메뉴 건너뛰기




Volumn 8, Issue 7, 2014, Pages 1492-1502

Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803

Author keywords

alginate; Bacteroidetes; laminarin; polysaccharide utilization locus; proteomics; TonB dependent transporter

Indexed keywords

ALGA; BACTERIOLOGY; BACTERIUM; BIODEGRADATION; CARBON CYCLE; FUNCTIONAL ROLE; MARINE ECOSYSTEM; MICROBIAL ECOLOGY; POLYSACCHARIDE; PROTEIN; PROTEOMICS;

EID: 84903381348     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2014.4     Document Type: Article
Times cited : (172)

References (49)
  • 2
    • 34548718221 scopus 로고    scopus 로고
    • Microbial structuring of marine ecosystems
    • DOI 10.1038/nrmicro1747, PII NRMICRO1747
    • Azam F, Malfatti F. (2007). Microbial structuring of marine ecosystems. Nat Rev Microbiol 5: 782-791. (Pubitemid 47423766
    • (2007) Nature Reviews Microbiology , vol.5 , Issue.10 , pp. 782-791
    • Azam, F.1    Malfatti, F.2
  • 3
    • 0033963089 scopus 로고    scopus 로고
    • The enzyme database in 2000
    • Bairoch A. (2000). The ENZYME database in 2000. Nucleic Acids Res 28: 304-305
    • (2000) Nucleic Acids Res , vol.28 , pp. 304-305
    • Bairoch, A.1
  • 4
    • 33750907710 scopus 로고    scopus 로고
    • Whole genome analysis of the marine Bacteroidetes 'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter
    • Bauer M, Kube M, Teeling H, Richter M, Lombardot T, Allers E et al. (2006). Whole genome analysis of the marine Bacteroidetes 'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter. Environ Microbiol 8: 2201-2213
    • (2006) Environ Microbiol , vol.8 , pp. 2201-2213
    • Bauer, M.1    Kube, M.2    Teeling, H.3    Richter, M.4    Lombardot, T.5    Allers, E.6
  • 5
    • 0001401772 scopus 로고
    • Studies on the metabolism of the Chrysophyceae
    • Beattie A, Hirst EL, Percival E. (1961). Studies on the metabolism of the Chrysophyceae. Biochem J 79: 531-537
    • (1961) Biochem J , vol.79 , pp. 531-537
    • Beattie, A.1    Hirst, E.L.2    Percival, E.3
  • 8
    • 0035205390 scopus 로고    scopus 로고
    • Biochemical analysis of interactions between outer membrane proteins that contribute to starch utilization by Bacteroides thetaiotaomicron
    • DOI 10.1128/JB.183.24.7224-7230.2001
    • Cho KH, Salyers AA. (2001). Biochemical analyis of interactions between outer membrane proteins that contribute to starch utilization by Bacteroides thetaiotaomicron. J Bacteriol 183: 7224-7230. (Pubitemid 33121857
    • (2001) Journal of Bacteriology , vol.183 , Issue.24 , pp. 7224-7230
    • Cho, K.H.1    Salyers, A.A.2
  • 9
    • 0141851349 scopus 로고    scopus 로고
    • A review of the biochemistry of heavy metal biosorption by brown algae
    • DOI 10.1016/S0043-1354(03)00293-8
    • Davis TA, Volesky B, Mucci A. (2003). A review of the biochemistry of heavy metal biosorption by brown algae. Water Res 37: 4311-4330. (Pubitemid 37152425
    • (2003) Water Research , vol.37 , Issue.18 , pp. 4311-4330
    • Davis, T.A.1    Volesky, B.2    Mucci, A.3
  • 11
    • 0035514014 scopus 로고    scopus 로고
    • Isolation of novel pelagic bacteria from the german bight and their seasonal contributions to surface picoplankton
    • Eilers H, Pernthaler J, Peplies J, Glöckner FO, Gerdts G, Amann R. (2001). Isolation of novel pelagic bacteria from the German bight and their seasonal contributions to surface picoplankton. Appl Environ Microbiol 67: 5134-5142. (Pubitemid 33701281
    • (2001) Applied and Environmental Microbiology , vol.67 , Issue.3-12 , pp. 5134-5142
    • Eilers, H.1    Pernthaler, J.2    Peplies, J.3    Glockner, F.O.4    Gerdts, G.5    Amann, R.6
  • 13
    • 0032503986 scopus 로고    scopus 로고
    • Primary production of the biosphere: Integrating terrestrial and oceanic components
    • DOI 10.1126/science.281.5374.237
    • Field CB, Behrenfeld MJ, Randerson JT, Falkowski P. (1998). Primary production of the biosphere: Integrating terrestrial and oceanic components. Science 281: 237-240. (Pubitemid 28334501
