메뉴 건너뛰기




Volumn 4, Issue 5, 2011, Pages 585-602

Oligonucleotide primers, probes and molecular methods for the environmental monitoring of methanogenic archaea

Author keywords

[No Author keywords available]

Indexed keywords

ISOTOPE; OLIGONUCLEOTIDE; RIBONUCLEASE; RNA 16S;

EID: 84860424247     PISSN: 17517907     EISSN: 17517915     Source Type: Journal    
DOI: 10.1111/j.1751-7915.2010.00239.x     Document Type: Short Survey
Times cited : (68)

References (157)
  • 1
    • 33644869355 scopus 로고    scopus 로고
    • Microbiological investigation of methane- and hydrocarbon-discharging mud volcanoes in the Carpathian Mountains, Romania
    • Alain, K., Holler, T., Musat, F., Elvert, M., Treude, T., and Kruger, M. (2006) Microbiological investigation of methane- and hydrocarbon-discharging mud volcanoes in the Carpathian Mountains, Romania. Environ Microbiol 8: 574-590.
    • (2006) Environ Microbiol , vol.8 , pp. 574-590
    • Alain, K.1    Holler, T.2    Musat, F.3    Elvert, M.4    Treude, T.5    Kruger, M.6
  • 2
    • 0028946084 scopus 로고
    • Phylogenetic identification and in-situ detection of individual microbial-cells without cultivation
    • Amann, R.I., Ludwig, W., and Schleifer, K.H. (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.I.1    Ludwig, W.2    Schleifer, K.H.3
  • 3
    • 33847631292 scopus 로고    scopus 로고
    • Functional bacterial and archaeal community structures of major trophic groups in a full-scale anaerobic sludge digester
    • Ariesyady, H.D., Ito, T., and Okabe, S. (2007) Functional bacterial and archaeal community structures of major trophic groups in a full-scale anaerobic sludge digester. Water Res 41: 1554-1568.
    • (2007) Water Res , vol.41 , pp. 1554-1568
    • Ariesyady, H.D.1    Ito, T.2    Okabe, S.3
  • 4
    • 70349631208 scopus 로고    scopus 로고
    • Monitoring bacterial community of human gut microbiota reveals an increase in Lactobacillus in obese patients and methanogens in anorexic patients
    • doi:7110.1371/journal.pone.0007125.
    • Armougom, F., Henry, M., Vialettes, B., Raccah, D., and Raoult, D. (2009) Monitoring bacterial community of human gut microbiota reveals an increase in Lactobacillus in obese patients and methanogens in anorexic patients. PLoS ONE 4: e7125. doi:7110.1371/journal.pone.0007125.
    • (2009) PLoS ONE , vol.4
    • Armougom, F.1    Henry, M.2    Vialettes, B.3    Raccah, D.4    Raoult, D.5
  • 6
    • 0028343555 scopus 로고
    • Remarkable archaeal diversity detected in a Yellowstone National Park hot-spring environment
    • Barns, S.M., Fundyga, R.E., Jeffries, M.W., and Pace, N.R. (1994) Remarkable archaeal diversity detected in a Yellowstone National Park hot-spring environment. Proc Natl Acad Sci USA 91: 1609-1613.
    • (1994) Proc Natl Acad Sci USA , vol.91 , pp. 1609-1613
    • Barns, S.M.1    Fundyga, R.E.2    Jeffries, M.W.3    Pace, N.R.4
  • 7
    • 18844481026 scopus 로고    scopus 로고
    • A marine microbial consortium apparently mediating anaerobic oxidation of methane
    • Boetius, A., Ravenschlag, K., Schubert, C.J., Rickert, D., Widdel, F., Gieseke, A., etal. (2000) A marine microbial consortium apparently mediating anaerobic oxidation of methane. Nature 407: 623-626.
    • (2000) Nature , vol.407 , pp. 623-626
    • Boetius, A.1    Ravenschlag, K.2    Schubert, C.J.3    Rickert, D.4    Widdel, F.5    Gieseke, A.6
  • 8
    • 34447118357 scopus 로고    scopus 로고
    • Molecular monitoring of microbial population dynamics during operational periods of anaerobic hybrid reactor treating cassava starch wastewater
    • Boonapatcharoen, N., Meepian, K., Chaiprasert, P., and Techkarnjanaruk, S. (2007) Molecular monitoring of microbial population dynamics during operational periods of anaerobic hybrid reactor treating cassava starch wastewater. Microb Ecol 54: 21-30.
    • (2007) Microb Ecol , vol.54 , pp. 21-30
    • Boonapatcharoen, N.1    Meepian, K.2    Chaiprasert, P.3    Techkarnjanaruk, S.4
  • 9
    • 33746156423 scopus 로고    scopus 로고
    • Isolation of a novel acidiphilic methanogen from an acidic peat bog
    • Bräuer, S.L., Cadillo-Quiroz, H., Yashiro, E., Yavitt, J.B., and Zinder, S.H. (2006) Isolation of a novel acidiphilic methanogen from an acidic peat bog. Nature 442: 192-194.
    • (2006) Nature , vol.442 , pp. 192-194
    • Bräuer, S.L.1    Cadillo-Quiroz, H.2    Yashiro, E.3    Yavitt, J.B.4    Zinder, S.H.5
  • 10
    • 84872009930 scopus 로고    scopus 로고
    • Methanoregula boonei gen. nov., sp. nov., an acidiphilic methanogen isolated from an acidic peat bog
    • (in press): doi:10.1099/ijs.1090.021782-021780.
    • Bräuer, S.L., Cadillo-Quiroz, H., Ward, R.J., Yavitt, J., and Zinder, S. (2010) Methanoregula boonei gen. nov., sp. nov., an acidiphilic methanogen isolated from an acidic peat bog. Int J Syst Evol Microbiol (in press): doi:10.1099/ijs.1090.021782-021780.
    • (2010) Int J Syst Evol Microbiol
    • Bräuer, S.L.1    Cadillo-Quiroz, H.2    Ward, R.J.3    Yavitt, J.4    Zinder, S.5
  • 11
    • 76549087358 scopus 로고    scopus 로고
    • Archaea and bacteria with surprising microdiversity show shifts in dominance over 1,000-year time scales in hydrothermal chimneys
    • Brazelton, W.J., Ludwig, K.A., Sogin, M.L., Andreishcheva, E.N., Kelley, D.S., Shen, C.C., etal. (2010a) Archaea and bacteria with surprising microdiversity show shifts in dominance over 1, 000-year time scales in hydrothermal chimneys. Proc Natl Acad Sci USA 107: 1612-1617.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 1612-1617
    • Brazelton, W.J.1    Ludwig, K.A.2    Sogin, M.L.3    Andreishcheva, E.N.4    Kelley, D.S.5    Shen, C.C.6
  • 12
    • 78649701357 scopus 로고    scopus 로고
    • Multiple scales of diversification within natural populations of archaea in hydrothermal chimney biofilms
    • Brazelton, W.J., Sogin, M.L., and Baross, J.A. (2010b) Multiple scales of diversification within natural populations of archaea in hydrothermal chimney biofilms. Environ Microbiol Rep 2: 236-242.
    • (2010) Environ Microbiol Rep , vol.2 , pp. 236-242
    • Brazelton, W.J.1    Sogin, M.L.2    Baross, J.A.3
  • 13
    • 67649787310 scopus 로고    scopus 로고
    • Methanosphaerula palustris gen. nov., sp nov., a hydrogenotrophic methanogen isolated from a minerotrophic fen peatland
    • Cadillo-Quiroz, H., Yavitt, J.B., and Zinder, S.H. (2009) Methanosphaerula palustris gen. nov., sp nov., a hydrogenotrophic methanogen isolated from a minerotrophic fen peatland. Int J Syst Evol Microbiol 59: 928-935.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 928-935
    • Cadillo-Quiroz, H.1    Yavitt, J.B.2    Zinder, S.H.3
  • 15
    • 0035965093 scopus 로고    scopus 로고
    • Composition and temporal dynamics of planktonic archaeal assemblages from anaerobic sulfurous environments studied by 16S rDNA denaturing gradient gel electrophoresis and sequencing
    • Casamayor, E.O., Muyzer, G., and Pedros-Alio, C. (2001) Composition and temporal dynamics of planktonic archaeal assemblages from anaerobic sulfurous environments studied by 16S rDNA denaturing gradient gel electrophoresis and sequencing. Aquat Microb Ecol 25: 237-246.
    • (2001) Aquat Microb Ecol , vol.25 , pp. 237-246
    • Casamayor, E.O.1    Muyzer, G.2    Pedros-Alio, C.3
  • 16
    • 0035984122 scopus 로고    scopus 로고
    • Changes in archaeal, bacterial and eukaryal assemblages along a salinity gradient by comparison of genetic fingerprinting methods in a multipond solar saltern
    • Casamayor, E.O., Massana, R., Benlloch, S., Ovreas, L., Diez, B., Goddard, V.J., etal. (2002) Changes in archaeal, bacterial and eukaryal assemblages along a salinity gradient by comparison of genetic fingerprinting methods in a multipond solar saltern. Environ Microbiol 4: 338-348.
    • (2002) Environ Microbiol , vol.4 , pp. 338-348
    • Casamayor, E.O.1    Massana, R.2    Benlloch, S.3    Ovreas, L.4    Diez, B.5    Goddard, V.J.6
  • 17
    • 8744293847 scopus 로고    scopus 로고
    • Phylogenetic characterization of methanogenic assemblages in eutrophic and oligotrophic areas of the Florida Everglades
    • Castro, H., Ogram, A., and Reddy, K.R. (2004) Phylogenetic characterization of methanogenic assemblages in eutrophic and oligotrophic areas of the Florida Everglades. Appl Environ Microbiol 70: 6559-6568.
    • (2004) Appl Environ Microbiol , vol.70 , pp. 6559-6568
    • Castro, H.1    Ogram, A.2    Reddy, K.R.3
  • 18
    • 70349917803 scopus 로고    scopus 로고
    • Characterization of active microbes in a full-scale anaerobic fluidized bed reactor treating phenolic wastewater
    • Chen, C.L., Wu, J.H., Tseng, I.C., Liang, T.M., and Liu, W.T. (2009) Characterization of active microbes in a full-scale anaerobic fluidized bed reactor treating phenolic wastewater. Microbes Environ 24: 144-153.
    • (2009) Microbes Environ , vol.24 , pp. 144-153
    • Chen, C.L.1    Wu, J.H.2    Tseng, I.C.3    Liang, T.M.4    Liu, W.T.5
  • 19
    • 22744444875 scopus 로고    scopus 로고
    • Novel predominant archaeal and bacterial groups revealed by molecular analysis of an anaerobic sludge digester
    • Chouari, R., Le Paslier, D., Daegelen, P., Ginestet, P., Weissenbach, J., and Sghir, A. (2005) Novel predominant archaeal and bacterial groups revealed by molecular analysis of an anaerobic sludge digester. Environ Microbiol 7: 1104-1115.
