메뉴 건너뛰기




Volumn 6, Issue 6, 2012, Pages 1260-1272

Biogeography and phylogenetic diversity of a cluster of exclusively marine myxobacteria

Author keywords

16S rRNA genes; fosmids; Myxococcales; North Sea

Indexed keywords

BACTERIAL RNA; RNA 16S; SEA WATER;

EID: 84861348879     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2011.190     Document Type: Article
Times cited : (59)

References (54)
  • 2
    • 0032900737 scopus 로고    scopus 로고
    • CRITICA: Coding region identification tool invoking comparative analysis
    • Badger JH, Olsen GJ. (1999). CRITICA: Coding region identification tool invoking comparative analysis. Mol Biol Evol 16: 512-524.
    • (1999) Mol Biol Evol , vol.16 , pp. 512-524
    • Badger, J.H.1    Olsen, G.J.2
  • 3
    • 0034993578 scopus 로고    scopus 로고
    • Is the 16S-23S rRNA internal transcribed spacer region a good tool for use in molecular systematics and population geneticš A case study in cyanobacteria
    • Boyer SL, Flechtner VR, Johansen JR. (2001). Is the 16S-23S rRNA internal transcribed spacer region a good tool for use in molecular systematics and population geneticš A case study in cyanobacteria. Mol Biol Evol 18: 1057-1069.
    • (2001) Mol Biol Evol , vol.18 , pp. 1057-1069
    • Boyer, S.L.1    Flechtner, V.R.2    Johansen, J.R.3
  • 4
    • 0033818173 scopus 로고    scopus 로고
    • Biology and global distribution of myxobacteria in soils
    • Dawid W. (2000). Biology and global distribution of myxobacteria in soils. FEMS Microbiol Rev 24: 403-427.
    • (2000) FEMS Microbiol Rev , vol.24 , pp. 403-427
    • Dawid, W.1
  • 6
    • 33644847782 scopus 로고    scopus 로고
    • Analysis of the first genome fragment from the marine sponge-Associated, novel candidate phylum Poribacteria by environmental genomics
    • Fieseler L, Quaiser A, Schleper C, Hentschel U. (2006). Analysis of the first genome fragment from the marine sponge-Associated, novel candidate phylum Poribacteria by environmental genomics. Environ Microbiol 8: 612-624.
    • (2006) Environ Microbiol , vol.8 , pp. 612-624
    • Fieseler, L.1    Quaiser, A.2    Schleper, C.3    Hentschel, U.4
  • 7
    • 0036328445 scopus 로고    scopus 로고
    • Haliangium ochraceum gen. Nov., Sp. Nov. And Haliangium tepidum sp. nov.: Novel moderately halophilic myxobacteria isolated from coastal saline environments
    • Foudou R, Jojima Y, Yamanaka S. (2002). Haliangium ochraceum gen. nov., sp. nov. and Haliangium tepidum sp. nov.: Novel moderately halophilic myxobacteria isolated from coastal saline environments. J Gen Appl Microbiol 48: 109-116.
    • (2002) J Gen Appl Microbiol , vol.48 , pp. 109-116
    • Foudou, R.1    Jojima, Y.2    Yamanaka, S.3
  • 8
    • 78049356036 scopus 로고    scopus 로고
    • Expanded phylogeny of myxobacteria and evidence for cultivation of the 'unculturables
    • Garcia R, Gerth K, Stadler M, Dogma IJ, Müller R. (2010). Expanded phylogeny of myxobacteria and evidence for cultivation of the 'unculturables'. Mol Phylogenet Evol 57: 878-887.
    • (2010) Mol Phylogenet Evol , vol.57 , pp. 878-887
    • Garcia, R.1    Gerth, K.2    Stadler, M.3    Dogma, I.J.4    Müller, R.5
  • 9
    • 0142164488 scopus 로고    scopus 로고
    • Myxobacteria: Proficient producers of novel natural products with various biological activities -past and future biotechnological aspects with the focus on the genus Sorangium
    • Gerth K, Pradella S, Perlova O, Beyer S, Müller R. (2003). Myxobacteria: Proficient producers of novel natural products with various biological activities -past and future biotechnological aspects with the focus on the genus Sorangium. J Biotechnol 106: 233-253.
