Complete genome sequence of the myxobacterium Sorangium cellulosum

Schneiker-Bekel S, Perlova O, Kaiser O, Gerth K, Alici A, Altmeyer MO, Bartels D, Bekel T, Beyer S, Bode E, Bode HB, et al. (2007)
Nature Biotechnology 25(11): 1281-1289.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
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Schneiker-Bekel, SusanneUniBi; Perlova, Olena; Kaiser, Olaf; Gerth, Klaus; Alici, Aysel; Altmeyer, Matthias O.; Bartels, Daniela; Bekel, ThomasUniBi; Beyer, Stefan; Bode, Edna; Bode, Helge B.; Bolten, Christoph J.
Abstract / Bemerkung
The genus Sorangium synthesizes approximately half of the secondary metabolites isolated from myxobacteria, including the anti-cancer metabolite epothilone. We report the complete genome sequence of the model Sorangium strain S. cellulosum So ce56, which produces several natural products and has morphological and physiological properties typical of the genus. The circular genome, comprising 13,033,779 base pairs, is the largest bacterial genome sequenced to date. No global synteny with the genome of Myxococcus xanthus is apparent, revealing an unanticipated level of divergence between these myxobacteria. A large percentage of the genome is devoted to regulation, particularly post-translational phosphorylation, which probably supports the strain's complex, social lifestyle. This regulatory network includes the highest number of eukaryotic protein kinase-like kinases discovered in any organism. Seventeen secondary metabolite loci are encoded in the genome, as well as many enzymes with potential utility in industry.
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Schneiker-Bekel S, Perlova O, Kaiser O, et al. Complete genome sequence of the myxobacterium Sorangium cellulosum. Nature Biotechnology. 2007;25(11):1281-1289.
Schneiker-Bekel, S., Perlova, O., Kaiser, O., Gerth, K., Alici, A., Altmeyer, M. O., Bartels, D., et al. (2007). Complete genome sequence of the myxobacterium Sorangium cellulosum. Nature Biotechnology, 25(11), 1281-1289.
Schneiker-Bekel, Susanne, Perlova, Olena, Kaiser, Olaf, Gerth, Klaus, Alici, Aysel, Altmeyer, Matthias O., Bartels, Daniela, et al. 2007. “Complete genome sequence of the myxobacterium Sorangium cellulosum”. Nature Biotechnology 25 (11): 1281-1289.
Schneiker-Bekel, S., Perlova, O., Kaiser, O., Gerth, K., Alici, A., Altmeyer, M. O., Bartels, D., Bekel, T., Beyer, S., Bode, E., et al. (2007). Complete genome sequence of the myxobacterium Sorangium cellulosum. Nature Biotechnology 25, 1281-1289.
Schneiker-Bekel, S., et al., 2007. Complete genome sequence of the myxobacterium Sorangium cellulosum. Nature Biotechnology, 25(11), p 1281-1289.
S. Schneiker-Bekel, et al., “Complete genome sequence of the myxobacterium Sorangium cellulosum”, Nature Biotechnology, vol. 25, 2007, pp. 1281-1289.
Schneiker-Bekel, S., Perlova, O., Kaiser, O., Gerth, K., Alici, A., Altmeyer, M.O., Bartels, D., Bekel, T., Beyer, S., Bode, E., Bode, H.B., Bolten, C.J., Choudhuri, J.V., Doss, S., Elnakady, Y.A., Frank, B., Gaigalat, L., Goesmann, A., Groeger, C., Gross, F., Jelsbak, L., Jelsbak, L., Kalinowski, J., Kegler, C., Knauber, T., Konietzny, S., Kopp, M., Krause, L., Krug, D., Linke, B., Mahmud, T., Martinez-Arias, R., McHardy, A.C., Merai, M., Meyer, F., Mormann, S., Munoz-Dorado, J., Perez, J., Pradella, S., Rachid, S., Raddatz, G., Rosenau, F., Rückert, C., Sasse, F., Scharfe, M., Schuster, S.C., Suen, G., Treuner-Lange, A., Velicer, G.J., Vorhölter, F.-J., Weissman, K.J., Welch, R.D., Wenzel, S.C., Whitworth, D.E., Wilhelm, S., Wittmann, C., Bloecker, H., Pühler, A., Mueller, R.: Complete genome sequence of the myxobacterium Sorangium cellulosum. Nature Biotechnology. 25, 1281-1289 (2007).
