168
    • (2003) Colloids Surf, B , vol.31 , pp. 159-168
    • Van De Velde, F.1    Weinbreck, F.2    Edelman, M.W.3    Van Der Linden, E.4    Tromp, R.H.5
  • 382
    • 84855300102 scopus 로고    scopus 로고
    • Determining the mechanisms for aerobic granulation from mixed seed of floccular and crushed granules in activated sludge wastewater treatment
    • Verawaty M, Pijuan M, Yuan Z, Bond PL (2012) Determining the mechanisms for aerobic granulation from mixed seed of floccular and crushed granules in activated sludge wastewater treatment. Water Res 46:761–771
    • (2012) Water Res , vol.46 , pp. 761-771
    • Verawaty, M.1    Pijuan, M.2    Yuan, Z.3    Bond, P.L.4
  • 383
    • 65549121060 scopus 로고    scopus 로고
    • DNA as an adhesin: Bacillus cereus requires extracellular DNA to form biofilms
    • Vilain S, Pretorius JM, Theron J, Brözel VS (2009) DNA as an adhesin: Bacillus cereus requires extracellular DNA to form biofilms. Appl Environ Microbiol 75:2861–2868
    • (2009) Appl Environ Microbiol , vol.75 , pp. 2861-2868
    • Vilain, S.1    Pretorius, J.M.2    Theron, J.3    Brözel, V.S.4
  • 385
    • 0027985268 scopus 로고
    • Flow cytometric narrow-angle light scatter and cell size during starvation of Escherichia coli in artificial seawater
    • Vives-Rego J, Lopez-Amoros R, Comas J (1994) Flow cytometric narrow-angle light scatter and cell size during starvation of Escherichia coli in artificial seawater. Lett Appl Microbiol 19:374–376
    • (1994) Lett Appl Microbiol , vol.19 , pp. 374-376
    • Vives-Rego, J.1    Lopez-Amoros, R.2    Comas, J.3
  • 386
    • 0028569160 scopus 로고
    • In situ analysis of microbial consortia in activated sludge using fluorescently labelled, rRNA-targeted oligonucleotide probes and confocal laser scanning microscopy
    • Wagner M, Assmus B, Hartmann A, Hutzler P, Amann R (1994) In situ analysis of microbial consortia in activated sludge using fluorescently labelled, rRNA-targeted oligonucleotide probes and confocal laser scanning microscopy. J Microsc 176:181–187
    • (1994) J Microsc , vol.176 , pp. 181-187
    • Wagner, M.1    Assmus, B.2    Hartmann, A.3    Hutzler, P.4    Amann, R.5
  • 387
    • 77956259301 scopus 로고    scopus 로고
    • Online monitoring of biofilm development, sloughing and forced detachment in tube reactor by means of magnetic resonance microscopy
    • Wagner M, Manz B, Volke F, Neu TR, Horn H (2010) Online monitoring of biofilm development, sloughing and forced detachment in tube reactor by means of magnetic resonance microscopy. Biotechnol Bioeng 107:172–181
    • (2010) Biotechnol Bioeng , vol.107 , pp. 172-181
    • Wagner, M.1    Manz, B.2    Volke, F.3    Neu, T.R.4    Horn, H.5
  • 389
    • 0033983592 scopus 로고    scopus 로고
    • Mass sedimentation of picoplankton embedded in organic aggregates
    • Waite AM, Safi KA, Hall JA, Nodder SD (2000) Mass sedimentation of picoplankton embedded in organic aggregates. Limnol Oceanogr 45:87–97
    • (2000) Limnol Oceanogr , vol.45 , pp. 87-97
    • Waite, A.M.1    Safi, K.A.2    Hall, J.A.3    Nodder, S.D.4
  • 390
    • 33746080907 scopus 로고    scopus 로고
    • Persistence and growth of fecal Bacteroidales assessed by bromodeoxyuridine immunocapture
    • Walters SP, Field KG (2006) Persistence and growth of fecal Bacteroidales assessed by bromodeoxyuridine immunocapture. Appl Environ Microbiol 72:4532–4539
    • (2006) Appl Environ Microbiol , vol.72 , pp. 4532-4539