    • (2003) J Biotechnol , vol.106 , pp. 233-253
    • Gerth, K.1    Pradella, S.2    Perlova, O.3    Beyer, S.4    Müller, R.5
  • 10
    • 68249112686 scopus 로고    scopus 로고
    • Distribution of Roseobacter RCA and SAR11 lineages and distinct bacterial communities from the subtropics to the Southern Ocean
    • Giebel HA, Brinkhoff T, Zwisler W, Selje N, Simon M. (2009). Distribution of Roseobacter RCA and SAR11 lineages and distinct bacterial communities from the subtropics to the Southern Ocean. Environ Microbiol 11: 2164-2178.
    • (2009) Environ Microbiol , vol.11 , pp. 2164-2178
    • Giebel, H.A.1    Brinkhoff, T.2    Zwisler, W.3    Selje, N.4    Simon, M.5
  • 14
    • 0037444091 scopus 로고    scopus 로고
    • ZCURVE: A new system for recognizing protein-coding genes in bacterial and archaeal genomes
    • Guo FB, Ou HY, Zhang CT. (2003). ZCURVE: A new system for recognizing protein-coding genes in bacterial and archaeal genomes. Nucleic Acids Res 31: 1780-1789.
    • (2003) Nucleic Acids Res , vol.31 , pp. 1780-1789
    • Guo, F.B.1    Ou, H.Y.2    Zhang, C.T.3
  • 16
    • 0037216056 scopus 로고    scopus 로고
    • Plesiocystis pacifica gen. nov., sp. nov., a marine myxobacterium that contains dihydrogenated menaquinone, isolated from the Pacific coasts of Japan
    • Iizuka T, Jojima Y, Fudou R, Hiraishi A, Ahn JW, Yamanaka S. (2003a). Plesiocystis pacifica gen. nov., sp. nov., a marine myxobacterium that contains dihydrogenated menaquinone, isolated from the Pacific coasts of Japan. J System Evol Microbiol 53: 189-195.
    • (2003) J System Evol Microbiol , vol.53 , pp. 189-195
    • Iizuka, T.1    Jojima, Y.2    Fudou, R.3    Hiraishi, A.4    Ahn, J.W.5    Yamanaka, S.6
  • 17
    • 0038005026 scopus 로고    scopus 로고
    • Enhygromyxa salina gen. Nov., Sp. Nov., A slightly halophilic Myxobacterium isolated from the coastal areas of Japan
    • Iizuka T, Jojima Y, Fudou R, Tokura M, Hiraishi A, Yamanaka S. (2003b). Enhygromyxa salina gen. nov., sp. nov., a slightly halophilic Myxobacterium isolated from the coastal areas of Japan. System Appl Microbiol 26: 189-196.
    • (2003) System Appl Microbiol , vol.26 , pp. 189-196
    • Iizuka, T.1    Jojima, Y.2    Fudou, R.3    Tokura, M.4    Hiraishi, A.5    Yamanaka, S.6
  • 18
    • 0036941958 scopus 로고    scopus 로고
    • Resuspension of benthic fluff by tidal currents in deep stratified waters, northern North Sea
    • Jago CF, Jones SE, Latter RJ, McCAndliss RR, Hearn MR, Howarth MJ. (2002). Resuspension of benthic fluff by tidal currents in deep stratified waters, northern North Sea. J Sea Res 48: 259-269.
    • (2002) J Sea Res , vol.48 , pp. 259-269
    • Jago, C.F.1    Jones, S.E.2    Latter, R.J.3    Mccandliss, R.R.4    Hearn, M.R.5    Howarth, M.J.6
  • 19
    • 78649451688 scopus 로고    scopus 로고
    • Phylogeographic separation of marine and soil myxobacteria at high levels of classification
    • Jiang DM, Kato C, Zhou XW, Wu ZH, Sato T, Li YZ. (2010). Phylogeographic separation of marine and soil myxobacteria at high levels of classification. ISME J 4: 1520-1530.
    • (2010) ISME J , vol.4 , pp. 1520-1530
    • Jiang, D.M.1    Kato, C.2    Zhou, X.W.3    Wu, Z.H.4    Sato, T.5    Li, Y.Z.6
  • 20
    • 29144494967 scopus 로고    scopus 로고
    • Microbial diversity in coastal subsurface sediments: A cultivation approach using various electron acceptors and substrate gradients
    • Köpke B, Wilms R, Engelen B, Cypionka H, Sass H. (2005). Microbial diversity in coastal subsurface sediments: A cultivation approach using various electron acceptors and substrate gradients. Appl Environ Microbiol 71: 7819-7830.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 7819-7830
    • Köpke, B.1    Wilms, R.2    Engelen, B.3    Cypionka, H.4    Sass, H.5
  • 21
    • 65649147535 scopus 로고    scopus 로고
    • An alternative polyamine biosynthetic pathway is widespread in bacteria and essential for biofilm formation in Vibrio cholerae
    • Lee J, Sperandio V, Frantz DE, Longgood J, Camilli A, Phillips MA et al. (2009). An alternative polyamine biosynthetic pathway is widespread in bacteria and essential for biofilm formation in Vibrio cholerae. J Biol Chem 284: 9899-9907.