    • (1998) Science , vol.281 , Issue.5374 , pp. 237-240
    • Field, C.B.1    Behrenfeld, M.J.2    Randerson, J.T.3    Falkowski, P.4
  • 16
    • 84855279700 scopus 로고    scopus 로고
    • Genomic content of uncultured Bacteroidetes from contrasting oceanic provinces in the North Atlantic Ocean
    • Gomez-Pereira PR, Schü ler M, Fuchs BM, Bennke C, Teeling H, Waldmann J et al. (2012). Genomic content of uncultured Bacteroidetes from contrasting oceanic provinces in the North Atlantic Ocean. Environ Microbiol 14: 52-66
    • (2012) Environ Microbiol , vol.14 , pp. 52-66
    • Gomez-Pereira, P.R.1    Schüler, M.2    Fuchs, B.M.3    Bennke, C.4    Teeling, H.5    Waldmann, J.6
  • 19
    • 0001702531 scopus 로고
    • A study of the constitution of alginic acid by partial acid hydrolysis
    • Haug A, Larsen B, Smidsrod O. (1966). A study of the constitution of alginic acid by partial acid hydrolysis. Acta Chem Scand 20: 183-190
    • (1966) Acta Chem Scand , vol.20 , pp. 183-190
    • Haug, A.1    Larsen, B.2    Smidsrod, O.3
  • 20
    • 77950847866 scopus 로고    scopus 로고
    • Transfer of carbohydrate-Active enzymes from marine bacteria to Japanese gut microbiota
    • Hehemann JH, Correc G, Barbeyron T, Helbert W, Czjzek M, Michel G. (2010). Transfer of carbohydrate-Active enzymes from marine bacteria to Japanese gut microbiota. Nature 464: 908-914
    • (2010) Nature , vol.464 , pp. 908-914
    • Hehemann, J.H.1    Correc, G.2    Barbeyron, T.3    Helbert, W.4    Czjzek, M.5    Michel, G.6
  • 21
    • 84870351198 scopus 로고    scopus 로고
    • Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-Active enzyme updates from extrinsic microbes
    • Hehemann JH, Kelly AG, Pudlo NA, Martens EC, Boraston AB. (2012). Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-Active enzyme updates from extrinsic microbes. Proc Natl Acad Sci USA 109: 19786-19791
    • (2012) Proc Natl Acad Sci USA , vol.109 , pp. 19786-19791
    • Hehemann, J.H.1    Kelly, A.G.2    Pudlo, N.A.3    Martens, E.C.4    Boraston, A.B.5
  • 23
    • 0036774262 scopus 로고    scopus 로고
    • Archaeal surface layer proteins contain β propeller, PKD, and β helix domains and are related to metazoan cell surface proteins
    • DOI 10.1016/S0969-2126(02)00840-7, PII S0969212602008407
    • Jing H, Takagi J, Liu JH, Lindgren S, Zhang RG, Joachimiak A et al. (2002). Archael surface layer proteins contain beta propeller, PKD, and beta helix domains and are related to metazoan cell surface proteins. Structure 10: 1453-1464. (Pubitemid 35232388
    • (2002) Structure , vol.10 , Issue.10 , pp. 1453-1464
    • Jing, H.1    Takagi, J.2    Liu, J.3    Lindgren, S.4    Zhang, R.5    Joachimiak, A.6    Wang, J.7    Springer, T.A.8
  • 24
    • 0036207009 scopus 로고    scopus 로고
    • The ecology of Cytophaga-Flavobacteria in aquatic environments
    • Kirchman DL. (2002). The ecology of Cytophaga-Flavobacteria in aquatic environments. FEMS Microbiol Ecol 39: 91-100
    • (2002) FEMS Microbiol Ecol , vol.39 , pp. 91-100
    • Kirchman, D.L.1
  • 25
    • 23044457742 scopus 로고    scopus 로고
    • TonB-dependent trans-envelope signalling: The exception or the rule?
    • Koebnik R. (2005). TonB-dependent trans-envelope signalling: The exception or the rule? Trends Microbiol 13: 343-347
    • (2005) Trends Microbiol , vol.13 , pp. 343-347
    • Koebnik, R.1
  • 27
    • 78651364685 scopus 로고    scopus 로고
    • TonB or not TonB: Is that the questioñ
    • Krewulak KD, Vogel HJ. (2011). TonB or not TonB: Is that the questioñ Biochem Cell Biol 89: 87-97
    • (2011) Biochem Cell Biol , vol.89 , pp. 87-97
    • Krewulak, K.D.1    Vogel, H.J.2
  • 28
    • 0346122950 scopus 로고    scopus 로고
    • A correlation algorithm for the automated quantitative analysis of shotgun proteomics data
    • DOI 10.1021/ac034790h
    • MacCoss MJ, Wu CC, Liu H, Sadygov R, Yates JR III. (2003). A correlation algorithm for the automated quantitative analysis of shotgun proteomics data. Anal Chem 75: 6912-6921. (Pubitemid 37523592