    • Walters, S.P.1    Field, K.G.2
  • 391
    • 0002882353 scopus 로고
    • Molecular probes for analysis of microbial communities
    • Wilderer P (eds) Structure and function of biofilms. Wiley, New York
    • Ward DM (1989) Molecular probes for analysis of microbial communities. In: Characklis WG, Wilderer P (eds) Structure and function of biofilms. Wiley, New York, pp 145–163
    • (1989) Characklis WG , pp. 145-163
    • Ward, D.M.1
  • 392
    • 0031736602 scopus 로고    scopus 로고
    • Utility of green fluorescent nucleic acid dyes and aluminum oxide membrane filters for rapid epifluorescence enumeration of soil and sediment bacteria
    • Weinbauer MG, Beckmann C, Höfle MG (1998) Utility of green fluorescent nucleic acid dyes and aluminum oxide membrane filters for rapid epifluorescence enumeration of soil and sediment bacteria. Appl Environ Microbiol 64:5000–5003
    • (1998) Appl Environ Microbiol , vol.64 , pp. 5000-5003
    • Weinbauer, M.G.1    Beckmann, C.2    Höfle, M.G.3
  • 394
    • 25144476612 scopus 로고    scopus 로고
    • Grazing resistance of Pseudomonas aeruginosa biofilms depends on type of protective mechanism, developmental stage and protozoan feeding mode
    • Weitere M, Bergfeld T, Rice SA, Matz C, Kjelleberg S (2005) Grazing resistance of Pseudomonas aeruginosa biofilms depends on type of protective mechanism, developmental stage and protozoan feeding mode. Environ Microbiol 7:1593–1601
    • (2005) Environ Microbiol , vol.7 , pp. 1593-1601
    • Weitere, M.1    Bergfeld, T.2    Rice, S.A.3    Matz, C.4    Kjelleberg, S.5
  • 396
    • 53849087161 scopus 로고    scopus 로고
    • Effects of protozoan grazing within river biofilms under semi-natural conditions
    • Wey JK, Scherwass A, Norf H, Arndt H, Weitere M (2008) Effects of protozoan grazing within river biofilms under semi-natural conditions. Aquat Microb Ecol 52:283–296
    • (2008) Aquat Microb Ecol , vol.52 , pp. 283-296
    • Wey, J.K.1    Scherwass, A.2    Norf, H.3    Arndt, H.4    Weitere, M.5
  • 397
    • 84857870139 scopus 로고    scopus 로고
    • Seasonal and successional influences on bacterial community composition exceed that of protozoan grazing in river biofilms
    • Wey JK, Jürgens K, Weitere M (2012) Seasonal and successional influences on bacterial community composition exceed that of protozoan grazing in river biofilms. Appl Environ Microbiol 78:2013–2024
    • (2012) Appl Environ Microbiol , vol.78 , pp. 2013-2024
    • Wey, J.K.1    Jürgens, K.2    Weitere, M.3
  • 401
    • 4744372506 scopus 로고    scopus 로고
    • Viability of endolithic microorganisms in rocks from the McMurdo Dry Valley of Antarctica established by confocal and fluorecence microscopy
    • Wierzchos J, de los Rios A, Sancho LG, Ascaso C (2004) Viability of endolithic microorganisms in rocks from the McMurdo Dry Valley of Antarctica established by confocal and fluorecence microscopy. J Microsc 216:57–61
    • (2004) J Microsc , vol.216 , pp. 57-61
    • Wierzchos, J.1    De Los Rios, A.2    Sancho, L.G.3    Ascaso, C.4
  • 402
    • 10044277679 scopus 로고    scopus 로고
    • Use of fluorophore-conjugated lectins to study cell–cell interactions in model marine biofilms
    • Wigglesworth-Cooksey B, Cooksey KE (2005) Use of fluorophore-conjugated lectins to study cell–cell interactions in model marine biofilms. Appl Environ Microbiol 71:428–435
    • (2005) Appl Environ Microbiol , vol.71 , pp. 428-435