    • (2009) J Biol Chem , vol.284 , pp. 9899-9907
    • Lee, J.1    Sperandio, V.2    Frantz, D.E.3    Longgood, J.4    Camilli, A.5    Phillips, M.A.6
  • 22
    • 0024728302 scopus 로고
    • Evidence for unlinked rrn operons in the planctomycete Pirellula marina
    • Liesack W, Stackebrandt E. (1989). Evidence for unlinked rrn operons in the planctomycete Pirellula marina. J Bacteriol 171: 5025-5030.
    • (1989) J Bacteriol , vol.171 , pp. 5025-5030
    • Liesack, W.1    Stackebrandt, E.2
  • 24
    • 0020645043 scopus 로고
    • New M13 vectors for cloning
    • Messing J. (1983). New M13 vectors for cloning. Method Enzymol 101: 20-78.
    • (1983) Method Enzymol , vol.101 , pp. 20-78
    • Messing, J.1
  • 25
    • 0036795821 scopus 로고    scopus 로고
    • Widespread and persistent populations of a major new marine actinomycete taxon in ocean sediments
    • Mincer TJ, Jensen PR, Kauffman CA, Fenical W. (2002). Widespread and persistent populations of a major new marine actinomycete taxon in ocean sediments. Appl Environ Microbiol 68: 5005-5011.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 5005-5011
    • Mincer, T.J.1    Jensen, P.R.2    Kauffman, C.A.3    Fenical, W.4
  • 26
    • 26444599659 scopus 로고    scopus 로고
    • Clustered genes related to sulfate respiration in uncultured prokaryotes support the theory of their concomitant horizontal transfer
    • Mussmann M, Richter M, Lombardot T, Meyerdierks A, Kuever J, Kube M et al. (2005). Clustered genes related to sulfate respiration in uncultured prokaryotes support the theory of their concomitant horizontal transfer. J Bacteriol 187: 7126-7137.
    • (2005) J Bacteriol , vol.187 , pp. 7126-7137
    • Mussmann, M.1    Richter, M.2    Lombardot, T.3    Meyerdierks, A.4    Kuever, J.5    Kube, M.6
  • 27
    • 0001868073 scopus 로고    scopus 로고
    • Denaturing gradient gel electrophoresis (DGGE) in microbial ecology
    • In Akkermans ADL, van Elsas JD, de Brujin FJ (eds). 3rd edn Kluwer Academic Publishers: Dordrecht, The Netherlands, p. 3.4.4
    • Muyzer G, Brinkhoff T, Nübel U, Santegoeds C, Schäfer H, Wawer C. (1998). Denaturing gradient gel electrophoresis (DGGE) in microbial ecology. In Akkermans ADL, van Elsas JD, de Brujin FJ (eds). Molecular Microbial EcologyManual. 3rd edn Kluwer Academic Publishers: Dordrecht, The Netherlands, pp 1-27, p. 3.4.4.
    • (1998) Molecular Microbial EcologyManual , pp. 1-27
    • Muyzer, G.1    Brinkhoff, T.2    Nübel, U.3    Santegoeds, C.4    Schäfer, H.5    Wawer, C.6
  • 28
    • 0029097821 scopus 로고
    • Phylogenetic relationships of Thiomicrospira species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophoresis
    • Muyzer G, Teske A, Wirsen CO, Jannasch HW. (1995). Phylogenetic relationships of Thiomicrospira species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophoresis. Arch Microbiol 164: 165-172.
    • (1995) Arch Microbiol , vol.164 , pp. 165-172
    • Muyzer, G.1    Teske, A.2    Wirsen, C.O.3    Jannasch, H.W.4
  • 29
    • 52649124812 scopus 로고    scopus 로고
    • GenomeMatcher: A graphical user interface for DNA sequence comparison
    • Ohtsubo Y, Ikeda-Ohtsubo W, Nagata Y, Tsuda M. (2008). GenomeMatcher: A graphical user interface for DNA sequence comparison. BMC Bioinformatics 9: 376.
