메뉴 건너뛰기




Volumn 27, Issue , 2014, Pages 55-64

Linking microbial community structure, interactions and function in anaerobic digesters using new molecular techniques

Author keywords

[No Author keywords available]

Indexed keywords

ANAEROBIC DIGESTION; CHEMICAL ANALYSIS; CHEMICAL STABILITY; IMAGING TECHNIQUES; ISOTOPES; PULP DIGESTERS;

EID: 84888425488     PISSN: 09581669     EISSN: 18790429     Source Type: Journal    
DOI: 10.1016/j.copbio.2013.11.004     Document Type: Review
Times cited : (294)

References (65)
  • 1
    • 84856373733 scopus 로고    scopus 로고
    • Culture-independent methods for studying environmental microorganisms: methods, application, and perspective
    • Su C., Lei L., Duan Y., Zhang K.-Q., Yang J. Culture-independent methods for studying environmental microorganisms: methods, application, and perspective. Appl Microbiol Biotechnol 2012, 93:993-1003.
    • (2012) Appl Microbiol Biotechnol , vol.93 , pp. 993-1003
    • Su, C.1    Lei, L.2    Duan, Y.3    Zhang, K.-Q.4    Yang, J.5
  • 2
    • 84874566601 scopus 로고    scopus 로고
    • Beyond the genome: community-level analysis of the microbial world
    • Zarraonaindia I., Smith D.P., Gilbert J.A. Beyond the genome: community-level analysis of the microbial world. Biol Philos 2013, 28:261-282.
    • (2013) Biol Philos , vol.28 , pp. 261-282
    • Zarraonaindia, I.1    Smith, D.P.2    Gilbert, J.A.3
  • 3
    • 78651479564 scopus 로고    scopus 로고
    • Anaerobic digestion from the viewpoint of microbiological, chemical, and operational aspects-a review
    • Amani T., Norsati M., Sreekrishnan T.R. Anaerobic digestion from the viewpoint of microbiological, chemical, and operational aspects-a review. Environ Rev 2010, 18:255-278.
    • (2010) Environ Rev , vol.18 , pp. 255-278
    • Amani, T.1    Norsati, M.2    Sreekrishnan, T.R.3
  • 4
    • 63849266008 scopus 로고    scopus 로고
    • Insights into networks of functional microbes catalysing methanization of cellulose under mesophilic conditions
    • Li T., Mazeas L., Sghir A., Lebion G., Bouchez T. Insights into networks of functional microbes catalysing methanization of cellulose under mesophilic conditions. Environ Microbiol 2009, 11:889-904.
    • (2009) Environ Microbiol , vol.11 , pp. 889-904
    • Li, T.1    Mazeas, L.2    Sghir, A.3    Lebion, G.4    Bouchez, T.5
  • 6
    • 0028946084 scopus 로고
    • Phylogenetic identification and in situ detection of individual microbial cells without cultivation
    • Amann R.I., Ludwig W., Schleifer K.H. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 1995, 59:143-169.
    • (1995) Microbiol Rev , vol.59 , pp. 143-169
    • Amann, R.I.1    Ludwig, W.2    Schleifer, K.H.3
  • 8
    • 84865543454 scopus 로고    scopus 로고
    • Identification and quantification of key microbial trophic groups of methanogenic glucose degradation in an anaerobic digester sludge
    • Ito T., Yoshiguchi K., Ariesyada H.D., Okabe S. Identification and quantification of key microbial trophic groups of methanogenic glucose degradation in an anaerobic digester sludge. Bioresour Technol 2012, 123:599-607.
    • (2012) Bioresour Technol , vol.123 , pp. 599-607
    • Ito, T.1    Yoshiguchi, K.2    Ariesyada, H.D.3    Okabe, S.4
  • 9
    • 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., Masse D.I. Evaluation of molecular methods used for establishing the interactions and functions of microorganisms in anaerobic bioreactors. Water Res 2008, 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
  • 10
    • 84867900820 scopus 로고    scopus 로고
    • Relationships between microbial activity and microbial community structure in six full-scale anaerobic digesters
    • Regueiro L., Veiga P., Figueroa M., Alonso-Gutierrez J., Stams A.J.M., Lema J.M., Carballa M. Relationships between microbial activity and microbial community structure in six full-scale anaerobic digesters. Microbiol Res 2012, 167:581-589.