    • Wigglesworth-Cooksey, B.1    Cooksey, K.E.2
  • 403
    • 0033012187 scopus 로고    scopus 로고
    • Reflectance spectroscopy and laser confocal microscopy as tools in an ecophysiological study of microbial mats in an alpine bog pond
    • Wiggli M, Smallcombe A, Bachofen R (1999) Reflectance spectroscopy and laser confocal microscopy as tools in an ecophysiological study of microbial mats in an alpine bog pond. J Microbiol Methods 34:173–182
    • (1999) J Microbiol Methods , vol.34 , pp. 173-182
    • Wiggli, M.1    Smallcombe, A.2    Bachofen, R.3
  • 404
    • 0033928538 scopus 로고    scopus 로고
    • Growth and novel structural features of tubular biofilms produced under different hydrodynamic conditions
    • Wijeyekoon S, Mino T, Satoh H, Matsuo T (2000) Growth and novel structural features of tubular biofilms produced under different hydrodynamic conditions. Water Sci Technol 41:129–138
    • (2000) Water Sci Technol , vol.41 , pp. 129-138
    • Wijeyekoon, S.1    Mino, T.2    Satoh, H.3    Matsuo, T.4
  • 405
    • 0032076907 scopus 로고    scopus 로고
    • Distinguishing between living and nonliving bacteria: Evaluation of the vital stain propidium iodide and its combined use with molecular probes in aquatic samples
    • Williams SC, Hong Y, Danavall DCA, Howard-Jones MH, Gibson D, Frischer ME, Verity PG (1998) Distinguishing between living and nonliving bacteria: evaluation of the vital stain propidium iodide and its combined use with molecular probes in aquatic samples. J Microbiol Methods 32:225–236
    • (1998) J Microbiol Methods , vol.32 , pp. 225-236
    • Williams, S.C.1    Hong, Y.2    Danavall, D.3    Howard-Jones, M.H.4    Gibson, D.5    Frischer, M.E.6    Verity, P.G.7
  • 406
    • 0034912325 scopus 로고    scopus 로고
    • Selective degradation of ibuprofen and clofibric acid in two model river biofilm systems
    • Winkler M, Lawrence JR, Neu TR (2001) Selective degradation of ibuprofen and clofibric acid in two model river biofilm systems. Water Res 35:3197–3205
    • (2001) Water Res , vol.35 , pp. 3197-3205
    • Winkler, M.1    Lawrence, J.R.2    Neu, T.R.3
  • 407
    • 0028821186 scopus 로고
    • Bioaccumulation of the herbicide diclofop in extracellular polymers and its utilisation by a biofilm community during starvation
    • Wolfaardt GM, Lawrence JR, Robarts RD, Caldwell DE (1995) Bioaccumulation of the herbicide diclofop in extracellular polymers and its utilisation by a biofilm community during starvation. Appl Environ Microbiol 61:152–158
    • (1995) Appl Environ Microbiol , vol.61 , pp. 152-158
    • Wolfaardt, G.M.1    Lawrence, J.R.2    Robarts, R.D.3    Caldwell, D.E.4
  • 408
    • 0031954766 scopus 로고    scopus 로고
    • In situ characterization of biofilm exopolymers involved in the accumulation of chlorinated organics
    • Wolfaardt GM, Lawrence JR, Robarts RD, Caldwell DE (1998) In situ characterization of biofilm exopolymers involved in the accumulation of chlorinated organics. Microb Ecol 35:213–223
    • (1998) Microb Ecol , vol.35 , pp. 213-223
    • Wolfaardt, G.M.1    Lawrence, J.R.2    Robarts, R.D.3    Caldwell, D.E.4
  • 410
    • 78149471433 scopus 로고    scopus 로고
    • A non-invasive fluorescent staining procedure allows Confocal laser scanning microscopy based imaging of Mycobacterium in multispecies biofilms colonizing and degrading polycyclic aromatic hydrocarbons