    • (2005) Environ Microbiol , vol.7 , pp. 1104-1115
    • Chouari, R.1    Le Paslier, D.2    Daegelen, P.3    Ginestet, P.4    Weissenbach, J.5    Sghir, A.6
  • 20
    • 44949231449 scopus 로고    scopus 로고
    • Estimates of biogenic methane production rates in deep marine sediments at Hydrate Ridge, Cascadia margin
    • Colwell, F.S., Boyd, S., Delwiche, M.E., Reed, D.W., Phelps, T.J., and Newby, D.T. (2008) Estimates of biogenic methane production rates in deep marine sediments at Hydrate Ridge, Cascadia margin. Appl Environ Microbiol 74: 3444-3452.
    • (2008) Appl Environ Microbiol , vol.74 , pp. 3444-3452
    • Colwell, F.S.1    Boyd, S.2    Delwiche, M.E.3    Reed, D.W.4    Phelps, T.J.5    Newby, D.T.6
  • 21
    • 33745012854 scopus 로고    scopus 로고
    • Rice Cluster I methanogens, an important group of Archaea producing greenhouse gas in soil
    • Conrad, R., Erkel, C., and Liesack, W. (2006) Rice Cluster I methanogens, an important group of Archaea producing greenhouse gas in soil. Curr Opin Biotechnol 17: 262-267.
    • (2006) Curr Opin Biotechnol , vol.17 , pp. 262-267
    • Conrad, R.1    Erkel, C.2    Liesack, W.3
  • 22
    • 33644959684 scopus 로고    scopus 로고
    • An update and optimisation of oligonucleotide probes targeting methanogenic Archaea for use in fluorescence in situ hybridisation (FISH)
    • Crocetti, G., Murto, M., and Bjornsson, L. (2006) An update and optimisation of oligonucleotide probes targeting methanogenic Archaea for use in fluorescence in situ hybridisation (FISH). J Microbiol Methods 65: 194-201.
    • (2006) J Microbiol Methods , vol.65 , pp. 194-201
    • Crocetti, G.1    Murto, M.2    Bjornsson, L.3
  • 23
    • 0036624813 scopus 로고    scopus 로고
    • Molecular community analysis of microbial diversity
    • Dahllof, I. (2002) Molecular community analysis of microbial diversity. Curr Opin Biotechnol 13: 213-217.
    • (2002) Curr Opin Biotechnol , vol.13 , pp. 213-217
    • Dahllof, I.1
  • 24
    • 35948938623 scopus 로고    scopus 로고
    • Quantitation and diversity analysis of ruminal methanogenic populations in response to the antimethanogenic compound bromochloromethane
    • Denman, S.E., Tomkins, N., and McSweeney, C.S. (2007) Quantitation and diversity analysis of ruminal methanogenic populations in response to the antimethanogenic compound bromochloromethane. FEMS Microbiol Ecol 62: 313-322.
    • (2007) FEMS Microbiol Ecol , vol.62 , pp. 313-322
    • Denman, S.E.1    Tomkins, N.2    McSweeney, C.S.3
  • 25
    • 23744453851 scopus 로고    scopus 로고
    • Methanogen diversity evidenced by molecular characterization of methyl coenzyme M reductase A (mcrA) genes in hydrothermal sediments of the Guaymas Basin
    • Dhillon, A., Lever, M., Lloyd, K.G., Albert, D.B., Sogin, M.L., and Teske, A. (2005) Methanogen diversity evidenced by molecular characterization of methyl coenzyme M reductase A (mcrA) genes in hydrothermal sediments of the Guaymas Basin. Appl Environ Microbiol 71: 4592-4601.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 4592-4601
    • Dhillon, A.1    Lever, M.2    Lloyd, K.G.3    Albert, D.B.4    Sogin, M.L.5    Teske, A.6
  • 26
    • 67649787282 scopus 로고    scopus 로고
    • Methanolobus zinderi sp nov., a methylotrophic methanogen isolated from a deep subsurface coal seam
    • Doerfert, S.N., Reichlen, M., Iyer, P., Wang, M.Y., and Ferry, J.G. (2009) Methanolobus zinderi sp nov., a methylotrophic methanogen isolated from a deep subsurface coal seam. Int J Syst Evol Microbiol 59: 1064-1069.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 1064-1069
    • Doerfert, S.N.1    Reichlen, M.2    Iyer, P.3    Wang, M.Y.4    Ferry, J.G.5
  • 27
    • 0032189023 scopus 로고    scopus 로고
    • Microbial diversity in a hydrocarbon- and chlorinated-solvent-contaminated aquifer undergoing intrinsic bioremediation
    • Dojka, M.A., Hugenholtz, P., Haack, S.K., and Pace, N.R. (1998) Microbial diversity in a hydrocarbon- and chlorinated-solvent-contaminated aquifer undergoing intrinsic bioremediation. Appl Environ Microbiol 64: 3869-3877.
    • (1998) Appl Environ Microbiol , vol.64 , pp. 3869-3877
    • Dojka, M.A.1    Hugenholtz, P.2    Haack, S.K.3    Pace, N.R.4
  • 28
    • 0026760934 scopus 로고
    • The use of rRNA sequences and fluorescent probes to investigate the phylogenetic positions of the anaerobic ciliate Metopus palaeformis and its archaeobacterial endosymbiont
    • Embley, T.M., Finlay, B.J., Thomas, R.H., and Dyal, P.L. (1992) The use of rRNA sequences and fluorescent probes to investigate the phylogenetic positions of the anaerobic ciliate Metopus palaeformis and its archaeobacterial endosymbiont. J Gen Microbiol 138: 1479-1487.
    • (1992) J Gen Microbiol , vol.138 , pp. 1479-1487
    • Embley, T.M.1    Finlay, B.J.2    Thomas, R.H.3    Dyal, P.L.4
  • 30
    • 66849138429 scopus 로고    scopus 로고
    • Design and testing of real-time PCR primers for the quantification of Methanoculleus, Methanosarcina, Methanothermobacter, and a group of uncultured methanogens
    • Franke-Whittle, I.H., Goberna, M., and Insam, H. (2009a) Design and testing of real-time PCR primers for the quantification of Methanoculleus, Methanosarcina, Methanothermobacter, and a group of uncultured methanogens. Can J Microbiol 55: 611-616.
    • (2009) Can J Microbiol , vol.55 , pp. 611-616
    • Franke-Whittle, I.H.1    Goberna, M.2    Insam, H.3
  • 31
    • 70449532360 scopus 로고    scopus 로고
    • Design and development of the ANAEROCHIP microarray for investigation of methanogenic communities
    • Franke-Whittle, I.H., Goberna, M., Pfister, V., and Insam, H. (2009b) Design and development of the ANAEROCHIP microarray for investigation of methanogenic communities. J Microbiol Methods 79: 279-288.
    • (2009) J Microbiol Methods , vol.79 , pp. 279-288
    • Franke-Whittle, I.H.1    Goberna, M.2    Pfister, V.3    Insam, H.4
  • 32
    • 77952225556 scopus 로고    scopus 로고
    • Comparative studies of microbial populations in the rumen, duodenum, ileum and faeces of lactating dairy cows
    • Frey, J.C., Pell, A.N., Berthiaume, R., Lapierre, H., Lee, S., Ha, J.K., etal. (2009) Comparative studies of microbial populations in the rumen, duodenum, ileum and faeces of lactating dairy cows. J Appl Microbiol 108: 1982-1993.
    • (2009) J Appl Microbiol , vol.108 , pp. 1982-1993
    • Frey, J.C.1    Pell, A.N.2    Berthiaume, R.3    Lapierre, H.4    Lee, S.5    Ha, J.K.6
  • 33
    • 27644532467 scopus 로고    scopus 로고
    • Methyl-coenzyme M reductase genes: unique functional markers for methanogenic and anaerobic methane-oxidizing Archaea
    • Friedrich, M.W. (2005) Methyl-coenzyme M reductase genes: unique functional markers for methanogenic and anaerobic methane-oxidizing Archaea. Methods Enzymol 397: 428-442.
    • (2005) Methods Enzymol , vol.397 , pp. 428-442
    • Friedrich, M.W.1
  • 34
    • 0036890052 scopus 로고    scopus 로고
    • Depth related diversity of methanogen Archaea in Finnish oligotrophic fen
    • Galand, P.E., Saarnio, S., Fritze, H., and Yrjala, K. (2002) Depth related diversity of methanogen Archaea in Finnish oligotrophic fen. FEMS Microbiol Ecol 42: 441-449.
    • (2002) FEMS Microbiol Ecol , vol.42 , pp. 441-449
    • Galand, P.E.1    Saarnio, S.2    Fritze, H.3    Yrjala, K.4
  • 35
    • 24344446508 scopus 로고    scopus 로고
    • Methanogen communities in a drained bog: effect of ash fertilization
    • Galand, P.E., Juottonen, H., Fritze, H., and Yrjala, K. (2005) Methanogen communities in a drained bog: effect of ash fertilization. Microbial Ecol 49: 209-217.
    • (2005) Microbial Ecol , vol.49 , pp. 209-217
    • Galand, P.E.1    Juottonen, H.2    Fritze, H.3    Yrjala, K.4
  • 36
    • 0009427326 scopus 로고    scopus 로고
    • Phylum AII. Euryarchaeota phy. nov
    • 2nd edn. Boone, D.R., Castenholz, R.W., and Garrity, G.M. (eds). New York, NY, USA: Springer-Verlag
    • Garrity, G.M., and Holt, J.G. (2001) Phylum AII. Euryarchaeota phy. nov. In Berrgey's Manual, 2nd edn. Boone, D.R., Castenholz, R.W., and Garrity, G.M. (eds). New York, NY, USA: Springer-Verlag, pp. 211-355.
    • (2001) Berrgey's Manual , pp. 211-355
    • Garrity, G.M.1    Holt, J.G.2
  • 38
    • 0032485065 scopus 로고    scopus 로고
    • Methanogenic population dynamics during start-up of anaerobic digesters treating municipal solid waste and biosolids
    • Griffin, M.E., McMahon, K.D., Mackie, R.I., and Raskin, L. (1998) Methanogenic population dynamics during start-up of anaerobic digesters treating municipal solid waste and biosolids. Biotechnol Bioeng 57: 342-355.
    • (1998) Biotechnol Bioeng , vol.57 , pp. 342-355
    • Griffin, M.E.1    McMahon, K.D.2    Mackie, R.I.3    Raskin, L.4
  • 39
    • 2542508293 scopus 로고    scopus 로고
    • Diversity and structure of the methanogenic community in anoxic rice paddy soil microcosms as examined by cultivation and direct 16S rRNA gene sequence retrieval
    • Grosskopf, R., Janssen, P.H., and Liesack, W. (1998) Diversity and structure of the methanogenic community in anoxic rice paddy soil microcosms as examined by cultivation and direct 16S rRNA gene sequence retrieval. Appl Environ Microbiol 64: 960-969.