    • (2012) Microbiol Res , vol.167 , pp. 581-589
    • Regueiro, L.1    Veiga, P.2    Figueroa, M.3    Alonso-Gutierrez, J.4    Stams, A.J.M.5    Lema, J.M.6    Carballa, M.7
  • 11
    • 84888138996 scopus 로고    scopus 로고
    • Drivers of microbial community composition in mesophilic and thermophilic temperature-phased anaerobic digestion pre-treatment reactors
    • Pervin H.M., GDennis P.G., Lim H.J., Tyson G.W., Batstone D.J., Bond P.L. Drivers of microbial community composition in mesophilic and thermophilic temperature-phased anaerobic digestion pre-treatment reactors. Water Res 2013, 10.1016/j.watres.2013.07.053.
    • (2013) Water Res
    • Pervin, H.M.1    GDennis, P.G.2    Lim, H.J.3    Tyson, G.W.4    Batstone, D.J.5    Bond, P.L.6
  • 12
    • 84885066588 scopus 로고    scopus 로고
    • Methanosarcinaceae and acetate oxidising pathways dominate in high-rate thermophilic anaerobic digestion of waste activated sludge
    • Ho D.P., Jensen P.D., Batstone D.J. Methanosarcinaceae and acetate oxidising pathways dominate in high-rate thermophilic anaerobic digestion of waste activated sludge. Appl Environ Microbiol 2013, 10.1128/AEM.01730-13.
    • (2013) Appl Environ Microbiol
    • Ho, D.P.1    Jensen, P.D.2    Batstone, D.J.3
  • 13
    • 78651500184 scopus 로고    scopus 로고
    • A meta-analysis of the microbial diversity observed in anaerobic digesters
    • Nelson M.C., Morrison M., Yu Z. A meta-analysis of the microbial diversity observed in anaerobic digesters. Bioresour Technol 2011, 102:3730-3739.
    • (2011) Bioresour Technol , vol.102 , pp. 3730-3739
    • Nelson, M.C.1    Morrison, M.2    Yu, Z.3
  • 15
    • 84863686384 scopus 로고    scopus 로고
    • Monitoring bacterial community structure and variability in time scale in full-scale anaerobic digesters
    • Lee S.-H., Kang H.-J., Lee Y.H., Lee T.J., Han K., Choi Y., Park H.-D. Monitoring bacterial community structure and variability in time scale in full-scale anaerobic digesters. J Environ Monit 2012, 14:1893-1905.
    • (2012) J Environ Monit , vol.14 , pp. 1893-1905
    • Lee, S.-H.1    Kang, H.-J.2    Lee, Y.H.3    Lee, T.J.4    Han, K.5    Choi, Y.6    Park, H.-D.7
  • 16
    • 84856716159 scopus 로고    scopus 로고
    • Detecting metabolic activities in single cells, with emphasis on nanoSIMS
    • Musat N., Foster R., Vagner T., Adam B., Kuypers M.M.M. Detecting metabolic activities in single cells, with emphasis on nanoSIMS. FEMS Microbiol Rev 2011, 36:486-511.
    • (2011) FEMS Microbiol Rev , vol.36 , pp. 486-511
    • Musat, N.1    Foster, R.2    Vagner, T.3    Adam, B.4    Kuypers, M.M.M.5
  • 17
    • 84865339798 scopus 로고    scopus 로고
    • Describing microbial communities and performing global comparisons in the 'omic era
    • Delmont T.O., Simonet P., vogel T.M. Describing microbial communities and performing global comparisons in the 'omic era. ISME J 2012, 6:1625-1628.
    • (2012) ISME J , vol.6 , pp. 1625-1628
    • Delmont, T.O.1    Simonet, P.2    vogel, T.M.3
  • 18
    • 84878014463 scopus 로고    scopus 로고
    • Microbial community structure and dynamics during anaerobic digestion of various agricultural waste materials
    • Ziganshin A.M., Liebetrau J., Proter J., Kleinsteuber S. Microbial community structure and dynamics during anaerobic digestion of various agricultural waste materials. Appl Microbiol Biotechnol 2013, 97:5161-5174.
