메뉴 건너뛰기




Volumn 79, Issue 5, 2013, Pages 1545-1554

Phylogenetic distribution of potential cellulases in bacteria

Author keywords

[No Author keywords available]

Indexed keywords

AUTOTROPHY; BACTERIAL GENOMES; BACTERIAL LINEAGES; CELLULOSE DEGRADATION; CELLULOSE UTILIZATION; EVOLUTION MODELS; FORM CLUSTERS; FUNCTIONAL TYPES; GENE COMBINATIONS; GENES ENCODING; GLYCOSIDE HYDROLASES; MICROBIAL COMMUNITY COMPOSITION; PHYLOGENETIC DISTRIBUTION; PLANT CELL WALL; SOIL ECOSYSTEMS;

EID: 84874681931     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.03305-12     Document Type: Article
Times cited : (232)

References (58)
  • 1
    • 79959320676 scopus 로고    scopus 로고
    • Microbial diversity of cellulose hydrolysis
    • Wilson DB. 2011. Microbial diversity of cellulose hydrolysis. Curr. Opin. Microbiol. 14:259 -263.
    • (2011) Curr. Opin. Microbiol. , vol.14 , pp. 259-263
    • Wilson, D.B.1
  • 3
    • 20444418677 scopus 로고    scopus 로고
    • Cheaters, diffusion and nutrients constrain decomposition by microbial enzymes in spatially structured environments
    • Allison SD. 2005. Cheaters, diffusion and nutrients constrain decomposition by microbial enzymes in spatially structured environments. Ecol. Lett. 8:626-635.
    • (2005) Ecol. Lett. , vol.8 , pp. 626-635
    • Allison, S.D.1
  • 4
    • 33845361492 scopus 로고    scopus 로고
    • Interactions of bacteria and fungi on decomposing litter: differential extracellular enzyme activities
    • Romaní AM, Fischer H, Mille-Lindblom C, Tranvik LJ. 2006. Interactions of bacteria and fungi on decomposing litter: differential extracellular enzyme activities. Ecology 87:2559 -2569.
    • (2006) Ecology , vol.87 , pp. 2559-2569
    • Romaní, A.M.1    Fischer, H.2    Mille-Lindblom, C.3    Tranvik, L.J.4
  • 5
    • 50049126125 scopus 로고    scopus 로고
    • Colloquium paper: Resistance, resilience, and redundancy in microbial communities
    • Allison SD, Martiny JB. 2008. Colloquium paper: resistance, resilience, and redundancy in microbial communities. Proc. Natl. Acad. Sci. U. S. A. 105(Suppl 1):11512-11519.
    • (2008) Proc. Natl. Acad. Sci. U. S. A. , vol.105 , Issue.SUPPL 1 , pp. 11512-11519
    • Allison, S.D.1    Martiny, J.B.2
  • 6
    • 84864013176 scopus 로고    scopus 로고
    • A trait-based approach for modelling microbial litter decomposition
    • Allison SD. 2012. A trait-based approach for modelling microbial litter decomposition. Ecol. Lett. 15:1058 -1070.
    • (2012) Ecol. Lett. , vol.15 , pp. 1058-1070
    • Allison, S.D.1
  • 7
    • 33646411250 scopus 로고    scopus 로고
    • A theoretical model of litter decay and microbial interaction
    • Moorhead DL, Sinsabaugh RL. 2006. A theoretical model of litter decay and microbial interaction. Ecol. Monogr. 76:151-174.
    • (2006) Ecol. Monogr. , vol.76 , pp. 151-174
    • Moorhead, D.L.1    Sinsabaugh, R.L.2
  • 8
    • 77953219138 scopus 로고    scopus 로고
    • The biochemistry and structural biology of plant cell wall deconstruction
    • Gilbert HJ. 2010. The biochemistry and structural biology of plant cell wall deconstruction. Plant Physiol. 153:444-455.
    • (2010) Plant Physiol , vol.153 , pp. 444-455
    • Gilbert, H.J.1
  • 10
    • 33749394275 scopus 로고    scopus 로고
    • Understanding the biological rationale for the diversity of cellulose-directed carbohydrate-binding modules in prokaryotic enzymes
    • Blake AW, McCartney L, Flint JE, Bolam DN, Boraston AB, Gilbert HJ, Knox JP. 2006. Understanding the biological rationale for the diversity of cellulose-directed carbohydrate-binding modules in prokaryotic enzymes. J. Biol. Chem. 281:29321-29329.