Schneiker-Bekel, Susanne, Perlova, Olena, Kaiser, Olaf, Gerth, Klaus, Alici, Aysel, Altmeyer, Matthias O., Bartels, Daniela, Bekel, Thomas, Beyer, Stefan, Bode, Edna, Bode, Helge B., Bolten, Christoph J., Choudhuri, Jomuna V., Doss, Sabrina, Elnakady, Yasser A., Frank, Bettina, Gaigalat, Lars, Goesmann, Alexander, Groeger, Carolin, Gross, Frank, Jelsbak, Lars, Jelsbak, Lotte, Kalinowski, Jörn, Kegler, Carsten, Knauber, Tina, Konietzny, Sebastian, Kopp, Maren, Krause, Lutz, Krug, Daniel, Linke, Burkhard, Mahmud, Taifo, Martinez-Arias, Rosa, McHardy, Alice C., Merai, Michelle, Meyer, Folker, Mormann, Sascha, Munoz-Dorado, Jose, Perez, Juana, Pradella, Silke, Rachid, Shwan, Raddatz, Guenter, Rosenau, Frank, Rückert, Christian, Sasse, Florenz, Scharfe, Maren, Schuster, Stephan C., Suen, Garret, Treuner-Lange, Anke, Velicer, Gregory J., Vorhölter, Frank-Jörg, Weissman, Kira J., Welch, Roy D., Wenzel, Silke C., Whitworth, David E., Wilhelm, Susanne, Wittmann, Christoph, Bloecker, Helmut, Pühler, Alfred, and Mueller, Rolf. “Complete genome sequence of the myxobacterium Sorangium cellulosum”. Nature Biotechnology 25.11 (2007): 1281-1289.

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Myxobacterial secondary metabolites: bioactivities and modes-of-action.
Weissman KJ, Müller R., Nat Prod Rep 27(9), 2010
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Complete genome sequence of the rifamycin SV-producing Amycolatopsis mediterranei U32 revealed its genetic characteristics in phylogeny and metabolism.
Zhao W, Zhong Y, Yuan H, Wang J, Zheng H, Wang Y, Cen X, Xu F, Bai J, Han X, Lu G, Zhu Y, Shao Z, Yan H, Li C, Peng N, Zhang Z, Zhang Y, Lin W, Fan Y, Qin Z, Hu Y, Zhu B, Wang S, Ding X, Zhao GP., Cell Res 20(10), 2010
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Myxobacteria, polarity, and multicellular morphogenesis.
Kaiser D, Robinson M, Kroos L., Cold Spring Harb Perspect Biol 2(8), 2010
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Complete genome sequence of Croceibacter atlanticus HTCC2559T.
Oh HM, Kang I, Ferriera S, Giovannoni SJ, Cho JC., J Bacteriol 192(18), 2010
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Expression and physiological role of three Myxococcus xanthus copper-dependent P1B-type ATPases during bacterial growth and development.
Moraleda-Muñoz A, Pérez J, Extremera AL, Muñoz-Dorado J., Appl Environ Microbiol 76(18), 2010
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Damage of Streptococcus mutans biofilms by carolacton, a secondary metabolite from the myxobacterium Sorangium cellulosum.
Kunze B, Reck M, Dötsch A, Lemme A, Schummer D, Irschik H, Steinmetz H, Wagner-Döbler I., BMC Microbiol 10(), 2010
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Monitoring of bacterial communities during low temperature thermal treatment of activated sludge combining DNA phylochip and respirometry techniques.
Héry M, Sanguin H, Perez Fabiel S, Lefebvre X, Vogel TM, Paul E, Alfenore S., Water Res 44(20), 2010
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Complex prokaryotic genome structure: rapid evolution of chromosome II.