    • (2013) Appl Microbiol Biotechnol , vol.97 , pp. 5161-5174
    • Ziganshin, A.M.1    Liebetrau, J.2    Proter, J.3    Kleinsteuber, S.4
  • 19
    • 71749116268 scopus 로고    scopus 로고
    • Focused-pulsed sludge pre-treatment increases the bacterial diversity and relative abundance of acetoclastic methanogens in a full-scale anaerobic digester
    • Zhang H., Banaszak J.E., Parameswaran P., Alder J., Krajmalnik-Brown R., Rittmann B.E. Focused-pulsed sludge pre-treatment increases the bacterial diversity and relative abundance of acetoclastic methanogens in a full-scale anaerobic digester. Water Res 2009, 43:4517-4526.
    • (2009) Water Res , vol.43 , pp. 4517-4526
    • Zhang, H.1    Banaszak, J.E.2    Parameswaran, P.3    Alder, J.4    Krajmalnik-Brown, R.5    Rittmann, B.E.6
  • 23
    • 69549129476 scopus 로고    scopus 로고
    • The rare biosphere-a reality check
    • Reeder J., Knight R. The rare biosphere-a reality check. Nat Methods 2009, 6:636-637.
    • (2009) Nat Methods , vol.6 , pp. 636-637
    • Reeder, J.1    Knight, R.2
  • 24
    • 53649088131 scopus 로고    scopus 로고
    • Applications of next-generation sequencing technologies in functional genomics
    • Morozova O., Marra M.A. Applications of next-generation sequencing technologies in functional genomics. Genomics 2008, 92:255-264.
    • (2008) Genomics , vol.92 , pp. 255-264
    • Morozova, O.1    Marra, M.A.2
  • 26
    • 4143136662 scopus 로고    scopus 로고
    • Ecological significance of microdiversity: identical 16S rRNA gene sequences can be found in bacteria with highly divergent genomes and ecophysiologies
    • Jaspers E., Overmann J. Ecological significance of microdiversity: identical 16S rRNA gene sequences can be found in bacteria with highly divergent genomes and ecophysiologies. Appl Environ Microbiol 2004, 70:4831-4839.
    • (2004) Appl Environ Microbiol , vol.70 , pp. 4831-4839
    • Jaspers, E.1    Overmann, J.2
  • 27
    • 84878647680 scopus 로고    scopus 로고
    • Comparative metagenomic and rRNA microbial diversity characterization using archaeal and bacterial synthetic communities
    • Shakya M., Quice C., Campbell J.H., Yang Z.K., Schadt C.W., Podar M. Comparative metagenomic and rRNA microbial diversity characterization using archaeal and bacterial synthetic communities. Environ Microbiol 2013, 15:1882-1899.
    • (2013) Environ Microbiol , vol.15 , pp. 1882-1899
    • Shakya, M.1    Quice, C.2    Campbell, J.H.3    Yang, Z.K.4    Schadt, C.W.5    Podar, M.6
  • 28
    • 84868091529 scopus 로고    scopus 로고
    • Metagenomics: microbial diversity through a scratched lens
    • Temperton B., Giovannoni S.J. Metagenomics: microbial diversity through a scratched lens. Curr Opin Microbiol 2012, 15:605-612.
    • (2012) Curr Opin Microbiol , vol.15 , pp. 605-612
    • Temperton, B.1    Giovannoni, S.J.2
  • 33
    • 84875031108 scopus 로고    scopus 로고
    • Towards a metagenomic understanding on enhanced biomethane production from waste activated sludge after pH 10 pretreatment
    • Wong M.T., Zhang D., Li J., Hui R.K.H., Tun H.M., SBrar M.S., Park T.-J., Chen Y., Leung F.C. Towards a metagenomic understanding on enhanced biomethane production from waste activated sludge after pH 10 pretreatment. Biotechnol Biofuels 2013, 6:1-14.
    • (2013) Biotechnol Biofuels , vol.6 , pp. 1-14
    • Wong, M.T.1    Zhang, D.2    Li, J.3    Hui, R.K.H.4    Tun, H.M.5    SBrar, M.S.6    Park, T.-J.7    Chen, Y.8    Leung, F.C.9
  • 34
    • 84861801813 scopus 로고    scopus 로고
    • Characterization of a biogas-producing microbial community by short-read next generation DNA sequencing
    • Wirth R., Kovacs E., Maroti G., Bagi Z., Rakhely G., Kovacs K.L. Characterization of a biogas-producing microbial community by short-read next generation DNA sequencing. Biotechnol Biofuels 2012, 5:1-16.