    • (2006) J. Biol. Chem. , vol.281 , pp. 29321-29329
    • Blake, A.W.1    McCartney, L.2    Flint, J.E.3    Bolam, D.N.4    Boraston, A.B.5    Gilbert, H.J.6    Knox, J.P.7
  • 12
    • 33845626641 scopus 로고    scopus 로고
    • How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteria
    • Deutscher J, Francke C, Postma PW. 2006. How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteria. Microbiol. Mol. Biol. Rev. 70:939 -1031.
    • (2006) Microbiol. Mol. Biol. Rev. , vol.70 , pp. 939-1031
    • Deutscher, J.1    Francke, C.2    Postma, P.W.3
  • 13
    • 0034284025 scopus 로고    scopus 로고
    • Binding characteristics of CebR, the regulator of the ceb operon required for cellobiose/cellotriose uptake in Streptomyces reticuli
    • Schlösser A, Aldekamp T, Schrempf H. 2000. Binding characteristics of CebR, the regulator of the ceb operon required for cellobiose/cellotriose uptake in Streptomyces reticuli. FEMS Microbiol. Lett. 190:127-132.
    • (2000) FEMS Microbiol. Lett. , vol.190 , pp. 127-132
    • Schlösser, A.1    Aldekamp, T.2    Schrempf, H.3
  • 14
    • 80955179563 scopus 로고    scopus 로고
    • The phosphoenolpyruvate-dependent glucose-phosphotransferase system from Escherichia coli K-12 as the center of a network regulating carbohydrate flux in the cell
    • Gabor E, Gohler AK, Kosfeld A, Staab A, Kremling A, Jahreis K. 2011. The phosphoenolpyruvate-dependent glucose-phosphotransferase system from Escherichia coli K-12 as the center of a network regulating carbohydrate flux in the cell. Eur. J. Cell Biol. 90:711-720.
    • (2011) Eur. J. Cell Biol. , vol.90 , pp. 711-720
    • Gabor, E.1    Gohler, A.K.2    Kosfeld, A.3    Staab, A.4    Kremling, A.5    Jahreis, K.6
  • 16
    • 0029645404 scopus 로고
    • Structures and mechanisms of glycosyl hydrolases
    • Davies G, Henrissat B. 1995. Structures and mechanisms of glycosyl hydrolases. Structure 3:853- 859.
    • (1995) Structure , vol.3 , pp. 853-859
    • Davies, G.1    Henrissat, B.2
  • 17
    • 78149237868 scopus 로고    scopus 로고
    • Glycoside hydrolases: Catalytic base/ nucleophile diversity
    • Vuong TV, Wilson DB. 2010. Glycoside hydrolases: catalytic base/ nucleophile diversity. Biotechnol. Bioeng. 107:195-205.
    • (2010) Biotechnol. Bioeng. , vol.107 , pp. 195-205
    • Vuong, T.V.1    Wilson, D.B.2
  • 18
    • 27944434246 scopus 로고    scopus 로고
    • Recent structural insights into the expanding world of carbohydrate-active enzymes
    • Davies GJ, Gloster TM, Henrissat B. 2005. Recent structural insights into the expanding world of carbohydrate-active enzymes. Curr. Opin. Struct. Biol. 15:637- 645.
    • (2005) Curr. Opin. Struct. Biol. , vol.15 , pp. 637-645
    • Davies, G.J.1    Gloster, T.M.2    Henrissat, B.3
  • 19
    • 84866500048 scopus 로고    scopus 로고
    • Evolution, substrate specificity and subfamily classification of glycoside hydrolase family 5 (GH5)
    • doi:10.1186/1471-2148-12-186
    • Aspeborg H, Coutinho PM, Wang Y, Brumer H, III, Henrissat B. 2012. Evolution, substrate specificity and subfamily classification of glycoside hydrolase family 5 (GH5). BMC Evol. Biol. 12:186. doi:10.1186/1471 -2148-12-186.