    • Wouters K, Maes E, Spitz JA, Roeffaers MBJ, Wattiau P, Hofkens J, Springael D (2010) A non-invasive fluorescent staining procedure allows Confocal laser scanning microscopy based imaging of Mycobacterium in multispecies biofilms colonizing and degrading polycyclic aromatic hydrocarbons. J Microbiol Methods 83:317–325
    • (2010) J Microbiol Methods , vol.83 , pp. 317-325
    • Wouters, K.1    Maes, E.2    Spitz, J.A.3    Roeffaers, M.4    Wattiau, P.5    Hofkens, J.6    Springael, D.7
  • 411
    • 42249111033 scopus 로고    scopus 로고
    • Correlative light/electron microscopy for the investigation of microbial mats from Black Sea cold seeps
    • Wrede C, Heller C, Reitner J, Hoppert M (2008) Correlative light/electron microscopy for the investigation of microbial mats from Black Sea cold seeps. J Microbiol Methods 73:85–91
    • (2008) J Microbiol Methods , vol.73 , pp. 85-91
    • Wrede, C.1    Heller, C.2    Reitner, J.3    Hoppert, M.4
  • 412
    • 0034816164 scopus 로고    scopus 로고
    • Objective threshold selection procedure (OTS) for segmentation of scanning laser confocal microscope images
    • Xavier JB, Schnell A, Wuertz S, Palmer R, White DC, Almeida JS (2001) Objective threshold selection procedure (OTS) for segmentation of scanning laser confocal microscope images. J Microbiol Methods 47:169–180
    • (2001) J Microbiol Methods , vol.47 , pp. 169-180
    • Xavier, J.B.1    Schnell, A.2    Wuertz, S.3    Palmer, R.4    White, D.C.5    Almeida, J.S.6
  • 414
    • 79959836714 scopus 로고    scopus 로고
    • Distinct roles of extracellular polymeric substances in Pseudomonas aeruginosa biofilm development
    • Yang L, Hu Y, Liu Y, Zhang J, Ulstrup J, Molin S (2011) Distinct roles of extracellular polymeric substances in Pseudomonas aeruginosa biofilm development. Environ Microbiol 13:1705–1717
    • (2011) Environ Microbiol , vol.13 , pp. 1705-1717
    • Yang, L.1    Hu, Y.2    Liu, Y.3    Zhang, J.4    Ulstrup, J.5    Molin, S.6
  • 415
    • 0035132706 scopus 로고    scopus 로고
    • Evaluation of biofilm image thresholding methods
    • Yang X, Beyenal H, Harkin G, Lewandowski Z (2001) Evaluation of biofilm image thresholding methods. Water Res 35:1149–1158
    • (2001) Water Res , vol.35 , pp. 1149-1158
    • Yang, X.1    Beyenal, H.2    Harkin, G.3    Lewandowski, Z.4
  • 416
    • 34548120576 scopus 로고    scopus 로고
    • A two-step procedure for automatic and accurate segmentation of volumetric CLSMbiofilm images
    • Yerly J, Hu Y, Jones SM, Martinuzzi RJ (2007) A two-step procedure for automatic and accurate segmentation of volumetric CLSMbiofilm images. J Microbiol Methods 70:424–433
    • (2007) J Microbiol Methods , vol.70 , pp. 424-433
    • Yerly, J.1    Hu, Y.2    Jones, S.M.3    Martinuzzi, R.J.4
  • 417
    • 34248515949 scopus 로고    scopus 로고
    • BrdU substrate utilisation assay
    • In: Kowalchuk GA, Bruijn FJd, Head IM, Akkermans ADL, Elsas JDv, Kluwer Academic Publisher, Dordrecht
    • Yin B, Scupham AJ, Bent E, Borneman J (2007) BrdU substrate utilisation assay. In: Kowalchuk GA, Bruijn FJd, Head IM, Akkermans ADL, Elsas JDv (eds) Molecular microbial ecology manual, vol 2. Kluwer Academic Publisher, Dordrecht, pp 1651–1660
    • (2007) Molecular Microbial Ecology Manual , vol.2 , pp. 1651-1660
    • Yin, B.1    Scupham, A.J.2    Bent, E.3    Borneman, J.4
  • 418
    • 0036826938 scopus 로고    scopus 로고