    • (2012) Biotechnol Biofuels , vol.5 , pp. 1-16
    • Wirth, R.1    Kovacs, E.2    Maroti, G.3    Bagi, Z.4    Rakhely, G.5    Kovacs, K.L.6
  • 35
    • 84872151297 scopus 로고    scopus 로고
    • A pyrosequencing-based metagenomic study of methane-producing microbial community in solid-state biogas reactor
    • Li A., Chu Y., Wang X., Ren L., Yu J., Liu X., Yan J., Zhang L., Wu S., Li S. A pyrosequencing-based metagenomic study of methane-producing microbial community in solid-state biogas reactor. Biotechnol Biofuels 2013, 6:1-17.
    • (2013) Biotechnol Biofuels , vol.6 , pp. 1-17
    • Li, A.1    Chu, Y.2    Wang, X.3    Ren, L.4    Yu, J.5    Liu, X.6    Yan, J.7    Zhang, L.8    Wu, S.9    Li, S.10
  • 38
    • 84879678051 scopus 로고    scopus 로고
    • Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes
    • Albertsen M., Hugenholtz P., Skarshewski A., Nielsen K.A., Tyson G.W., Nielsen P.H. Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes. Nat Biotechnol 2013, 31:533-538.
    • (2013) Nat Biotechnol , vol.31 , pp. 533-538
    • Albertsen, M.1    Hugenholtz, P.2    Skarshewski, A.3    Nielsen, K.A.4    Tyson, G.W.5    Nielsen, P.H.6
  • 39
    • 84880075952 scopus 로고    scopus 로고
    • Feedstocks affect the diversity and distribution of propionate CoA-transferase genes (pct) in anaerobic digesters
    • Li Y.-F., Wei S., Yu Z. Feedstocks affect the diversity and distribution of propionate CoA-transferase genes (pct) in anaerobic digesters. Environ Microbiol 2013, 66:351-362.
    • (2013) Environ Microbiol , vol.66 , pp. 351-362
    • Li, Y.-F.1    Wei, S.2    Yu, Z.3
  • 40
    • 81855185536 scopus 로고    scopus 로고
    • Identification of a novel acetate-utilizing bacterium belonging to Synergistes group 4 in anaerobic digester sludge
    • Ito T., Yoshiguchi K., Ariesyada H.D., Okabe S. Identification of a novel acetate-utilizing bacterium belonging to Synergistes group 4 in anaerobic digester sludge. ISME 2011, 5:1844-1856.
    • (2011) ISME , vol.5 , pp. 1844-1856
    • Ito, T.1    Yoshiguchi, K.2    Ariesyada, H.D.3    Okabe, S.4
  • 41
    • 26844447711 scopus 로고    scopus 로고
    • Genome-directed isolation of the key nitrogen fixer Leptospirillum ferrodiazotrophum sp. nov. from an acidophilic microbial community
    • Tyson G.W., Ian L., Baker B.J., Allen E.E., Hugenholtz P., Banfield J.F. Genome-directed isolation of the key nitrogen fixer Leptospirillum ferrodiazotrophum sp. nov. from an acidophilic microbial community. Appl Environ Microbiol 2005, 71:6319-6324.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 6319-6324
    • Tyson, G.W.1    Ian, L.2    Baker, B.J.3    Allen, E.E.4    Hugenholtz, P.5    Banfield, J.F.6
  • 50
    • 84878207383 scopus 로고    scopus 로고
    • Monitoring methanogenic population dynamics in a full-scale anaerobic digester to facilitate operational management
    • Williams J., Williams H., Dinsdale R., Guwy A., Esteves S. Monitoring methanogenic population dynamics in a full-scale anaerobic digester to facilitate operational management. Bioresour Technol 2013, 140:234-242.
    • (2013) Bioresour Technol , vol.140 , pp. 234-242
    • Williams, J.1    Williams, H.2    Dinsdale, R.3    Guwy, A.4    Esteves, S.5
  • 51
    • 80052232531 scopus 로고    scopus 로고
    • Segregation of biomass in cyclic anaerobic-aerobic granular sludge allows the enrichment of anaerobic ammonium oxidizing bacteria at low temperatures
    • Winkler M.K.H., Kleerebezem R., Kuenen J.G., Yang J., van Loosdrecht M.C.M. Segregation of biomass in cyclic anaerobic-aerobic granular sludge allows the enrichment of anaerobic ammonium oxidizing bacteria at low temperatures. Environ Sci Technol 2011, 45:7330-7337.