    • (1998) Appl Environ Microbiol , vol.64 , pp. 960-969
    • Grosskopf, R.1    Janssen, P.H.2    Liesack, W.3
  • 40
    • 0030032633 scopus 로고    scopus 로고
    • Isolation and identification of methanogen-specific DNA from blanket bog feat by PCR amplification and sequence analysis
    • Hales, B.A., Edwards, C., Ritchie, D.A., Hall, G., Pickup, R.W., and Saunders, J.R. (1996) Isolation and identification of methanogen-specific DNA from blanket bog feat by PCR amplification and sequence analysis. Appl Environ Microbiol 62: 668-675.
    • (1996) Appl Environ Microbiol , vol.62 , pp. 668-675
    • Hales, B.A.1    Edwards, C.2    Ritchie, D.A.3    Hall, G.4    Pickup, R.W.5    Saunders, J.R.6
  • 41
    • 0029020114 scopus 로고
    • Phylogenetic analysis of two syntrophic propionate-oxidizing bacteria in enrichments cultures
    • Harmsen, H.J.M., Kengen, K.M.P., Akkermans, A.D.L., and Stams, A.J.M. (1995) Phylogenetic analysis of two syntrophic propionate-oxidizing bacteria in enrichments cultures. Syst Appl Microbiol 18: 67-73.
    • (1995) Syst Appl Microbiol , vol.18 , pp. 67-73
    • Harmsen, H.J.M.1    Kengen, K.M.P.2    Akkermans, A.D.L.3    Stams, A.J.M.4
  • 42
    • 0029932879 scopus 로고    scopus 로고
    • Detection and localization of syntrophic propionate-oxidizing bacteria in granular sludge by in situ hybridization using 16S rRNA-based oligonucleotide probes
    • Harmsen, H.J.M., Kengen, H.M.P., Akkermans, A.D.L., Stams, A.J.M., and deVos, W.M. (1996) Detection and localization of syntrophic propionate-oxidizing bacteria in granular sludge by in situ hybridization using 16S rRNA-based oligonucleotide probes. Appl Environ Microbiol 62: 1656-1663.
    • (1996) Appl Environ Microbiol , vol.62 , pp. 1656-1663
    • Harmsen, H.J.M.1    Kengen, H.M.P.2    Akkermans, A.D.L.3    Stams, A.J.M.4    deVos, W.M.5
  • 43
    • 58149389302 scopus 로고    scopus 로고
    • Long-term monensin supplementation does not significantly affect the quantity or diversity of methanogens in the rumen of the lactating dairy cow
    • Hook, S.E., Northwood, K.S., Wright, A.D.G., and McBride, B.W. (2009) Long-term monensin supplementation does not significantly affect the quantity or diversity of methanogens in the rumen of the lactating dairy cow. Appl Environ Microbiol 75: 374-380.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 374-380
    • Hook, S.E.1    Northwood, K.S.2    Wright, A.D.G.3    McBride, B.W.4
  • 44
    • 33144462974 scopus 로고    scopus 로고
    • Dynamic transition of a methanogenic population in response to the concentration of volatile fatty acids in a thermophilic anaerobic digester
    • Hori, T., Haruta, S., Ueno, Y., Ishii, M., and Igarashi, Y. (2006) Dynamic transition of a methanogenic population in response to the concentration of volatile fatty acids in a thermophilic anaerobic digester. Appl Environ Microbiol 72: 1623-1630.
    • (2006) Appl Environ Microbiol , vol.72 , pp. 1623-1630
    • Hori, T.1    Haruta, S.2    Ueno, Y.3    Ishii, M.4    Igarashi, Y.5
  • 45
    • 0037224849 scopus 로고    scopus 로고
    • Hydrogenotrophic methanogenesis by moderately acid-tolerant methanogens of a methane-emitting acidic peat
    • Horn, M.A., Matthies, C., Kusel, K., Schramm, A., and Drake, H.L. (2003) Hydrogenotrophic methanogenesis by moderately acid-tolerant methanogens of a methane-emitting acidic peat. Appl Environ Microbiol 69: 74-83.
    • (2003) Appl Environ Microbiol , vol.69 , pp. 74-83
    • Horn, M.A.1    Matthies, C.2    Kusel, K.3    Schramm, A.4    Drake, H.L.5
  • 46
    • 34249950990 scopus 로고    scopus 로고
    • Raman-FISH: combining stable-isotope raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function
    • Huang, W.E., Stoecker, K., Griffiths, R., Newbold, L., Daims, H., Whiteley, A.S., and Wagner, M. (2007) Raman-FISH: combining stable-isotope raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function. Environ Microbiol 9: 1878-1889.
    • (2007) Environ Microbiol , vol.9 , pp. 1878-1889
    • Huang, W.E.1    Stoecker, K.2    Griffiths, R.3    Newbold, L.4    Daims, H.5    Whiteley, A.S.6    Wagner, M.7
  • 47
    • 58149354855 scopus 로고    scopus 로고
    • Resolving genetic functions within microbial populations: in situ analyses using rRNA and mRNA stable isotope probing coupled with single-cell raman-fluorescence in situ hybridization
    • Huang, W.E., Ferguson, A., Singer, A.C., Lawson, K., Thompson, I.P., Kalin, R.M., etal. (2009) Resolving genetic functions within microbial populations: in situ analyses using rRNA and mRNA stable isotope probing coupled with single-cell raman-fluorescence in situ hybridization. Appl Environ Microbiol 75: 234-241.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 234-241
    • Huang, W.E.1    Ferguson, A.2    Singer, A.C.3    Lawson, K.4    Thompson, I.P.5    Kalin, R.M.6
  • 48
    • 0036181778 scopus 로고    scopus 로고
    • Exploring prokaryotic diversity in the genomic era
    • Hugenholtz, P. (2002) Exploring prokaryotic diversity in the genomic era. Genome Biol 3: REVIEWS0003.
    • (2002) Genome Biol , vol.3
    • Hugenholtz, P.1
  • 49
    • 78649268369 scopus 로고    scopus 로고
    • Methanospirillum lacunae sp. nov., a methane-producing archaeon isolated from a puddly soil, and the emendation of the genus Methanospirillum and Methanospirillum hungatei
    • Iino, T., Mori, K., and Suzuki, K. (2010) Methanospirillum lacunae sp. nov., a methane-producing archaeon isolated from a puddly soil, and the emendation of the genus Methanospirillum and Methanospirillum hungatei. Int J Syst Evol Microbiol 60: 2563-2566.
    • (2010) Int J Syst Evol Microbiol , vol.60 , pp. 2563-2566
    • Iino, T.1    Mori, K.2    Suzuki, K.3
  • 50
    • 0033859882 scopus 로고    scopus 로고
    • Cultivation and in situ detection of a thermophilic bacterium capable of oxidizing propionate in syntrophic association with hydrogenotrophic methanogens in a thermophilic methanogenic granular sludge
    • Imachi, H., Sekiguchi, Y., Kamagata, Y., Ohashi, A., and Harada, H. (2000) Cultivation and in situ detection of a thermophilic bacterium capable of oxidizing propionate in syntrophic association with hydrogenotrophic methanogens in a thermophilic methanogenic granular sludge. Appl Environ Microbiol 66: 3608-3615.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 3608-3615
    • Imachi, H.1    Sekiguchi, Y.2    Kamagata, Y.3    Ohashi, A.4    Harada, H.5
  • 51
    • 40449132267 scopus 로고    scopus 로고
    • Methanolinea tarda gen. nov., sp nov., a methane-producing archaeon isolated from a methanogenic digester sludge
    • Imachi, H., Sakai, S., Sekiguchi, Y., Hanada, S., Kamagata, Y., Ohashi, A., and Harada, H. (2008) Methanolinea tarda gen. nov., sp nov., a methane-producing archaeon isolated from a methanogenic digester sludge. Int J Syst Evol Microbiol 58: 294-301.
    • (2008) Int J Syst Evol Microbiol , vol.58 , pp. 294-301
    • Imachi, H.1    Sakai, S.2    Sekiguchi, Y.3    Hanada, S.4    Kamagata, Y.5    Ohashi, A.6    Harada, H.7
  • 52
    • 66149088129 scopus 로고    scopus 로고
    • Methanofollis ethanolicus sp nov., an ethanol-utilizing methanogen isolated from a lotus field
    • Imachi, H., Sakai, S., Nagai, H., Yamaguchi, T., and Takai, K. (2009) Methanofollis ethanolicus sp nov., an ethanol-utilizing methanogen isolated from a lotus field. Int J Syst Evol Microbiol 59: 800-805.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 800-805
    • Imachi, H.1    Sakai, S.2    Nagai, H.3    Yamaguchi, T.4    Takai, K.5
  • 53
    • 10444248885 scopus 로고    scopus 로고
    • Characterization of C-1-metabolizing prokaryotic communities in methane seep habitats at the Kuroshima Knoll, southern Ryukyu arc, by analyzing pmoA, mmoX, mxaF, mcrA, and 16S rRNA genes
    • Inagaki, F., Tsunogai, U., Suzuki, M., Kosaka, A., Machiyama, H., Takai, K., etal. (2004) Characterization of C-1-metabolizing prokaryotic communities in methane seep habitats at the Kuroshima Knoll, southern Ryukyu arc, by analyzing pmoA, mmoX, mxaF, mcrA, and 16S rRNA genes. Appl Environ Microbiol 70: 7445-7455.
    • (2004) Appl Environ Microbiol , vol.70 , pp. 7445-7455
    • Inagaki, F.1    Tsunogai, U.2    Suzuki, M.3    Kosaka, A.4    Machiyama, H.5    Takai, K.6
  • 54
    • 69249149308 scopus 로고    scopus 로고
    • Wetland restoration and methanogenesis: the activity of microbial populations and competition for substrates at different temperatures
    • Jerman, V., Metje, M., Mandic-Mulec, I., and Frenzel, P. (2009) Wetland restoration and methanogenesis: the activity of microbial populations and competition for substrates at different temperatures. Biogeosciences 6: 1127-1138.
    • (2009) Biogeosciences , vol.6 , pp. 1127-1138
    • Jerman, V.1    Metje, M.2    Mandic-Mulec, I.3    Frenzel, P.4
  • 55
    • 25144493755 scopus 로고    scopus 로고
    • Methanogen communities and Bacteria along an ecohydrological gradient in a northern raised bog complex
    • Juottonen, H., Galand, P.E., Tuittila, E.S., Laine, J., Fritze, H., and Yrjala, K. (2005) Methanogen communities and Bacteria along an ecohydrological gradient in a northern raised bog complex. Environ Microbiol 7: 1547-1557.
    • (2005) Environ Microbiol , vol.7 , pp. 1547-1557
    • Juottonen, H.1    Galand, P.E.2    Tuittila, E.S.3    Laine, J.4    Fritze, H.5    Yrjala, K.6
  • 56
    • 34548479471 scopus 로고    scopus 로고
    • Detection of methanogenic Archaea in peat: comparison of PCR primers targeting the mcrA gene
    • Juottonen, H., Galand, P.E., and Yrjala, K. (2006) Detection of methanogenic Archaea in peat: comparison of PCR primers targeting the mcrA gene. Res Microbiol 157: 914-921.