    • (2012) BMC Evol. Biol. , vol.12 , pp. 186
    • Aspeborg, H.1    Coutinho, P.M.2    Wang, Y.3    Brumer III, H.4    Henrissat, B.5
  • 20
    • 0026055308 scopus 로고
    • A classification of glycosyl hydrolases based on amino acid sequence similarities
    • Henrissat B. 1991. A classification of glycosyl hydrolases based on amino acid sequence similarities. Biochem. J. 280(Pt 2):309 -316.
    • (1991) Biochem. J. , vol.280 , Issue.PART 2 , pp. 309-316
    • Henrissat, B.1
  • 21
    • 78149297086 scopus 로고    scopus 로고
    • CAZymes Analysis Toolkit (CAT): Web service for searching and analyzing carbohydrate-active enzymes in a newly sequenced organism using CAZy database
    • Park BH, Karpinets TV, Syed MH, Leuze MR, Uberbacher EC. 2010. CAZymes Analysis Toolkit (CAT): web service for searching and analyzing carbohydrate-active enzymes in a newly sequenced organism using CAZy database. Glycobiology 20:1574 -1584.
    • (2010) Glycobiology , vol.20 , pp. 1574-1584
    • Park, B.H.1    Karpinets, T.V.2    Syed, M.H.3    Leuze, M.R.4    Uberbacher, E.C.5
  • 22
    • 84864442502 scopus 로고    scopus 로고
    • DbCAN: A web resource for automated carbohydrate-active enzyme annotation
    • Yin Y, Mao X, Yang J, Chen X, Mao F, Xu Y. 2012. dbCAN: a web resource for automated carbohydrate-active enzyme annotation. Nucleic Acids Res. 40:W445-W451.
    • (2012) Nucleic Acids Res , vol.40
    • Yin, Y.1    Mao, X.2    Yang, J.3    Chen, X.4    Mao, F.5    Xu, Y.6
  • 23
    • 84875365733 scopus 로고    scopus 로고
    • Phylogenetic conservatism of functional traits in microorganisms
    • Epub ahead of print. doi:10.1038/ismej.2012.160. 13 December
    • Martiny AC, Treseder KK, Pusch GD. 13 December 2012. Phylogenetic conservatism of functional traits in microorganisms. ISME J. [Epub ahead of print.] doi:10.1038/ismej.2012.160.
    • (2012) ISME J.
    • Martiny, A.C.1    Treseder, K.K.2    Pusch, G.D.3
  • 24
    • 84874724019 scopus 로고    scopus 로고
    • Microdiversity of extracellular enzyme genes among sequenced prokaryotic genomes
    • In press
    • Zimmerman AE, Martiny AC, Allison SD. Microdiversity of extracellular enzyme genes among sequenced prokaryotic genomes. ISME J., in press.
    • ISME J.
    • Zimmerman, A.E.1    Martiny, A.C.2    Allison, S.D.3
  • 30
    • 67649399024 scopus 로고    scopus 로고
    • Leading a sheltered life: intracellular pathogens and maintenance of vacuolar compartments
    • Kumar Y, Valdivia RH. 2009. Leading a sheltered life: intracellular pathogens and maintenance of vacuolar compartments. Cell Host Microbe 5:593- 601.
    • (2009) Cell Host Microbe , vol.5 , pp. 593-601
    • Kumar, Y.1    Valdivia, R.H.2
  • 31
    • 0036214650 scopus 로고    scopus 로고
    • Molecular biology of cellulose production in bacteria
    • Römling U. 2002. Molecular biology of cellulose production in bacteria. Res. Microbiol. 153:205-212.
    • (2002) Res. Microbiol. , vol.153 , pp. 205-212
    • Römling, U.1
  • 32
    • 37549027613 scopus 로고    scopus 로고
    • SILVA: A comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    • Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, Peplies J, Glockner FO. 2007. SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res. 35:7188 -7196.
    • (2007) Nucleic Acids Res , vol.35 , pp. 7188-7196
    • Pruesse, E.1    Quast, C.2    Knittel, K.3    Fuchs, B.M.4    Ludwig, W.5    Peplies, J.6    Glockner, F.O.7
  • 33
    • 0033990046 scopus 로고    scopus 로고
    • Phylogenetic analysis using PHYLIP
    • Retief JD. 2000. Phylogenetic analysis using PHYLIP. Methods Mol. Biol. 132:243-258.