    • (2011) Environ Sci Technol , vol.45 , pp. 7330-7337
    • Winkler, M.K.H.1    Kleerebezem, R.2    Kuenen, J.G.3    Yang, J.4    van Loosdrecht, M.C.M.5
  • 52
    • 84896408702 scopus 로고    scopus 로고
    • Shearing of biofilms enables selective layer based microbial sampling and analysis
    • Lu Y., Slater F., Bello-Mendoza R., Batstone D.J. Shearing of biofilms enables selective layer based microbial sampling and analysis. Biotechnol Bioeng 2013, 110:2600-2605.
    • (2013) Biotechnol Bioeng , vol.110 , pp. 2600-2605
    • Lu, Y.1    Slater, F.2    Bello-Mendoza, R.3    Batstone, D.J.4
  • 53
  • 54
    • 84877338299 scopus 로고    scopus 로고
    • Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities
    • Hettich R.L., Pan C., Chourey K., Giannone R.J. Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities. Anal Chem 2013, 85:4203-4214.
    • (2013) Anal Chem , vol.85 , pp. 4203-4214
    • Hettich, R.L.1    Pan, C.2    Chourey, K.3    Giannone, R.J.4
  • 56
    • 77149152780 scopus 로고    scopus 로고
    • Environmental proteomics: analysis of structure and function of microbial communities
    • Schneider T., Riekel K. Environmental proteomics: analysis of structure and function of microbial communities. Proteomics 2010, 10:785-798.
    • (2010) Proteomics , vol.10 , pp. 785-798
    • Schneider, T.1    Riekel, K.2
  • 57
  • 58
    • 84879603340 scopus 로고    scopus 로고
    • Metagenome and metaproteome analyses of microbial communities in mesophilic biogas-producing anaerobic batch fermentations indicate concerted plant carbohydrate degradation
    • Hanreich A., Schimpf U., Zakrzewski M., Schluter A., Benndorf D., Heyer R., Rapp E., Puhler A., Reichl U., Klocke M. Metagenome and metaproteome analyses of microbial communities in mesophilic biogas-producing anaerobic batch fermentations indicate concerted plant carbohydrate degradation. Syst Appl Microbiol 2013, 36:330-338.
    • (2013) Syst Appl Microbiol , vol.36 , pp. 330-338
    • Hanreich, A.1    Schimpf, U.2    Zakrzewski, M.3    Schluter, A.4    Benndorf, D.5    Heyer, R.6    Rapp, E.7    Puhler, A.8    Reichl, U.9    Klocke, M.10
  • 59
    • 16244402990 scopus 로고    scopus 로고
    • Metabolomics: current analytical platforms and methodologies
    • Dunn W.B., Ellis D.I. Metabolomics: current analytical platforms and methodologies. Trends Anal Chem 2005, 24:285-294.
    • (2005) Trends Anal Chem , vol.24 , pp. 285-294
    • Dunn, W.B.1    Ellis, D.I.2
  • 61
    • 33747815789 scopus 로고    scopus 로고
    • Metabolomics: methodologies and applications in the environmental sciences
    • Lin C.Y., Viant M.R., Tjeerdema R.S. Metabolomics: methodologies and applications in the environmental sciences. J Pesticide Sci 2006, 31:245-251.
    • (2006) J Pesticide Sci , vol.31 , pp. 245-251
    • Lin, C.Y.1    Viant, M.R.2    Tjeerdema, R.S.3
  • 63
    • 33746591373 scopus 로고    scopus 로고
    • MAR-FISH-an ecophysiological approach to link phylogenetic affiliation and in situ metabolic activity of microorganisms at a singe-cell resolution
    • Okabe S., Kindaichi T., Ito T. MAR-FISH-an ecophysiological approach to link phylogenetic affiliation and in situ metabolic activity of microorganisms at a singe-cell resolution. Microb Environ 2004, 19:83-98.
    • (2004) Microb Environ , vol.19 , pp. 83-98
    • Okabe, S.1    Kindaichi, T.2    Ito, T.3
  • 65
    • 66349107635 scopus 로고    scopus 로고
    • Methods for unveiling cryptic microbial partnerships in nature
    • Orphan V.J. Methods for unveiling cryptic microbial partnerships in nature. Curr Opin Microbiol 2009, 12:231-237.
    • (2009) Curr Opin Microbiol , vol.12 , pp. 231-237
    • Orphan, V.J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.