    • (2006) Res Microbiol , vol.157 , pp. 914-921
    • Juottonen, H.1    Galand, P.E.2    Yrjala, K.3
  • 57
    • 51349161191 scopus 로고    scopus 로고
    • High-resolution metagenomics targets specific functional types in complex microbial communities
    • Kalyuzhnaya, M.G., Lapidus, A., Ivanova, N., Copeland, A.C., McHardy, A.C., Szeto, E., etal. (2008) High-resolution metagenomics targets specific functional types in complex microbial communities. Nat Biotechnol 26: 1029-1034.
    • (2008) Nat Biotechnol , vol.26 , pp. 1029-1034
    • Kalyuzhnaya, M.G.1    Lapidus, A.2    Ivanova, N.3    Copeland, A.C.4    McHardy, A.C.5    Szeto, E.6
  • 58
    • 77349112698 scopus 로고    scopus 로고
    • Detection of single copy genes by two-pass tyramide signal amplification fluorescence in situ hybridization (two-pass TSA-FISH) with single oligonucleotide probes
    • Kawakami, S., Kubota, K., Imachi, H., Yamaguchi, T., Harada, H., and Ohashi, A. (2010) Detection of single copy genes by two-pass tyramide signal amplification fluorescence in situ hybridization (two-pass TSA-FISH) with single oligonucleotide probes. Microbes Environ 25: 15-21.
    • (2010) Microbes Environ , vol.25 , pp. 15-21
    • Kawakami, S.1    Kubota, K.2    Imachi, H.3    Yamaguchi, T.4    Harada, H.5    Ohashi, A.6
  • 59
    • 1942443842 scopus 로고    scopus 로고
    • Community analysis of methanogenic archaea within a riparian flooding gradient
    • Kemnitz, D., Chin, K.J., Bodelier, P., and Conrad, R. (2004) Community analysis of methanogenic archaea within a riparian flooding gradient. Environ Microbiol 6: 449-461.
    • (2004) Environ Microbiol , vol.6 , pp. 449-461
    • Kemnitz, D.1    Chin, K.J.2    Bodelier, P.3    Conrad, R.4
  • 62
    • 33745946807 scopus 로고    scopus 로고
    • Visualization of mcr mRNA in a methanogen by fluorescence in situ hybridization with an oligonucleotide probe and two-pass tyramide signal amplification (two-pass TSA-FISH)
    • Kubota, K., Ohashi, A., Imachi, H., and Harada, H. (2006) Visualization of mcr mRNA in a methanogen by fluorescence in situ hybridization with an oligonucleotide probe and two-pass tyramide signal amplification (two-pass TSA-FISH). J Microbiol Methods 66: 521-528.
    • (2006) J Microbiol Methods , vol.66 , pp. 521-528
    • Kubota, K.1    Ohashi, A.2    Imachi, H.3    Harada, H.4
  • 63
  • 65
    • 0001857117 scopus 로고
    • 16S/23S rRNA sequencing
    • In Stackebrandt, E., and Goodfellow, M. (eds). Chichester, UK: John Wiley & Sons
    • Lane, D.J. (1991) 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics. Stackebrandt, E., and Goodfellow, M. (eds). Chichester, UK: John Wiley & Sons, pp. 115-175.
    • (1991) Nucleic Acid Techniques in Bacterial Systematics , pp. 115-175
    • Lane, D.J.1
  • 67
    • 63849266008 scopus 로고    scopus 로고
    • Insights into networks of functional microbes catalysing methanization of cellulose under mesophilic conditions
    • Li, T.L., Mazeas, L., Sghir, A., Leblon, G., and Bouchez, T. (2009) Insights into networks of functional microbes catalysing methanization of cellulose under mesophilic conditions. Environ Microbiol 11: 889-904.
    • (2009) Environ Microbiol , vol.11 , pp. 889-904
    • Li, T.L.1    Mazeas, L.2    Sghir, A.3    Leblon, G.4    Bouchez, T.5
  • 68
    • 0036661667 scopus 로고    scopus 로고
    • Microbial community dynamics during start-up of acidogenic anaerobic reactors
    • Liu, W.T., Chan, O.C., and Fang, H.H.P. (2002) Microbial community dynamics during start-up of acidogenic anaerobic reactors. Water Res 36: 3203-3210.
    • (2002) Water Res , vol.36 , pp. 3203-3210
    • Liu, W.T.1    Chan, O.C.2    Fang, H.H.P.3
  • 69
    • 41349083576 scopus 로고    scopus 로고
    • Metabolic, phylogenetic, and ecological diversity of the methanogenic archaea
    • Liu, Y.C., and Whitman, W.B. (2008) Metabolic, phylogenetic, and ecological diversity of the methanogenic archaea. Ann N Y Acad Sci 1125: 171-189.
    • (2008) Ann N Y Acad Sci , vol.1125 , pp. 171-189
    • Liu, Y.C.1    Whitman, W.B.2
  • 70
    • 23644433664 scopus 로고    scopus 로고
    • In situ stable isotope probing of methanogenic archaea in the rice rhizosphere
    • Lu, Y.H., and Conrad, R. (2005) In situ stable isotope probing of methanogenic archaea in the rice rhizosphere. Science 309: 1088-1090.
    • (2005) Science , vol.309 , pp. 1088-1090
    • Lu, Y.H.1    Conrad, R.2
  • 71
    • 14344266223 scopus 로고    scopus 로고
    • Detecting active methanogenic populations on rice roots using stable isotope probing
    • Lu, Y.H., Lueders, T., Friedrich, M.W., and Conrad, R. (2005) Detecting active methanogenic populations on rice roots using stable isotope probing. Environ Microbiol 7: 326-336.
    • (2005) Environ Microbiol , vol.7 , pp. 326-336
    • Lu, Y.H.1    Lueders, T.2    Friedrich, M.W.3    Conrad, R.4
  • 73
    • 0035206819 scopus 로고    scopus 로고
    • Molecular analyses of methyl-coenzyme M reductase alpha-subunit (mcrA) genes in rice field soil and enrichment cultures reveal the methanogenic phenotype of a novel archaeal lineage
    • Lueders, T., Chin, K.J., Conrad, R., and Friedrich, M. (2001) Molecular analyses of methyl-coenzyme M reductase alpha-subunit (mcrA) genes in rice field soil and enrichment cultures reveal the methanogenic phenotype of a novel archaeal lineage. Environ Microbiol 3: 194-204.
    • (2001) Environ Microbiol , vol.3 , pp. 194-204
    • Lueders, T.1    Chin, K.J.2    Conrad, R.3    Friedrich, M.4
  • 74
    • 8144231103 scopus 로고    scopus 로고
    • Stable-isotope probing of microorganisms thriving at thermodynamic limits: syntrophic propionate oxidation in flooded soil
    • Lueders, T., Pommerenke, B., and Friedrich, M.W. (2004) Stable-isotope probing of microorganisms thriving at thermodynamic limits: syntrophic propionate oxidation in flooded soil. Appl Environ Microbiol 70: 5778-5786.
    • (2004) Appl Environ Microbiol , vol.70 , pp. 5778-5786
    • Lueders, T.1    Pommerenke, B.2    Friedrich, M.W.3
  • 75
    • 0036856362 scopus 로고    scopus 로고
    • The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill
    • Luton, P.E., Wayne, J.M., Sharp, R.J., and Riley, P.W. (2002) The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill. Microbiology 148: 3521-3530.
    • (2002) Microbiology , vol.148 , pp. 3521-3530
    • Luton, P.E.1    Wayne, J.M.2    Sharp, R.J.3    Riley, P.W.4
  • 76
    • 4644295749 scopus 로고    scopus 로고
    • Microbial population dynamics during start-up and overload conditions of anaerobic digesters treating municipal solid waste and sewage sludge
    • McMahon, K.D., Zheng, D.D., Stams, A.J.M., Mackie, R.I., and Raskin, L. (2004) Microbial population dynamics during start-up and overload conditions of anaerobic digesters treating municipal solid waste and sewage sludge. Biotechnol Bioeng 87: 823-834.
    • (2004) Biotechnol Bioeng , vol.87 , pp. 823-834
    • McMahon, K.D.1    Zheng, D.D.2    Stams, A.J.M.3    Mackie, R.I.4    Raskin, L.5
  • 77
    • 0036840287 scopus 로고    scopus 로고
    • RNA stable isotope probing, a novel means of linking microbial community function to Phylogeny
    • Manefield, M., Whiteley, A.S., Griffiths, R.I., and Bailey, M.J. (2002) RNA stable isotope probing, a novel means of linking microbial community function to Phylogeny. Appl Environ Microbiol 68: 5367-5373.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 5367-5373
    • Manefield, M.1    Whiteley, A.S.2    Griffiths, R.I.3    Bailey, M.J.4
  • 78
    • 0034535113 scopus 로고    scopus 로고
    • Methanogen and bacterial diversity and distribution in deep gas hydrate sediments from the Cascadia Margin as revealed by 16S rRNA molecular analysis
    • Marchesi, J.R., Weightman, A.J., Cragg, B.A., Parkes, R.J., and Fry, J.C. (2001) Methanogen and bacterial diversity and distribution in deep gas hydrate sediments from the Cascadia Margin as revealed by 16S rRNA molecular analysis. FEMS Microbiol Ecol 34: 221-228.
    • (2001) FEMS Microbiol Ecol , vol.34 , pp. 221-228
    • Marchesi, J.R.1    Weightman, A.J.2    Cragg, B.A.3    Parkes, R.J.4    Fry, J.C.5
  • 79
    • 34248356696 scopus 로고    scopus 로고
    • Microbial diversity and methanogenic potential in a high temperature natural gas field in Japan
    • Mochimaru, H., Yoshioka, H., Tamaki, H., Nakamura, K., Kaneko, N., Sakata, S., etal. (2007) Microbial diversity and methanogenic potential in a high temperature natural gas field in Japan. Extremophiles 11: 453-461.
    • (2007) Extremophiles , vol.11 , pp. 453-461
    • Mochimaru, H.1    Yoshioka, H.2    Tamaki, H.3    Nakamura, K.4    Kaneko, N.5    Sakata, S.6
  • 80
    • 66149094323 scopus 로고    scopus 로고
    • Methanolobus profundi sp nov., a methylotrophic methanogen isolated from deep subsurface sediments in a natural gas field
    • Mochimaru, H., Tamaki, H., Hanada, S., Imachi, H., Nakamura, K., Sakata, S., and Kamagata, Y. (2009) Methanolobus profundi sp nov., a methylotrophic methanogen isolated from deep subsurface sediments in a natural gas field. Int J Syst Evol Microbiol 59: 714-718.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 714-718
    • Mochimaru, H.1    Tamaki, H.2    Hanada, S.3    Imachi, H.4    Nakamura, K.5    Sakata, S.6    Kamagata, Y.7
  • 81
    • 33751018877 scopus 로고    scopus 로고
    • Application of pseudomurein endoisopeptidase to fluorescence in situ hybridization of methanogens within the family Methanobacteliaceae
    • Nakamura, K., Terada, T., Sekiguchi, Y., Shinzato, N., Meng, X.Y., Enoki, M., and Kamagata, Y. (2006) Application of pseudomurein endoisopeptidase to fluorescence in situ hybridization of methanogens within the family Methanobacteliaceae. Appl Environ Microbiol 72: 6907-6913.