    • (2008) BMC Bioinformatics , vol.9 , pp. 376
    • Ohtsubo, Y.1    Ikeda-Ohtsubo, W.2    Nagata, Y.3    Tsuda, M.4
  • 31
    • 0033056228 scopus 로고    scopus 로고
    • Phylogeny of actinobacteria small subunit (SSU) rRNA gene clones recovered from marine bacterioplankton
    • Rappé MS, Gordon DA, Vergin KL, Giovannoni SJ. (1999). Phylogeny of actinobacteria small subunit (SSU) rRNA gene clones recovered from marine bacterioplankton. Syst Appl Microbiol 22: 106-112.
    • (1999) Syst Appl Microbiol , vol.22 , pp. 106-112
    • Rappé, M.S.1    Gordon, D.A.2    Vergin, K.L.3    Giovannoni, S.J.4
  • 32
    • 0033068941 scopus 로고    scopus 로고
    • The ecology of the myxobacteria
    • Reichenbach H. (1999). The ecology of the myxobacteria. Environ Microbiol 1: 15-21.
    • (1999) Environ Microbiol , vol.1 , pp. 15-21
    • Reichenbach, H.1
  • 34
    • 0001487646 scopus 로고
    • The myxobacteria
    • In Balows A et al. (eds). 2nd edn. Springer Verlag: New York
    • Reichenbach H, Dworkin M. (1992). The myxobacteria. In Balows A et al. (eds). The Prokaryotes. 2nd edn, Vol 4. Springer Verlag: New York, pp 3416-3487.
    • (1992) The Prokaryotes , vol.4 , pp. 3416-3487
    • Reichenbach, H.1    Dworkin, M.2
  • 35
    • 38849145997 scopus 로고    scopus 로고
    • Effects of a phytoplankton bloom in a coastal ecosystem on the composition of bacterial communities
    • Rink B, Seeberger S, Martens T, Duerselen CD, Simon M, Brinkhoff T. (2007). Effects of a phytoplankton bloom in a coastal ecosystem on the composition of bacterial communities. Aquat Microb Ecol 48: 47-60.
    • (2007) Aquat Microb Ecol , vol.48 , pp. 47-60
    • Rink, B.1    Seeberger, S.2    Martens, T.3    Duerselen, C.D.4    Simon, M.5    Brinkhoff, T.6
  • 36
    • 0009836227 scopus 로고
    • Untersuchungen zum Vorkommen von Myxobakterien in von Meerwasser beeinflufften Substraten unter besonderer Berücksichtigung der Insel Helgoland
    • Rückert G. (1984). Untersuchungen zum Vorkommen von Myxobakterien in von Meerwasser beeinflufften Substraten unter besonderer Berücksichtigung der Insel Helgoland. Helgoländer Meeresunters 38: 179-184.
    • (1984) Helgoländer Meeresunters , vol.38 , pp. 179-184
    • Rückert, G.1
  • 37
    • 0034727087 scopus 로고    scopus 로고
    • The genome sequence of the thermoacidophilic scavenger Thermoplasma acidophilum
    • Ruepp A, Graml W, Santos-Martinez ML, Koretke KK, Volker C, Mewes H et al. (2000). The genome sequence of the thermoacidophilic scavenger Thermoplasma acidophilum. Nature 407: 508-513.
    • (2000) Nature , vol.407 , pp. 508-513
    • Ruepp, A.1    Graml, W.2    Santos-Martinez, M.L.3    Koretke, K.K.4    Volker, C.5    Mewes, H.6
  • 38
    • 0036154232 scopus 로고    scopus 로고
    • Characterization and description of Anaeromyxobacter dehalogenans gen. nov., sp. nov., an aryl-halorespiring facultative anaerobic myxobacterium
    • Sanford RA, Cole JR, Tiedje JM. (2002). Characterization and description of Anaeromyxobacter dehalogenans gen. nov., sp. nov., an aryl-halorespiring facultative anaerobic myxobacterium. Appl Environ Microbiol 68: 893-900.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 893-900
    • Sanford, R.A.1    Cole, J.R.2    Tiedje, J.M.3
  • 40
    • 0025202901 scopus 로고
    • Social and developmental biology of the myxobacteria
    • Shimkets LJ. (1990). Social and developmental biology of the myxobacteria. Microbiol Rev 54: 473-501.