Bavishi A, Abhishek A, Lin L, Choudhary M., Genome 53(9), 2010
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Marine myxobacteria as a source of antibiotics--comparison of physiology, polyketide-type genes and antibiotic production of three new isolates of Enhygromyxa salina.
Schäberle TF, Goralski E, Neu E, Erol O, Hölzl G, Dörmann P, Bierbaum G, König GM., Mar Drugs 8(9), 2010
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Bacterial NO Synthases.
Filippovich SIu., Biochemistry (Mosc) 75(10), 2010
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The CYPome of Sorangium cellulosum So ce56 and identification of CYP109D1 as a new fatty acid hydroxylase.
Khatri Y, Hannemann F, Ewen KM, Pistorius D, Perlova O, Kagawa N, Brachmann AO, Müller R, Bernhardt R., Chem Biol 17(12), 2010
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Evolution of genome architecture.
Koonin EV., Int J Biochem Cell Biol 41(2), 2009
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NtcA: a negative regulator of secondary metabolite biosynthesis in Sorangium cellulosum.
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A brief tour of myxobacterial secondary metabolism.
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Identification of additional players in the alternative biosynthesis pathway to isovaleryl-CoA in the myxobacterium Myxococcus xanthus.
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Unusual chemistry in the biosynthesis of the antibiotic chondrochlorens.
Rachid S, Scharfe M, Blöcker H, Weissman KJ, Müller R., Chem Biol 16(1), 2009
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Sociobiology of the myxobacteria.
Velicer GJ, Vos M., Annu Rev Microbiol 63(), 2009
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Darwinian evolution in the light of genomics.
Koonin EV., Nucleic Acids Res 37(4), 2009
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The Sequence Analysis and Management System -- SAMS-2.0: data management and sequence analysis adapted to changing requirements from traditional sanger sequencing to ultrafast sequencing technologies.
Bekel T, Henckel K, Küster H, Meyer F, Mittard Runte V, Neuweger H, Paarmann D, Rupp O, Zakrzewski M, Pühler A, Stoye J, Goesmann A., J Biotechnol 140(1-2), 2009
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Bacterial nitric oxide synthases: what are they good for?
Sudhamsu J, Crane BR., Trends Microbiol 17(5), 2009
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The consequences of genetic drift for bacterial genome complexity.
Kuo CH, Moran NA, Ochman H., Genome Res 19(8), 2009
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Natural paradigms of plant cell wall degradation.
Wei H, Xu Q, Taylor LE, Baker JO, Tucker MP, Ding SY., Curr Opin Biotechnol 20(3), 2009
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Non-modular polyketide synthases in myxobacteria.
Li Y, Müller R., Phytochemistry 70(15-16), 2009
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Isoprenoids are essential for fruiting body formation in Myxococcus xanthus.
Lorenzen W, Ring MW, Schwär G, Bode HB., J Bacteriol 191(18), 2009
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Antibiotics from microbes: converging to kill.
Fischbach MA., Curr Opin Microbiol 12(5), 2009
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Genome mining in Sorangium cellulosum So ce56: identification and characterization of the homologous electron transfer proteins of a myxobacterial cytochrome P450.
Ewen KM, Hannemann F, Khatri Y, Perlova O, Kappl R, Krug D, Hüttermann J, Müller R, Bernhardt R., J Biol Chem 284(42), 2009
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Myxococcus xanthus Pph2 is a manganese-dependent protein phosphatase involved in energy metabolism.
García-Hernández R, Moraleda-Muñoz A, Castañeda-García A, Pérez J, Muñoz-Dorado J., J Biol Chem 284(42), 2009
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NO formation by a catalytically self-sufficient bacterial nitric oxide synthase from Sorangium cellulosum.
Agapie T, Suseno S, Woodward JJ, Stoll S, Britt RD, Marletta MA., Proc Natl Acad Sci U S A 106(38), 2009
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Genome variation in the symbiotic nitrogen-fixing bacterium Sinorhizobium meliloti.