    • (2006) Appl Environ Microbiol , vol.72 , pp. 6907-6913
    • Nakamura, K.1    Terada, T.2    Sekiguchi, Y.3    Shinzato, N.4    Meng, X.Y.5    Enoki, M.6    Kamagata, Y.7
  • 82
    • 34249939324 scopus 로고    scopus 로고
    • Microbial communities in anaerobic digestion processes for waste and wastewater treatment: a microbiological update
    • Narihiro, T., and Sekiguchi, Y. (2007) Microbial communities in anaerobic digestion processes for waste and wastewater treatment: a microbiological update. Curr Opin Biotechnol 18: 273-278.
    • (2007) Curr Opin Biotechnol , vol.18 , pp. 273-278
    • Narihiro, T.1    Sekiguchi, Y.2
  • 83
    • 70349920944 scopus 로고    scopus 로고
    • Comparative analysis of bacterial and archaeal communities in methanogenic sludge granules from upflow anaerobic sludge blanket reactors treating various food-processing, high-strength organic wastewaters
    • Narihiro, T., Terada, T., Kikuchi, K., Iguchi, A., Ikeda, M., Yamauchi, T., etal. (2009a) Comparative analysis of bacterial and archaeal communities in methanogenic sludge granules from upflow anaerobic sludge blanket reactors treating various food-processing, high-strength organic wastewaters. Microbes Environ 24: 88-96.
    • (2009) Microbes Environ , vol.24 , pp. 88-96
    • Narihiro, T.1    Terada, T.2    Kikuchi, K.3    Iguchi, A.4    Ikeda, M.5    Yamauchi, T.6
  • 84
    • 67349177071 scopus 로고    scopus 로고
    • Quantitative detection of culturable methanogenic archaea abundance in anaerobic treatment systems using the sequence-specific rRNA cleavage method
    • Narihiro, T., Terada, T., Ohashi, A., Wu, J.H., Liu, W.T., Araki, N., etal. (2009b) Quantitative detection of culturable methanogenic archaea abundance in anaerobic treatment systems using the sequence-specific rRNA cleavage method. ISME J 3: 522-535.
    • (2009) ISME J , vol.3 , pp. 522-535
    • Narihiro, T.1    Terada, T.2    Ohashi, A.3    Wu, J.H.4    Liu, W.T.5    Araki, N.6
  • 85
    • 0032971335 scopus 로고    scopus 로고
    • Phylogenetic analysis of peat bog methanogen populations
    • Nercessian, D., Upton, M., Lloyd, D., and Edwards, C. (1999) Phylogenetic analysis of peat bog methanogen populations. FEMS Microbiol Lett 173: 425-429.
    • (1999) FEMS Microbiol Lett , vol.173 , pp. 425-429
    • Nercessian, D.1    Upton, M.2    Lloyd, D.3    Edwards, C.4
  • 86
    • 1142281824 scopus 로고    scopus 로고
    • Design of 16S rRNA-targeted oligonucleotide probes for detecting cultured and uncultured archaeal lineages in high-temperature environments
    • Nercessian, O., Prokofeva, M., Lebedinski, A., L'Haridon, S., Cary, C., Prieur, D., and Jeanthon, C. (2004) Design of 16S rRNA-targeted oligonucleotide probes for detecting cultured and uncultured archaeal lineages in high-temperature environments. Environ Microbiol 6: 170-182.
    • (2004) Environ Microbiol , vol.6 , pp. 170-182
    • Nercessian, O.1    Prokofeva, M.2    Lebedinski, A.3    L'Haridon, S.4    Cary, C.5    Prieur, D.6    Jeanthon, C.7
  • 87
    • 12544256650 scopus 로고    scopus 로고
    • Diversity of functional genes of methanogens, methanotrophs and sulfate reducers in deep-sea hydrothermal environments
    • Nercessian, O., Bienvenu, N., Moreira, D., Prieur, D., and Jeanthon, C. (2005) Diversity of functional genes of methanogens, methanotrophs and sulfate reducers in deep-sea hydrothermal environments. Environ Microbiol 7: 118-132.
    • (2005) Environ Microbiol , vol.7 , pp. 118-132
    • Nercessian, O.1    Bienvenu, N.2    Moreira, D.3    Prieur, D.4    Jeanthon, C.5
  • 88
    • 0036158084 scopus 로고    scopus 로고
    • Assessment of fluorochromes for two-photon laser scanning microscopy of biofilms
    • Neu, T.R., Kuhlicke, U., and Lawrence, J.R. (2002) Assessment of fluorochromes for two-photon laser scanning microscopy of 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
  • 89
    • 33745044981 scopus 로고    scopus 로고
    • Quantification of mcrA by quantitative fluorescent PCR in sediments from methane seep of the Nankai Trough
    • Nunoura, T., Oida, H., Toki, T., Ashi, J., Takai, K., and Horikoshi, K. (2006) Quantification of mcrA by quantitative fluorescent PCR in sediments from methane seep of the Nankai Trough. FEMS Microbiol Ecol 57: 149-157.
    • (2006) FEMS Microbiol Ecol , vol.57 , pp. 149-157
    • Nunoura, T.1    Oida, H.2    Toki, T.3    Ashi, J.4    Takai, K.5    Horikoshi, K.6
  • 90
    • 42149176196 scopus 로고    scopus 로고
    • Quantification of mcrA by fluorescent PCR in methanogenic and methanotrophic microbial communities
    • Nunoura, T., Oida, H., Miyazaki, J., Miyashita, A., Imachi, H., and Takai, K. (2008) Quantification of mcrA by fluorescent PCR in methanogenic and methanotrophic microbial communities. FEMS Microbiol Ecol 64: 240-247.
    • (2008) FEMS Microbiol Ecol , vol.64 , pp. 240-247
    • Nunoura, T.1    Oida, H.2    Miyazaki, J.3    Miyashita, A.4    Imachi, H.5    Takai, K.6
  • 91
    • 0035919654 scopus 로고    scopus 로고
    • Methane-consuming archaea revealed by directly coupled isotopic and phylogenetic analysis
    • Orphan, V.J., House, C.H., Hinrichs, K.U., McKeegan, K.D., and DeLong, E.F. (2001) Methane-consuming archaea revealed by directly coupled isotopic and phylogenetic analysis. Science 293: 484-487.
    • (2001) Science , vol.293 , pp. 484-487
    • Orphan, V.J.1    House, C.H.2    Hinrichs, K.U.3    McKeegan, K.D.4    DeLong, E.F.5
  • 92
    • 33845342557 scopus 로고    scopus 로고
    • Microfluidic digital PCR enables multigene analysis of individual environmental bacteria
    • Ottesen, E.A., Hong, J.W., Quake, S.R., and Leadbetter, J.R. (2006) Microfluidic digital PCR enables multigene analysis of individual environmental bacteria. Science 314: 1464-1467.
    • (2006) Science , vol.314 , pp. 1464-1467
    • Ottesen, E.A.1    Hong, J.W.2    Quake, S.R.3    Leadbetter, J.R.4
  • 93
    • 0030805150 scopus 로고    scopus 로고
    • Distribution of bacterioplankton in meromictic lake Saelenvanner, as determined by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA
    • Ovreas, L., Forney, L., Daae, F.L., and Torsvik, V. (1997) Distribution of bacterioplankton in meromictic lake Saelenvanner, as determined by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA. Appl Environ Microbiol 63: 3367-3373.
    • (1997) Appl Environ Microbiol , vol.63 , pp. 3367-3373
    • Ovreas, L.1    Forney, L.2    Daae, F.L.3    Torsvik, V.4
  • 94
    • 33747368484 scopus 로고    scopus 로고
    • Carbon isotope fractionation during acetoclastic methanogenesis by Methanosaeta concilii in culture and a lake sediment
    • Penning, H., Claus, P., Casper, P., and Conrad, R. (2006) Carbon isotope fractionation during acetoclastic methanogenesis by Methanosaeta concilii in culture and a lake sediment. Appl Environ Microbiol 72: 5648-5652.
    • (2006) Appl Environ Microbiol , vol.72 , pp. 5648-5652
    • Penning, H.1    Claus, P.2    Casper, P.3    Conrad, R.4
  • 95
    • 0035409454 scopus 로고    scopus 로고
    • Microbial populations associated with treatment of an industrial dye effluent in an anaerobic baffled reactor
    • Plumb, J.J., Bell, J., and Stuckey, D.C. (2001) Microbial populations associated with treatment of an industrial dye effluent in an anaerobic baffled reactor. Appl Environ Microbiol 67: 3226-3235.
    • (2001) Appl Environ Microbiol , vol.67 , pp. 3226-3235
    • Plumb, J.J.1    Bell, J.2    Stuckey, D.C.3
  • 96
    • 0027264175 scopus 로고
    • Use of ribosomal-RNA fluorescence in situ hybridization for measuring the activity of single cells in young and established biofilms
    • Poulsen, L.K., Ballard, G., and Stahl, D.A. (1993) Use of ribosomal-RNA fluorescence in situ hybridization for measuring the activity of single cells in young and established biofilms. Appl Environ Microbiol 59: 1354-1360.
    • (1993) Appl Environ Microbiol , vol.59 , pp. 1354-1360
    • Poulsen, L.K.1    Ballard, G.2    Stahl, D.A.3
  • 97
    • 0034628432 scopus 로고    scopus 로고
    • Stable-isotope probing as a tool in microbial ecology
    • Radajewski, S., Ineson, P., Parekh, N.R., and Murrell, J.C. (2000) Stable-isotope probing as a tool in microbial ecology. Nature 403: 646-649.
    • (2000) Nature , vol.403 , pp. 646-649
    • Radajewski, S.1    Ineson, P.2    Parekh, N.R.3    Murrell, J.C.4
  • 98
    • 0034782286 scopus 로고    scopus 로고
    • Archaeal community structures in rice soils from different geographical regions before and after initiation of methane production
    • Ramakrishnan, B., Lueders, T., Dunfield, P.F., Conrad, R., and Friedrich, M.W. (2001) Archaeal community structures in rice soils from different geographical regions before and after initiation of methane production. FEMS Microbiol Ecol 37: 175-186.
    • (2001) FEMS Microbiol Ecol , vol.37 , pp. 175-186
    • Ramakrishnan, B.1    Lueders, T.2    Dunfield, P.F.3    Conrad, R.4    Friedrich, M.W.5
  • 99
    • 0028165833 scopus 로고
    • Quantification of methanogenic groups in anaerobic biological reactors by oligonucleotide probe hybridization
    • Raskin, L., Poulsen, L.K., Noguera, D.R., Rittmann, B.E., and Stahl, D.A. (1994a) Quantification of methanogenic groups in anaerobic biological reactors by oligonucleotide probe hybridization. Appl Environ Microbiol 60: 1241-1248.