    • Streptococcus mutans biofilm formation: Utilization of a gtfB promotor-green fluorescent protein (PgtfB:Gfp) construct to monitor development
    • Yoshida A, Kuramitsu HK (2002) Streptococcus mutans biofilm formation: utilization of a gtfB promotor-green fluorescent protein (PgtfB:gfp) construct to monitor development. Microbiology 148:3385–3394
    • (2002) Microbiology , vol.148 , pp. 3385-3394
    • Yoshida, A.1    Kuramitsu, H.K.2
  • 419
    • 80055076015 scopus 로고    scopus 로고
    • Multiple fluorescence labeling and two dimensional ftir-13C NMR heterospectral correlation spectroscopy to characterize extracellular polymeric substances in biofilms produced during composting
    • Yu GH, Tang Z, Xu YC, Shen QR (2011) Multiple fluorescence labeling and two dimensional ftir-13C NMR heterospectral correlation spectroscopy to characterize extracellular polymeric substances in biofilms produced during composting. Environ Sci Technol 45:9224–9231
    • (2011) Environ Sci Technol , vol.45 , pp. 9224-9231
    • Yu, G.H.1    Tang, Z.2    Xu, Y.C.3    Shen, Q.R.4
  • 420
    • 77956518721 scopus 로고    scopus 로고
    • Strain-specific colonization pattern of Rhizoctonia antagonists in the root system of sugar beet
    • Zachow C, Fatehi J, Cardinale M, Tilcher R, Berg G (2010) Strain-specific colonization pattern of Rhizoctonia antagonists in the root system of sugar beet. FEMS Microbiol Ecol 74:124–135
    • (2010) FEMS Microbiol Ecol , vol.74 , pp. 124-135
    • Zachow, C.1    Fatehi, J.2    Cardinale, M.3    Tilcher, R.4    Berg, G.5
  • 422
    • 79551485539 scopus 로고    scopus 로고
    • Characterization of glycoconjugates of extracellular polymeric substances in tufa-associated biofilms by using fluorescence lectin-binding analysis
    • Zippel B, Neu TR (2012) Characterization of glycoconjugates of extracellular polymeric substances in tufa-associated biofilms by using fluorescence lectin-binding analysis. Appl Environ Microbiol 77:505–516
    • (2012) Appl Environ Microbiol , vol.77 , pp. 505-516
    • Zippel, B.1    Neu, T.R.2
  • 423
    • 34547575504 scopus 로고    scopus 로고
    • A flow-lane incubator for studying freshwater and marine phototrophic biofilms
    • Zippel B, Rijstenbil J, Neu TR (2007) A flow-lane incubator for studying freshwater and marine phototrophic biofilms. J Microbiol Methods 70:336–345
    • (2007) J Microbiol Methods , vol.70 , pp. 336-345
    • Zippel, B.1    Rijstenbil, J.2    Neu, T.R.3
  • 424
    • 55849100313 scopus 로고    scopus 로고
    • Laser scanning confocal microscopy characterization of water repellent distribution in a sandstone pore network
    • Zoghlami K, Gomez-Gras D, Corbella M, Darragi F (2008) Laser scanning confocal microscopy characterization of water repellent distribution in a sandstone pore network. Microsc Res Tech 71:816–821
    • (2008) Microsc Res Tech , vol.71 , pp. 816-821
    • Zoghlami, K.1    Gomez-Gras, D.2    Corbella, M.3    Darragi, F.4
  • 425
    • 0033050650 scopus 로고    scopus 로고
    • Determination of total protein content of bacterial cells by SYPRO staining and flow cytometry
    • Zubkov MV, Fuchs BM, Eilers H, Burkill PH, Amann R (1999) Determination of total protein content of bacterial cells by SYPRO staining and flow cytometry. Appl Environ Microbiol 65:3251–3257
    • (1999) Appl Environ Microbiol , vol.65 , pp. 3251-3257
    • Zubkov, M.V.1    Fuchs, B.M.2    Eilers, H.3    Burkill, P.H.4    Amann, R.5


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