Guo H, Sun S, Eardly B, Finan T, Xu J., Genome 52(10), 2009
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Genome sequence of the versatile fish pathogen Edwardsiella tarda provides insights into its adaptation to broad host ranges and intracellular niches.
Wang Q, Yang M, Xiao J, Wu H, Wang X, Lv Y, Xu L, Zheng H, Wang S, Zhao G, Liu Q, Zhang Y., PLoS One 4(10), 2009
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De novo peptide sequencing by tandem MS using complementary CID and electron transfer dissociation.
Bertsch A, Leinenbach A, Pervukhin A, Lubeck M, Hartmer R, Baessmann C, Elnakady YA, Müller R, Böcker S, Huber CG, Kohlbacher O., Electrophoresis 30(21), 2009
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Production of the antifungal isochromanone ajudazols A and B in Chondromyces crocatus Cm c5: biosynthetic machinery and cytochrome P450 modifications.
Buntin K, Rachid S, Scharfe M, Blöcker H, Weissman KJ, Müller R., Angew Chem Int Ed Engl 47(24), 2008
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Social bacteria and asocial eukaryotes.
Galperin MY., Environ Microbiol 10(2), 2008
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Cloning and characterization of an rRNA methyltransferase from Sorangium cellulosum.
Zhao JY, Xia ZJ, Sun X, Zhong L, Jiang DM, Liu H, Wang J, Qin ZJ, Li YZ., Biochem Biophys Res Commun 370(1), 2008
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Discovering the hidden secondary metabolome of Myxococcus xanthus: a study of intraspecific diversity.
Krug D, Zurek G, Revermann O, Vos M, Velicer GJ, Müller R., Appl Environ Microbiol 74(10), 2008
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Unpublished but public microbial genomes with biotechnological relevance.
Siezen RJ, Wilson G., Microb Biotechnol 1(3), 2008
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The mosaic genome of Anaeromyxobacter dehalogenans strain 2CP-C suggests an aerobic common ancestor to the delta-proteobacteria.
Thomas SH, Wagner RD, Arakaki AK, Skolnick J, Kirby JR, Shimkets LJ, Sanford RA, Löffler FE., PLoS One 3(5), 2008
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Total biosynthesis: in vitro reconstitution of polyketide and nonribosomal peptide pathways.
Sattely ES, Fischbach MA, Walsh CT., Nat Prod Rep 25(4), 2008
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Mutation in the rel gene of Sorangium cellulosum affects morphological and physiological differentiation.
Knauber T, Doss SD, Gerth K, Perlova O, Müller R, Treuner-Lange A., Mol Microbiol 69(1), 2008
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Progress towards understanding the fate of plasmids in bacterial communities.
Slater FR, Bailey MJ, Tett AJ, Turner SL., FEMS Microbiol Ecol 66(1), 2008
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Natural products genomics.
Siezen RJ, Khayatt BI., Microb Biotechnol 1(4), 2008
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Improving conjugation efficacy of Sorangium cellulosum by the addition of dual selection antibiotics.
Xia ZJ, Wang J, Hu W, Liu H, Gao XZ, Wu ZH, Zhang PY, Li YZ., J Ind Microbiol Biotechnol 35(10), 2008
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Genomes and knowledge - a questionable relationship?
Whitworth DE., Trends Microbiol 16(11), 2008
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Eukaryotic-like protein kinases in the prokaryotes and the myxobacterial kinome.
Pérez J, Castañeda-García A, Jenke-Kodama H, Müller R, Muñoz-Dorado J., Proc Natl Acad Sci U S A 105(41), 2008
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Taxonomic analysis of Sorangium strains based on HSP60 and 16S rRNA gene sequences and morphology.
Jiang DM, Zhao L, Zhang CY, Li J, Xia ZJ, Wang J, Wu ZH, Li YZ., Int J Syst Evol Microbiol 58(pt 11), 2008
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New trends in pharmacogenomic strategies against resistance development in microbial infections.
Ohlsen K, Dandekar G, Schwarz R, Dandekar T., Pharmacogenomics 9(11), 2008
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Phenylnannolones A-C: biosynthesis of new secondary metabolites from the myxobacterium Nannocystis exedens.
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