    • (1994) Appl Environ Microbiol , vol.60 , pp. 1241-1248
    • Raskin, L.1    Poulsen, L.K.2    Noguera, D.R.3    Rittmann, B.E.4    Stahl, D.A.5
  • 100
    • 0028165830 scopus 로고
    • Group-specific 16S ribosomal-RNA hybridization probes to describe natural communities of methanogens
    • Raskin, L., Stromley, J.M., Rittmann, B.E., and Stahl, D.A. (1994b) Group-specific 16S ribosomal-RNA hybridization probes to describe natural communities of methanogens. Appl Environ Microbiol 60: 1232-1240.
    • (1994) Appl Environ Microbiol , vol.60 , pp. 1232-1240
    • Raskin, L.1    Stromley, J.M.2    Rittmann, B.E.3    Stahl, D.A.4
  • 101
    • 0029557519 scopus 로고
    • Characterization of microbial communities in anaerobic bioreactors using molecular probes
    • Raskin, L., Zheng, D.D., Griffin, M.E., Stroot, P.G., and Misra, P. (1995) Characterization of microbial communities in anaerobic bioreactors using molecular probes. Antonie Van Leeuwenhoek 68: 297-308.
    • (1995) Antonie Van Leeuwenhoek , vol.68 , pp. 297-308
    • Raskin, L.1    Zheng, D.D.2    Griffin, M.E.3    Stroot, P.G.4    Misra, P.5
  • 102
    • 0006973492 scopus 로고
    • Thermophiles
    • In Robb, F.T., and Place, A.R. (eds). Cold Spring Harbor, NY, USA: Cold Spring Harbour Press
    • Reysenbach, A.-L., and Pace, N.R. (1995) Thermophiles. In Archaea: A Laboratory Manual. Robb, F.T., and Place, A.R. (eds). Cold Spring Harbor, NY, USA: Cold Spring Harbour Press, pp. 101-107.
    • (1995) Archaea: A Laboratory Manual , pp. 101-107
    • Reysenbach, A.-L.1    Pace, N.R.2
  • 103
    • 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, C.W., Lawrence, J.R., Cantin, C., Laramee, L., and Guiot, S.R. (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
  • 104
    • 47249105592 scopus 로고    scopus 로고
    • Methanocella paludicola gen. nov., sp nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov
    • Sakai, S., Imachi, H., Hanada, S., Ohashi, A., Harada, H., and Kamagata, Y. (2008) Methanocella paludicola gen. nov., sp nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov. Int J Syst Evol Microbiol 58: 929-936.
    • (2008) Int J Syst Evol Microbiol , vol.58 , pp. 929-936
    • Sakai, S.1    Imachi, H.2    Hanada, S.3    Ohashi, A.4    Harada, H.5    Kamagata, Y.6
  • 105
    • 34447540346 scopus 로고    scopus 로고
    • Isolation of key methanogens for global methane emission from rice paddy fields: a novel isolate affiliated with the clone cluster rice cluster I
    • Sakai, S., Imachi, H., Sekiguchi, Y., Ohashi, A., Harada, H., and Kamagata, Y. (2007) Isolation of key methanogens for global methane emission from rice paddy fields: a novel isolate affiliated with the clone cluster rice cluster I. Appl Environ Microbiol 73: 4326-4331.
    • (2007) Appl Environ Microbiol , vol.73 , pp. 4326-4331
    • Sakai, S.1    Imachi, H.2    Sekiguchi, Y.3    Ohashi, A.4    Harada, H.5    Kamagata, Y.6
  • 106
    • 77955262675 scopus 로고    scopus 로고
    • Methanocella arvoryzae sp. nov., a hydrogenotrophic methanogen, isolated from Italian rice field soil
    • Sakai, S., Conrad, R., Liesack, W., and Imachi, H. (2010) Methanocella arvoryzae sp. nov., a hydrogenotrophic methanogen, isolated from Italian rice field soil. Int J Syst Evol Microbiol 60: 2918-2923.
    • (2010) Int J Syst Evol Microbiol , vol.60 , pp. 2918-2923
    • Sakai, S.1    Conrad, R.2    Liesack, W.3    Imachi, H.4
  • 107
    • 0442313599 scopus 로고    scopus 로고
    • Effect of ammonium addition on methanogenic community in a fluidized bed anaerobic digestion
    • Sawayama, S., Tada, C., Tsukahara, K., and Yagishita, T. (2004) Effect of ammonium addition on methanogenic community in a fluidized bed anaerobic digestion. J Biosci Bioeng 97: 65-70.
    • (2004) J Biosci Bioeng , vol.97 , pp. 65-70
    • Sawayama, S.1    Tada, C.2    Tsukahara, K.3    Yagishita, T.4
  • 108
    • 24644524183 scopus 로고    scopus 로고
    • Phylogenetic description of immobilized methanogenic community using real-time PCR in a fixed-bed anaerobic digester
    • Sawayama, S., Tsukahara, K., and Yagishita, T. (2006) Phylogenetic description of immobilized methanogenic community using real-time PCR in a fixed-bed anaerobic digester. Bioresour Technol 97: 69-76.
    • (2006) Bioresour Technol , vol.97 , pp. 69-76
    • Sawayama, S.1    Tsukahara, K.2    Yagishita, T.3
  • 109
    • 44849095951 scopus 로고    scopus 로고
    • Human methanogen diversity and incidence in healthy and diseased colonic group using mcrA gene analysis
    • Scanlan, P.D., Shanahan, F., and Marchesi, J.R. (2008) Human methanogen diversity and incidence in healthy and diseased colonic group using mcrA gene analysis. BMC Microbiol 8: 79.
    • (2008) BMC Microbiol , vol.8 , pp. 79
    • Scanlan, P.D.1    Shanahan, F.2    Marchesi, J.R.3
  • 110
    • 0030871461 scopus 로고    scopus 로고
    • Energetics of syntrophic cooperation in methanogenic degradation
    • Schink, B. (1997) Energetics of syntrophic cooperation in methanogenic degradation. Microbiol Mol Biol Rev 61: 262-280.
    • (1997) Microbiol Mol Biol Rev , vol.61 , pp. 262-280
    • Schink, B.1
  • 111
    • 34249937959 scopus 로고    scopus 로고
    • Yet-to-be cultured microorganisms relevant to methane fermentation processes
    • Sekiguchi, Y. (2006) Yet-to-be cultured microorganisms relevant to methane fermentation processes. Microbes Environ 21: 1-15.
    • (2006) Microbes Environ , vol.21 , pp. 1-15
    • Sekiguchi, Y.1
  • 112
    • 32044469186 scopus 로고    scopus 로고
    • Microbial community structure and functions in methane fermentation technology for wastewater treatment
    • Nakano, M.M., and Zuber, P. (eds). Norfolk, UK: Horizon Bioscience
    • Sekiguchi, Y., and Kamagata, Y. (2004) Microbial community structure and functions in methane fermentation technology for wastewater treatment. In Strict and Facultative Anaerobes: Medical and Environmental Aspects. Nakano, M.M., and Zuber, P. (eds). Norfolk, UK: Horizon Bioscience, pp. 361-384.
    • (2004) Strict and Facultative Anaerobes: Medical and Environmental Aspects , pp. 361-384
    • Sekiguchi, Y.1    Kamagata, Y.2
  • 113
    • 0033027522 scopus 로고    scopus 로고
    • Fluorescence in situ hybridization using 16S rRNA-targeted oligonucleotides reveals localization of methanogens and selected uncultured bacteria in mesophilic and thermophilic sludge granules
    • Sekiguchi, Y., Kamagata, Y., Nakamura, K., Ohashi, A., and Harada, H. (1999) Fluorescence in situ hybridization using 16S rRNA-targeted oligonucleotides reveals localization of methanogens and selected uncultured bacteria in mesophilic and thermophilic sludge granules. Appl Environ Microbiol 65: 1280-1288.
    • (1999) Appl Environ Microbiol , vol.65 , pp. 1280-1288
    • Sekiguchi, Y.1    Kamagata, Y.2    Nakamura, K.3    Ohashi, A.4    Harada, H.5
  • 114
    • 25144455895 scopus 로고    scopus 로고
    • Sequence-specific cleavage of 16S rRNA for rapid and quantitative detection of particular groups of anaerobes in bioreactors
    • Sekiguchi, Y., Uyeno, Y., Sunaga, A., Yoshida, H., and Kamagata, Y. (2005) Sequence-specific cleavage of 16S rRNA for rapid and quantitative detection of particular groups of anaerobes in bioreactors. Water Sci Technol 52: 107-113.
    • (2005) Water Sci Technol , vol.52 , pp. 107-113
    • Sekiguchi, Y.1    Uyeno, Y.2    Sunaga, A.3    Yoshida, H.4    Kamagata, Y.5
  • 116
    • 0346494968 scopus 로고    scopus 로고
    • Effect of dilution rate on structure of a mesophilic acetate-degrading methanogenic community during continuous cultivation
    • Shigematsu, T., Tang, Y.Q., Kawaguchi, H., Ninomiya, K., Kijima, J., Kobayashi, T., etal. (2003) Effect of dilution rate on structure of a mesophilic acetate-degrading methanogenic community during continuous cultivation. J Biosci Bioeng 96: 547-558.
    • (2003) J Biosci Bioeng , vol.96 , pp. 547-558
    • Shigematsu, T.1    Tang, Y.Q.2    Kawaguchi, H.3    Ninomiya, K.4    Kijima, J.5    Kobayashi, T.6
  • 117
    • 3242791914 scopus 로고    scopus 로고
    • Effect of dilution rate on metabolic pathway shift between aceticlastic and nonaceticlastic methanogenesis in chemostat cultivation
    • Shigematsu, T., Tang, Y.Q., Kobayashi, T., Kawaguchi, H., Morimura, S., and Kida, K. (2004) Effect of dilution rate on metabolic pathway shift between aceticlastic and nonaceticlastic methanogenesis in chemostat cultivation. Appl Environ Microbiol 70: 4048-4052.
    • (2004) Appl Environ Microbiol , vol.70 , pp. 4048-4052
    • Shigematsu, T.1    Tang, Y.Q.2    Kobayashi, T.3    Kawaguchi, H.4    Morimura, S.5    Kida, K.6
  • 118
    • 35448929039 scopus 로고    scopus 로고
    • Phylogenetic analysis and fluorescence in situ hybridization detection of archaeal and bacterial endosymbionts in the anaerobic ciliate Trimyema compressum
    • Shinzato, N., Watanabe, I., Meng, X.Y., Sekiguchi, Y., Tamaki, H., Matsui, T., and Kamagata, Y. (2007) Phylogenetic analysis and fluorescence in situ hybridization detection of archaeal and bacterial endosymbionts in the anaerobic ciliate Trimyema compressum. Microb Ecol 54: 627-636.