    • (1990) Microbiol Rev , vol.54 , pp. 473-501
    • Shimkets, L.J.1
  • 41
    • 33749412204 scopus 로고    scopus 로고
    • The myxobacteria
    • In Dworkin M, Falkow S, Rosenberg E, Schleifer K-H, Stackebrandt E (eds). 3rd edn. Springer: Heidelberg
    • Shimkets LJ, Dworkin M, Reichenbach H. (2006). The myxobacteria. In Dworkin M, Falkow S, Rosenberg E, Schleifer K-H, Stackebrandt E (eds). The Prokaryotes. 3rd edn vol. 7. Springer: Heidelberg, pp 31-115.
    • (2006) The Prokaryotes , vol.7 , pp. 31-115
    • Shimkets, L.J.1    Dworkin, M.2    Reichenbach, H.3
  • 43
    • 13944278075 scopus 로고    scopus 로고
    • Composition and seasonal dynamics of free-living, aggregate-And sediment surface-Associated bacterial communities in the German Wadden Sea
    • Stevens H, Brinkhoff T, Simon M. (2005). Composition and seasonal dynamics of free-living, aggregate-And sediment surface-Associated bacterial communities in the German Wadden Sea. Aquat Microb Ecol 38: 15-30.
    • (2005) Aquat Microb Ecol , vol.38 , pp. 15-30
    • Stevens, H.1    Brinkhoff, T.2    Simon, M.3
  • 44
    • 33748289444 scopus 로고    scopus 로고
    • Widespread distribution and high abundance of Rhizobium radiobacter within Mediterranean subsurface sediments
    • Sü J, Schubert K, Sass H, Cypionka H, Overmann J, Engelen B. (2006). Widespread distribution and high abundance of Rhizobium radiobacter within Mediterranean subsurface sediments. Environ Microbiol 8: 1753-1763.
    • (2006) Environ Microbiol , vol.8 , pp. 1753-1763
    • Sü, J.1    Schubert, K.2    Sass, H.3    Cypionka, H.4    Overmann, J.5    Engelen, B.6
  • 46
    • 0842303618 scopus 로고    scopus 로고
    • YACOP: Enhanced gene prediction obtained by a combination of existing methods
    • Tech M, Merkl R. (2003). YACOP: Enhanced gene prediction obtained by a combination of existing methods. In Silico Biol 3: 441-451.
    • (2003) Silico Biol , vol.3 , pp. 441-451
    • Tech, M.1    Merkl, R.2
  • 47
    • 34447136300 scopus 로고    scopus 로고
    • Adaptation of salt-Tolerant Myxococcus strains and their motility systems to the ocean conditions
    • Wang B, Hu W, Liu H, Zhang CY, Zhao JY, Jiang DM et al. (2007). Adaptation of salt-Tolerant Myxococcus strains and their motility systems to the ocean conditions. Microb Ecol 54: 43-51.
    • (2007) Microb Ecol , vol.54 , pp. 43-51
    • Wang, B.1    Hu, W.2    Liu, H.3    Zhang, C.Y.4    Zhao, J.Y.5    Jiang, D.M.6
  • 48
    • 77955670903 scopus 로고    scopus 로고
    • Myxobacterial secondary metabolites: Bioactivities and modes-of-Action
    • Weissman KJ, Müller R. (2010). Myxobacterial secondary metabolites: Bioactivities and modes-of-Action. Nat Prod Rep 27: 1276-1295.
    • (2010) Nat Prod Rep , vol.27 , pp. 1276-1295
    • Weissman, K.J.1    Müller, R.2
  • 49
    • 36348982083 scopus 로고    scopus 로고
    • Myxobacterial natural product assembly lines: Fascinating examples of curious biochemistry
    • Wenzel SC, Müller R. (2007). Myxobacterial natural product assembly lines: Fascinating examples of curious biochemistry. Nat Prod Rep 24: 1211-1224.
    • (2007) Nat Prod Rep , vol.24 , pp. 1211-1224
    • Wenzel, S.C.1    Müller, R.2
  • 54
    • 0000782587 scopus 로고
    • A list of marine bacteria including descriptions of sixty new species
    • Zobell CE, Upham HC. (1944). A list of marine bacteria including descriptions of sixty new species. Bull Scripps Inst Oceanogr Univ Calif 5: 239-292.
    • (1944) Bull Scripps Inst Oceanogr Univ Calif , vol.5 , pp. 239-292
    • Zobell, C.E.1    Upham, H.C.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.