    • (2003) Analytical Chemistry , vol.75 , Issue.24 , pp. 6912-6921
    • MacCoss, M.J.1    Wu, C.C.2    Liu, H.3    Sadygov, R.4    Yates III, J.R.5
  • 29
    • 79960976768 scopus 로고    scopus 로고
    • UniProt Knowledgebase: A hub of integrated protein data. Database
    • UniProt consortium doi:10.1093/database/bar009
    • Magrane M, UniProt consortium (2011). UniProt Knowledgebase: A hub of integrated protein data. Database: The Journal of Biological Databases and Curation: Bar009, doi:10.1093/database/bar009
    • (2011) The Journal of Biological Databases and Curation: Bar009
    • Magrane, M.1
  • 30
    • 69949094849 scopus 로고    scopus 로고
    • Complex glycan metabolism by the human gut microbiota: The Bacteroidetes Sus-like paradigm
    • Martens EC, Koropatkin NM, Smith TJ, Gordon JI. (2009). Complex glycan metabolism by the human gut microbiota: The Bacteroidetes Sus-like paradigm. J Biol Chem 284: 24673-24677
    • (2009) J Biol Chem , vol.284 , pp. 24673-24677
    • Martens, E.C.1    Koropatkin, N.M.2    Smith, T.J.3    Gordon, J.I.4
  • 31
    • 84855173898 scopus 로고    scopus 로고
    • Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts
    • Martens EC, Lowe EC, Chiang H, Pudlo NA, Wu M, McNulty NP et al. (2011). Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol 9: E1001221
    • (2011) PLoS Biol , vol.9
    • Martens, E.C.1    Lowe, E.C.2    Chiang, H.3    Pudlo, N.A.4    Wu, M.5    McNulty, N.P.6
  • 32
    • 77951497989 scopus 로고    scopus 로고
    • Comparative metaproteomics reveals ocean-scale shift in microbial nutrient utilization and energy transduction
    • Morris RM, Nunn BL, Frazar C, Goodlett DR, Ting YS, Rocap G. (2010). Comparative metaproteomics reveals ocean-scale shift in microbial nutrient utilization and energy transduction. ISME J 4: 673-685
    • (2010) ISME J , vol.4 , pp. 673-685
    • Morris, R.M.1    Nunn, B.L.2    Frazar, C.3    Goodlett, D.R.4    Ting, Y.S.5    Rocap, G.6
  • 34
    • 41549117597 scopus 로고    scopus 로고
    • A quantitative analysis software tool for mass spectrometry-based proteomics
    • DOI 10.1038/nmeth.1195, PII NMETH.1195
    • Park SK, Venable JD, Xu T, Yates JR III. (2008). A quantitative analysis software tool for mass spectrometry-based proteomics. Nat Methods 5: 319-322. (Pubitemid 351459367
    • (2008) Nature Methods , vol.5 , Issue.4 , pp. 319-322
    • Park, S.K.1    Venable, J.D.2    Xu, T.3    Yates III, J.R.4
  • 36
    • 73849154299 scopus 로고
    • Alginic acid metabolism in bacteria. II. The enzymatic reduction of 4-deoxy-Lerythro-5-hexoseulose uronic acid to 2-keto-3-deoxy-D-gluconic acid
    • Preiss J, Ashwell G. (1962). Alginic acid metabolism in bacteria. II. The enzymatic reduction of 4-deoxy-Lerythro-5-hexoseulose uronic acid to 2-keto-3-deoxy-D-gluconic acid. J Biol Chem 237: 317-321
    • (1962) J Biol Chem , vol.237 , pp. 317-321
    • Preiss, J.1    Ashwell, G.2
  • 38
    • 79958812659 scopus 로고    scopus 로고
    • Genome-wide protein localization prediction strategies for gram negative bacteria
    • Romine MF. (2011). Genome-wide protein localization prediction strategies for gram negative bacteria. BMC Genomics 12(Suppl 1): S1
    • (2011) BMC Genomics , vol.12 , Issue.SUPPL.1
    • Romine, M.F.1
  • 39
    • 0037311919 scopus 로고    scopus 로고
    • TM4: A free, open-source system for microarray data management and analysis
    • Saeed AI, Sharov V,White J, Li J, LiangW, Bhagabati N et al. (2003). TM4: A free, open-source system for microarray data management and analysis. Biotechniques 34: 374
    • (2003) Biotechniques , vol.34 , pp. 374
    • Saeed, A.I.1    Sharov, V.2    White, J.3    Li, J.4    Liang, W.5    Bhagabati, N.6
  • 40
    • 46149094595 scopus 로고    scopus 로고
    • New substrates for TonB-dependent transport: Do we only see the 'tip of the iceberg'?
    • Schauer K, Rodionov DA, de Reuse HD. (2008). New substrates for TonB-dependent transport: Do we only see the 'tip of the iceberg'? Trends Biochem Sci 33: 330-338