    • (2007) Microb Ecol , vol.54 , pp. 627-636
    • Shinzato, N.1    Watanabe, I.2    Meng, X.Y.3    Sekiguchi, Y.4    Tamaki, H.5    Matsui, T.6    Kamagata, Y.7
  • 119
    • 4544357886 scopus 로고    scopus 로고
    • 16S ribosomal DNA-directed PCR primers for ruminal methanogens and identification of methanogens colonising young lambs
    • Skillman, L.C., Evans, P.N., Naylor, G.E., Morvan, B., Jarvis, G.N., and Joblin, K.N. (2004) 16S ribosomal DNA-directed PCR primers for ruminal methanogens and identification of methanogens colonising young lambs. Anaerobe 10: 277-285.
    • (2004) Anaerobe , vol.10 , pp. 277-285
    • Skillman, L.C.1    Evans, P.N.2    Naylor, G.E.3    Morvan, B.4    Jarvis, G.N.5    Joblin, K.N.6
  • 120
    • 38049110686 scopus 로고    scopus 로고
    • Shifts in methanogen community structure and function associated with long-term manipulation of sulfate and salinity in a hypersaline microbial mat
    • Smith, J.M., Green, S.J., Kelley, C.A., Prufert-Bebout, L., and Bebout, B.M. (2008) Shifts in methanogen community structure and function associated with long-term manipulation of sulfate and salinity in a hypersaline microbial mat. Environ Microbiol 10: 386-394.
    • (2008) Environ Microbiol , vol.10 , pp. 386-394
    • Smith, J.M.1    Green, S.J.2    Kelley, C.A.3    Prufert-Bebout, L.4    Bebout, B.M.5
  • 121
    • 0030903377 scopus 로고    scopus 로고
    • An improved enzyme-linked immunosorbent assay for whole-cell determination of methanogens in samples from anaerobic reactors
    • Sorensen, A.H., and Ahring, B.K. (1997) An improved enzyme-linked immunosorbent assay for whole-cell determination of methanogens in samples from anaerobic reactors. Appl Environ Microbiol 63: 2001-2006.
    • (1997) Appl Environ Microbiol , vol.63 , pp. 2001-2006
    • Sorensen, A.H.1    Ahring, B.K.2
  • 122
    • 0029068827 scopus 로고
    • Partial gene sequences for the A subunit of methyl-coenzyme M reductase (mcrI) as a phylogenetic tool for the family Methanosarcinaceae
    • Springer, E., Sachs, M.S., Woese, C.R., and Boone, D.R. (1995) Partial gene sequences for the A subunit of methyl-coenzyme M reductase (mcrI) as a phylogenetic tool for the family Methanosarcinaceae. Int J Syst Bacteriol 45: 554-559.
    • (1995) Int J Syst Bacteriol , vol.45 , pp. 554-559
    • Springer, E.1    Sachs, M.S.2    Woese, C.R.3    Boone, D.R.4
  • 123
    • 0003341851 scopus 로고
    • Development and application of nucleic acid probes
    • In Stackebrandt, E., and Goodfellow, M. (eds). Chichester, UK: Wiley
    • Stahl, D.A., and Amann, R. (1991) Development and application of nucleic acid probes. In Nucleic Acid Techniques in Bacterial Systematics. Stackebrandt, E., and Goodfellow, M. (eds). Chichester, UK: Wiley, pp. 205-248.
    • (1991) Nucleic Acid Techniques in Bacterial Systematics , pp. 205-248
    • Stahl, D.A.1    Amann, R.2
  • 124
    • 0024005650 scopus 로고
    • Use of phylogenetically based hybridization probes for studies of ruminal microbial ecology
    • Stahl, D.A., Flesher, B., Mansfield, H.R., and Montgomery, L. (1988) Use of phylogenetically based hybridization probes for studies of ruminal microbial ecology. Appl Environ Microbiol 54: 1079-1084.
    • (1988) Appl Environ Microbiol , vol.54 , pp. 1079-1084
    • Stahl, D.A.1    Flesher, B.2    Mansfield, H.R.3    Montgomery, L.4
  • 125
    • 55049121420 scopus 로고    scopus 로고
    • Phylogenetic comparison of the methanogenic communities from an acidic, oligotrophic fen and an anaerobic digester treating municipal wastewater sludge
    • Steinberg, L.M., and Regan, J.M. (2008) Phylogenetic comparison of the methanogenic communities from an acidic, oligotrophic fen and an anaerobic digester treating municipal wastewater sludge. Appl Environ Microbiol 74: 6663-6671.
    • (2008) Appl Environ Microbiol , vol.74 , pp. 6663-6671
    • Steinberg, L.M.1    Regan, J.M.2
  • 126
    • 67649582926 scopus 로고    scopus 로고
    • mcrA-targeted real-time quantitative PCR method to examine methanogen communities
    • Steinberg, L.M., and Regan, J.M. (2009) mcrA-targeted real-time quantitative PCR method to examine methanogen communities. Appl Environ Microbiol 75: 4435-4442.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 4435-4442
    • Steinberg, L.M.1    Regan, J.M.2
  • 128
    • 69449083604 scopus 로고    scopus 로고
    • DNA-stable isotope probing integrated with metagenomics for retrieval of biphenyl dioxygenase genes from polychlorinated biphenyl-contaminated river sediment
    • Sul, W.J., Park, J., Quensen, J.F., Rodrigues, J.L.M., Seliger, L., Tsoi, T.V., etal. (2009) DNA-stable isotope probing integrated with metagenomics for retrieval of biphenyl dioxygenase genes from polychlorinated biphenyl-contaminated river sediment. Appl Environ Microbiol 75: 5501-5506.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 5501-5506
    • Sul, W.J.1    Park, J.2    Quensen, J.F.3    Rodrigues, J.L.M.4    Seliger, L.5    Tsoi, T.V.6
  • 129
    • 77954089492 scopus 로고    scopus 로고
    • Importance of the methanogenic archaea populations in anaerobic wastewater treatments
    • Tabatabaei, M., Rahim, R.A., Abdullah, N., Wright, A.-D.G., Shirai, Y., Sakai, K., etal. (2010) Importance of the methanogenic archaea populations in anaerobic wastewater treatments. Process Biochem 45: 1214-1225.
    • (2010) Process Biochem , vol.45 , pp. 1214-1225
    • Tabatabaei, M.1    Rahim, R.A.2    Abdullah, N.3    Wright, A.-D.4    Shirai, Y.5    Sakai, K.6
  • 131
    • 43049141567 scopus 로고    scopus 로고
    • Evaluation of molecular methods used for establishing the interactions and functions of microorganisms in anaerobic bioreactors
    • Talbot, G., Topp, E., Palin, M.F., and Masse, D.I. (2008) Evaluation of molecular methods used for establishing the interactions and functions of microorganisms in anaerobic bioreactors. Water Res 42: 513-537.
    • (2008) Water Res , vol.42 , pp. 513-537
    • Talbot, G.1    Topp, E.2    Palin, M.F.3    Masse, D.I.4
  • 132
    • 17044419261 scopus 로고    scopus 로고
    • Microbial community analysis of mesophilic anaerobic protein degradation process using bovine serum albumin (BSA)-fed continuous cultivation
    • Tang, Y.Q., Shigematsu, T., Morimura, S., and Kida, K. (2005) Microbial community analysis of mesophilic anaerobic protein degradation process using bovine serum albumin (BSA)-fed continuous cultivation. J Biosci Bioeng 99: 150-164.
    • (2005) J Biosci Bioeng , vol.99 , pp. 150-164
    • Tang, Y.Q.1    Shigematsu, T.2    Morimura, S.3    Kida, K.4
  • 134
    • 0031685510 scopus 로고    scopus 로고
    • Biochemistry of methanogenesis: a tribute to Marjory Stephenson
    • Thauer, R.K. (1998) Biochemistry of methanogenesis: a tribute to Marjory Stephenson. Microbiology 144: 2377-2406.
    • (1998) Microbiology , vol.144 , pp. 2377-2406
    • Thauer, R.K.1
  • 135
    • 41349105149 scopus 로고    scopus 로고
    • Methane as fuel for anaerobic microorganisms
    • Thauer, R.K., and Shima, S. (2008) Methane as fuel for anaerobic microorganisms. Ann N Y Acad Sci 1125: 158-170.
    • (2008) Ann N Y Acad Sci , vol.1125 , pp. 158-170
    • Thauer, R.K.1    Shima, S.2
  • 136
    • 84920629237 scopus 로고    scopus 로고
    • A renaissance for the pioneering 16S rRNA gene
    • Tringe, S.G., and Hugenholtz, P. (2008) A renaissance for the pioneering 16S rRNA gene. Curr Opin Microbiol 11: 442-446.
    • (2008) Curr Opin Microbiol , vol.11 , pp. 442-446
    • Tringe, S.G.1    Hugenholtz, P.2
  • 137
    • 29444441352 scopus 로고    scopus 로고
    • Microbial origin of excess methane in glacial ice and implications for life on Mars
    • Tung, H.C., Bramall, N.E., and Price, P.B. (2005) Microbial origin of excess methane in glacial ice and implications for life on Mars. Proc Natl Acad Sci USA 102: 18292-18296.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 18292-18296
    • Tung, H.C.1    Bramall, N.E.2    Price, P.B.3
  • 138
    • 34548204320 scopus 로고    scopus 로고
    • Development of a swine-specific fecal pollution marker based on host differences in methanogen mcrA genes
    • Ufnar, J.A., Ufnar, D.F., Wang, S.Y., and Ellender, R.D. (2007) Development of a swine-specific fecal pollution marker based on host differences in methanogen mcrA genes. Appl Environ Microbiol 73: 5209-5217.
    • (2007) Appl Environ Microbiol , vol.73 , pp. 5209-5217
    • Ufnar, J.A.1    Ufnar, D.F.2    Wang, S.Y.3    Ellender, R.D.4
  • 139
    • 2942526895 scopus 로고    scopus 로고
    • Sequence-specific cleavage of small-subunit (SSU) rRNA with oligonucleotides and RNase H: a rapid and simple approach to SSU rRNA-based quantitative detection of microorganisms
    • Uyeno, Y., Sekiguchi, Y., Sunaga, A., Yoshida, H., and Kamagata, Y. (2004) Sequence-specific cleavage of small-subunit (SSU) rRNA with oligonucleotides and RNase H: a rapid and simple approach to SSU rRNA-based quantitative detection of microorganisms. Appl Environ Microbiol 70: 3650-3663.
    • (2004) Appl Environ Microbiol , vol.70 , pp. 3650-3663
    • Uyeno, Y.1    Sekiguchi, Y.2    Sunaga, A.3    Yoshida, H.4    Kamagata, Y.5
  • 140
    • 53349103161 scopus 로고    scopus 로고
    • Methanosarcina as the dominant aceticlastic methanogens during mesophilic anaerobic digestion of putrescible waste
    • Vavilin, V.A., Qu, X., Mazeas, L., Lemunier, M., Duquennoi, C., He, P.J., and Bouchez, T. (2008) Methanosarcina as the dominant aceticlastic methanogens during mesophilic anaerobic digestion of putrescible waste. Antonie Van Leeuwenhoek 94: 593-605.