    • (2000) Methods Mol. Biol. , vol.132 , pp. 243-258
    • Retief, J.D.1
  • 34
    • 0003437299 scopus 로고    scopus 로고
    • 3.65 ed. Department of Genome Sciences, University of Washington, Seattle, WA
    • Felsenstein J. 2006. PHYLIP (Phylogeny Inference Package), 3.65 ed. Department of Genome Sciences, University of Washington, Seattle, WA.
    • (2006) PHYLIP (Phylogeny Inference Package)
    • Felsenstein, J.1
  • 35
    • 79960004119 scopus 로고    scopus 로고
    • Interactive Tree Of Life v2: Online annotation and display of phylogenetic trees made easy
    • Letunic I, Bork P. 2011. Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy. Nucleic Acids Res. 39:W475- W478.
    • (2011) Nucleic Acids Res , vol.39
    • Letunic, I.1    Bork, P.2
  • 37
    • 1042304216 scopus 로고    scopus 로고
    • APE: analyses of phylogenetics and evolution in R language
    • Paradis E, Claude J, Strimmer K. 2004. APE: analyses of phylogenetics and evolution in R language. Bioinformatics 20:289 -290.
    • (2004) Bioinformatics , vol.20 , pp. 289-290
    • Paradis, E.1    Claude, J.2    Strimmer, K.3
  • 38
    • 77954716600 scopus 로고    scopus 로고
    • Selectivity in mammalian extinction risk and threat types: A new measure of phylogenetic signal strength in binary traits
    • Fritz SA, Purvis A. 2010. Selectivity in mammalian extinction risk and threat types: a new measure of phylogenetic signal strength in binary traits. Conserv. Biol. 24:1042-1051.
    • (2010) Conserv. Biol. , vol.24 , pp. 1042-1051
    • Fritz, S.A.1    Purvis, A.2
  • 39
    • 70349446423 scopus 로고    scopus 로고
    • Insights into bacterial cellulose biosynthesis by functional metagenomics on Antarctic soil samples
    • Berlemont R, Delsaute M, Pipers D, D'Amico S, Feller G, Galleni M, Power P. 2009. Insights into bacterial cellulose biosynthesis by functional metagenomics on Antarctic soil samples. ISME J. 3:1070 -1081.
    • (2009) ISME J , vol.3 , pp. 1070-1081
    • Berlemont, R.1    Delsaute, M.2    Pipers, D.3    D'Amico, S.4    Feller, G.5    Galleni, M.6    Power, P.7
  • 40
    • 47249145687 scopus 로고    scopus 로고
    • A cellulose synthase-like protein involved in hyphal tip growth and morphological differentiation in Streptomyces
    • Xu H, Chater KF, Deng Z, Tao M. 2008. A cellulose synthase-like protein involved in hyphal tip growth and morphological differentiation in Streptomyces. J. Bacteriol. 190:4971- 4978.
    • (2008) J. Bacteriol. , vol.190 , pp. 4971-4978
    • Xu, H.1    Chater, K.F.2    Deng, Z.3    Tao, M.4
  • 41
    • 77952336564 scopus 로고    scopus 로고
    • Paradoxical conservation of a set of three cellulose-targeting genes in Mycobacterium tuberculosis complex organisms
    • Mba Medie F, Ben Salah I, Drancourt M, Henrissat B. 2010. Paradoxical conservation of a set of three cellulose-targeting genes in Mycobacterium tuberculosis complex organisms. Microbiology 156:1468 -1475.
    • (2010) Microbiology , vol.156 , pp. 1468-1475
    • Mba Medie, F.1    Ben Salah, I.2    Drancourt, M.3    Henrissat, B.4
  • 44
    • 11144320832 scopus 로고    scopus 로고
    • Regulation of cellulase synthesis in batch and continuous cultures of Clostridium thermocellum
    • Zhang YH, Lynd LR. 2005. Regulation of cellulase synthesis in batch and continuous cultures of Clostridium thermocellum. J. Bacteriol. 187:99- 106.