    • (2008) Trends Biochem Sci , vol.33 , pp. 330-338
    • Schauer, K.1    Rodionov, D.A.2    De Reuse, H.D.3
  • 41
    • 0033802036 scopus 로고    scopus 로고
    • Characterization of four outer membrane proteins involved in binding starch to the cell surface of Bacteroides thetaiotaomicron
    • Shipmann JA, Berleman JE, Salyers AA. (2000). Characterization of four outer membrane proteins involved in binding starch to the cell surface of Bacteroides thetaiotaomicron. J Bacteriol 182: 5365-5372
    • (2000) J Bacteriol , vol.182 , pp. 5365-5372
    • Shipmann, J.A.1    Berleman, J.E.2    Salyers, A.A.3
  • 42
    • 0027337265 scopus 로고
    • Isolation of typical marine bacteria by dilution culture: Growth, maintenance, and characteristics of isolates under laboratory conditions
    • Schut F, de Vries EJ, Gottschal JC, Robertson BR, Harder W, Prins RA et al. (1993). Isolation of typical marine bacteria by dilution culture: Growth, maintenance, and characteristics of isolates under laboratory conditions. Appl Environ Microbiol 59: 2150-2160
    • (1993) Appl Environ Microbiol , vol.59 , pp. 2150-2160
    • Schut, F.1    De Vries, E.J.2    Gottschal, J.C.3    Robertson, B.R.4    Harder, W.5    Prins, R.A.6
  • 43
    • 77953901767 scopus 로고    scopus 로고
    • Specificity of polysaccharide use in intestinal bacteroides species determines diet-induced microbiota alterations
    • Sonnenburg ED, Zheng H, Joglekar P, Higginbottom SK, Firbank SJ, Bolam DN et al. (2010). Specificity of polysaccharide use in intestinal bacteroides species determines diet-induced microbiota alterations. Cell 141: 1241-1252
    • (2010) Cell , vol.141 , pp. 1241-1252
    • Sonnenburg, E.D.1    Zheng, H.2    Joglekar, P.3    Higginbottom, S.K.4    Firbank, S.J.5    Bolam, D.N.6
  • 44
    • 84864027270 scopus 로고    scopus 로고
    • Distribution and functions of TonB-dependent transporters in marine bacteria and environments: Implications for dissolved organic matter utilization
    • Tang K, Jiao N, Liu K, Zhang Y, Li S. (2012). Distribution and functions of TonB-dependent transporters in marine bacteria and environments: Implications for dissolved organic matter utilization. PloS One 7: E41204
    • (2012) PloS One , vol.7
    • Tang, K.1    Jiao, N.2    Liu, K.3    Zhang, Y.4    Li, S.5
  • 46
    • 84860488672 scopus 로고    scopus 로고
    • Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom
    • Teeling H, Fuchs BM, Becher D, Klockow C, Gardebrecht A, Bennke CM et al. (2012). Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom. Science 336: 606-611
    • (2012) Science , vol.336 , pp. 606-611
    • Teeling, H.1    Fuchs, B.M.2    Becher, D.3    Klockow, C.4    Gardebrecht, A.5    Bennke, C.M.6
  • 48
    • 84865791833 scopus 로고    scopus 로고
    • Characterization of the first alginolytic operons in a marine bacterium: From their emergence in marine Flavobacteriia to their independent transfers to marine Proteobacteria and human gut Bacteroides
    • Thomas F, Barbeyron T, Tonon T, Génicot S, Czjzek M, Michel G. (2012). Characterization of the first alginolytic operons in a marine bacterium: From their emergence in marine Flavobacteriia to their independent transfers to marine Proteobacteria and human gut Bacteroides. Environ Microbiol 14: 2379-2394
    • (2012) Environ Microbiol , vol.14 , pp. 2379-2394
    • Thomas, F.1    Barbeyron, T.2    Tonon, T.3    Génicot, S.4    Czjzek, M.5    Michel, G.6
  • 49
    • 84867746722 scopus 로고    scopus 로고
    • A metaproteomic assessment of winter and summer bacterioplankton from Antarctic Peninsula coastal surface waters
    • Williams TJ, Long E, Evans F, DeMaere MZ, Lauro FM, Raftery MJ et al. (2012). A metaproteomic assessment of winter and summer bacterioplankton from Antarctic Peninsula coastal surface waters. ISME J 6: 1883-1900
    • (2012) ISME J , vol.6 , pp. 1883-1900
    • Williams, T.J.1    Long, E.2    Evans, F.3    Demaere, M.Z.4    Lauro, F.M.5    Raftery, M.J.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.