    • (2008) Antonie Van Leeuwenhoek , vol.94 , pp. 593-605
    • Vavilin, V.A.1    Qu, X.2    Mazeas, L.3    Lemunier, M.4    Duquennoi, C.5    He, P.J.6    Bouchez, T.7
  • 141
    • 47049110230 scopus 로고    scopus 로고
    • Quantitative analysis of three hydrogenotrophic microbial groups, methanogenic archaea, sulfate-reducing bacteria, and acetogenic bacteria, within plaque biofilms associated with human periodontal disease
    • Vianna, M.E., Holtgraewe, S., Seyfarth, I., Conrads, G., and Horz, H.P. (2008) Quantitative analysis of three hydrogenotrophic microbial groups, methanogenic archaea, sulfate-reducing bacteria, and acetogenic bacteria, within plaque biofilms associated with human periodontal disease. J Bacteriol 190: 3779-3785.
    • (2008) J Bacteriol , vol.190 , pp. 3779-3785
    • Vianna, M.E.1    Holtgraewe, S.2    Seyfarth, I.3    Conrads, G.4    Horz, H.P.5
  • 142
    • 0025752539 scopus 로고
    • Diversity and population dynamics of methanogenic bacteria in a granular consortium
    • Visser, F.A., van Lier, J.B., Macario, A.J.L., and de Macario, E.C. (1991) Diversity and population dynamics of methanogenic bacteria in a granular consortium. Appl Environ Microbiol 57: 1728-1734.
    • (1991) Appl Environ Microbiol , vol.57 , pp. 1728-1734
    • Visser, F.A.1    van Lier, J.B.2    Macario, A.J.L.3    de Macario, E.C.4
  • 143
    • 63849227208 scopus 로고    scopus 로고
    • GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent
    • Wang, F.P., Zhou, H.Y., Meng, J., Peng, X.T., Jiang, L.J., Sun, P., etal. (2009) GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent. Proc Natl Acad Sci USA 106: 4840-4845.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 4840-4845
    • Wang, F.P.1    Zhou, H.Y.2    Meng, J.3    Peng, X.T.4    Jiang, L.J.5    Sun, P.6
  • 144
    • 4644371897 scopus 로고    scopus 로고
    • Water table related variations in the abundance of intact archaeal membrane lipids in a Swedish peat bog
    • Weijers, J.W.H., Schouten, S., van der Linden, M., van Geel, B., and Damste, J.S.S. (2004) Water table related variations in the abundance of intact archaeal membrane lipids in a Swedish peat bog. FEMS Microbiol Lett 239: 51-56.
    • (2004) FEMS Microbiol Lett , vol.239 , pp. 51-56
    • Weijers, J.W.H.1    Schouten, S.2    van der Linden, M.3    van Geel, B.4    Damste, J.S.S.5
  • 145
    • 0141643392 scopus 로고    scopus 로고
    • Improved strategy for presumptive identification of methanogens using 16S riboprinting
    • Wright, A.D.G., and Pimm, C. (2003) Improved strategy for presumptive identification of methanogens using 16S riboprinting. J Microbiol Methods 55: 337-349.
    • (2003) J Microbiol Methods , vol.55 , pp. 337-349
    • Wright, A.D.G.1    Pimm, C.2
  • 146
    • 34547105830 scopus 로고    scopus 로고
    • Quantitative multiplexing analysis of PCR-amplified ribosomal RNA genes by hierarchical oligonucleotide primer extension reaction
    • Wu, J.H., and Liu, W.T. (2007) Quantitative multiplexing analysis of PCR-amplified ribosomal RNA genes by hierarchical oligonucleotide primer extension reaction. Nucleic Acids Res 35: e82.
    • (2007) Nucleic Acids Res , vol.35
    • Wu, J.H.1    Liu, W.T.2
  • 147
    • 0034251959 scopus 로고    scopus 로고
    • Phylogenetic analysis of methanogens in sheep rumen ecosystem and detection of Methanomicrobium mobile by fluorescence in situ hybridization
    • Yanagita, K., Kamagata, Y., Kawaharasaki, M., Suzuki, T., Nakamura, Y., and Minato, H. (2000) Phylogenetic analysis of methanogens in sheep rumen ecosystem and detection of Methanomicrobium mobile by fluorescence in situ hybridization. Biosci Biotechnol Biochem 64: 1737-1742.
    • (2000) Biosci Biotechnol Biochem , vol.64 , pp. 1737-1742
    • Yanagita, K.1    Kamagata, Y.2    Kawaharasaki, M.3    Suzuki, T.4    Nakamura, Y.5    Minato, H.6
  • 148
    • 52149085893 scopus 로고    scopus 로고
    • The All-Species Living Tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains
    • Yarza, P., Richter, M., Peplies, J., Euzeby, J., Amann, R., Schleifer, K.H., etal. (2008) The All-Species Living Tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. Syst Appl Microbiol 31: 241-250.
    • (2008) Syst Appl Microbiol , vol.31 , pp. 241-250
    • Yarza, P.1    Richter, M.2    Peplies, J.3    Euzeby, J.4    Amann, R.5    Schleifer, K.H.6
  • 149
    • 80051838815 scopus 로고    scopus 로고
    • Methanoregula formicica sp. nov., a novel methane-producing archaeon isolated from methanogenic sludge
    • (in press): doi: 10.1099/ijs.1090.014811-014810.
    • Yashiro, Y., Sakai, S., Ehara, M., Miyazaki, M., Yamaguchi, T., and Imachi, H. (2009) Methanoregula formicica sp. nov., a novel methane-producing archaeon isolated from methanogenic sludge. Int J Syst Evol Microbiol (in press): doi: 10.1099/ijs.1090.014811-014810.
    • (2009) Int J Syst Evol Microbiol
    • Yashiro, Y.1    Sakai, S.2    Ehara, M.3    Miyazaki, M.4    Yamaguchi, T.5    Imachi, H.6
  • 150
    • 16344363305 scopus 로고    scopus 로고
    • Group-specific primer and probe sets to detect methanogenic communities using quantitative real-time polymerase chain reaction
    • Yu, Y., Lee, C., Kim, J., and Hwang, S. (2005) Group-specific primer and probe sets to detect methanogenic communities using quantitative real-time polymerase chain reaction. Biotechnol Bioeng 89: 670-679.
    • (2005) Biotechnol Bioeng , vol.89 , pp. 670-679
    • Yu, Y.1    Lee, C.2    Kim, J.3    Hwang, S.4
  • 151
    • 32544443771 scopus 로고    scopus 로고
    • Use of real-time PCR for group-specific quantification of aceticlastic methanogens in anaerobic processes: population dynamics and community structures
    • Yu, Y., Kim, J., and Hwang, S. (2006) Use of real-time PCR for group-specific quantification of aceticlastic methanogens in anaerobic processes: population dynamics and community structures. Biotechnol Bioeng 93: 424-433.
    • (2006) Biotechnol Bioeng , vol.93 , pp. 424-433
    • Yu, Y.1    Kim, J.2    Hwang, S.3
  • 152
    • 38949203871 scopus 로고    scopus 로고
    • Evaluations of different hypervariable regions of archaeal 16S rRNA genes in profiling of methanogens denaturing by Archaea-specific PCR and gradient gel electrophoresis
    • Yu, Z.T., Garcia-Gonzalez, R., Schanbacher, F.L., and Morrison, M. (2008) Evaluations of different hypervariable regions of archaeal 16S rRNA genes in profiling of methanogens denaturing by Archaea-specific PCR and gradient gel electrophoresis. Appl Environ Microbiol 74: 889-893.
    • (2008) Appl Environ Microbiol , vol.74 , pp. 889-893
    • Yu, Z.T.1    Garcia-Gonzalez, R.2    Schanbacher, F.L.3    Morrison, M.4
  • 153
    • 54449098595 scopus 로고    scopus 로고
    • Methanogenesis from methanol at low temperatures by a novel psychrophilic methanogen, 'Methanolobus psychrophilus' sp nov., prevalent in Zoige wetland of the Tibetan plateau
    • Zhang, G.S., Jiang, N., Liu, X.L., and Dong, X.Z. (2008a) Methanogenesis from methanol at low temperatures by a novel psychrophilic methanogen, 'Methanolobus psychrophilus' sp nov., prevalent in Zoige wetland of the Tibetan plateau. Appl Environ Microbiol 74: 6114-6120.
    • (2008) Appl Environ Microbiol , vol.74 , pp. 6114-6120
    • Zhang, G.S.1    Jiang, N.2    Liu, X.L.3    Dong, X.Z.4
  • 154
    • 44849083800 scopus 로고    scopus 로고
    • Methanogen community in Zoige wetland of Tibetan plateau and phenotypic characterization of a dominant uncultured methanogen cluster ZC-I
    • Zhang, G.S., Tian, J.Q., Jiang, N., Guo, X.P., Wang, Y.F., and Dong, X.Z. (2008b) Methanogen community in Zoige wetland of Tibetan plateau and phenotypic characterization of a dominant uncultured methanogen cluster ZC-I. Environ Microbiol 10: 1850-1860.
    • (2008) Environ Microbiol , vol.10 , pp. 1850-1860
    • Zhang, G.S.1    Tian, J.Q.2    Jiang, N.3    Guo, X.P.4    Wang, Y.F.5    Dong, X.Z.6
  • 155
    • 33644776725 scopus 로고    scopus 로고
    • Applications of real-time polymerase chain reaction for quantification of microorganisms in environmental samples
    • Zhang, T., and Fang, H.H.P. (2006) Applications of real-time polymerase chain reaction for quantification of microorganisms in environmental samples. Appl Microbiol Biotechnol 70: 281-289.
    • (2006) Appl Microbiol Biotechnol , vol.70 , pp. 281-289
    • Zhang, T.1    Fang, H.H.P.2
  • 156
    • 0033949682 scopus 로고    scopus 로고
    • Quantification of Methanosaeta species in anaerobic bioreactors using genus- and species-specific hybridization probes
    • Zheng, D., and Raskin, L. (2000) Quantification of Methanosaeta species in anaerobic bioreactors using genus- and species-specific hybridization probes. Microbial Ecol 39: 246-262.
    • (2000) Microbial Ecol , vol.39 , pp. 246-262
    • Zheng, D.1    Raskin, L.2
  • 157
    • 33745195235 scopus 로고    scopus 로고
    • Monitoring granule formation in anaerobic upflow bioreactors using oligonucleotide hybridization probes
    • Zheng, D., Angenent, L.T., and Raskin, L. (2006) Monitoring granule formation in anaerobic upflow bioreactors using oligonucleotide hybridization probes. Biotechnol Bioeng 94: 458-472.
    • (2006) Biotechnol Bioeng , vol.94 , pp. 458-472
    • Zheng, D.1    Angenent, L.T.2    Raskin, L.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.