    • (2005) J. Bacteriol. , vol.187 , pp. 99-106
    • Zhang, Y.H.1    Lynd, L.R.2
  • 46
    • 84863009629 scopus 로고    scopus 로고
    • Enhanced cellulose degradation by targeted integration of a cohesin-fused beta-glucosidase into the Clostridium thermocellum cellulosome
    • Gefen G, Anbar M, Morag E, Lamed R, Bayer EA. 2012. Enhanced cellulose degradation by targeted integration of a cohesin-fused beta-glucosidase into the Clostridium thermocellum cellulosome. Proc. Natl. Acad. Sci. U. S. A. 109:10298 -10303.
    • (2012) Proc. Natl. Acad. Sci. U. S. A. , vol.109 , pp. 10298-10303
    • Gefen, G.1    Anbar, M.2    Morag, E.3    Lamed, R.4    Bayer, E.A.5
  • 47
    • 0242416602 scopus 로고    scopus 로고
    • Identification of Streptomyces coelicolor proteins that are differentially expressed in the presence of plant material
    • Langlois P, Bourassa S, Poirier GG, Beaulieu C. 2003. Identification of Streptomyces coelicolor proteins that are differentially expressed in the presence of plant material. Appl. Environ. Microbiol. 69:1884 -1889.
    • (2003) Appl. Environ. Microbiol. , vol.69 , pp. 1884-1889
    • Langlois, P.1    Bourassa, S.2    Poirier, G.G.3    Beaulieu, C.4
  • 48
    • 77953631886 scopus 로고    scopus 로고
    • Cellulosomes: highly efficient nanomachines designed to deconstruct plant cell wall complex carbohydrates
    • Fontes CM, Gilbert HJ. 2010. Cellulosomes: highly efficient nanomachines designed to deconstruct plant cell wall complex carbohydrates. Annu. Rev. Biochem. 79:655- 681.
    • (2010) Annu. Rev. Biochem. , vol.79 , pp. 655-681
    • Fontes, C.M.1    Gilbert, H.J.2
  • 51
    • 80055100230 scopus 로고    scopus 로고
    • Evidence of cellulose metabolism by the giant panda gut microbiome
    • Zhu L, Wu Q, Dai J, Zhang S, Wei F. 2011. Evidence of cellulose metabolism by the giant panda gut microbiome. Proc. Natl. Acad. Sci. U. S. A. 108:17714 -17719.
    • (2011) Proc. Natl. Acad. Sci. U. S. A. , vol.108 , pp. 17714-17719
    • Zhu, L.1    Wu, Q.2    Dai, J.3    Zhang, S.4    Wei, F.5
  • 53
    • 78650203175 scopus 로고    scopus 로고
    • Hydrolysis of cellobiose by beta-glucosidase in the presence of soil minerals- interactions at solid-liquid interfaces and effects on enzyme activity levels
    • Lammirato C, Miltner A, Wick LY, Kastner M. 2010. Hydrolysis of cellobiose by beta-glucosidase in the presence of soil minerals- interactions at solid-liquid interfaces and effects on enzyme activity levels. Soil Biol. Biochem. 42:2203-2210.
    • (2010) Soil Biol. Biochem. , vol.42 , pp. 2203-2210
    • Lammirato, C.1    Miltner, A.2    Wick, L.Y.3    Kastner, M.4
  • 56
    • 73349120997 scopus 로고    scopus 로고
    • FIGfams: yet another set of protein families
    • Meyer F, Overbeek R, Rodriguez A. 2009. FIGfams: yet another set of protein families. Nucleic Acids Res. 37:6643- 6654.
    • (2009) Nucleic Acids Res , vol.37 , pp. 6643-6654
    • Meyer, F.1    Overbeek, R.2    Rodriguez, A.3
  • 57
    • 79955969731 scopus 로고    scopus 로고
    • Apo- and cellopentaose-bound structures of the bacterial cellulose synthase subunit BcsZ
    • Mazur O, Zimmer J. 2011. Apo- and cellopentaose-bound structures of the bacterial cellulose synthase subunit BcsZ. J. Biol. Chem. 286:17601- 17606.
    • (2011) J. Biol. Chem. , vol.286 , pp. 17601-17606
    • Mazur, O.1    Zimmer, J.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.