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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DOI
Autor*in
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.
Alle
Einrichtung
Centrum für Biotechnologie > Technologieplattformen > Bioinformatics Resource Facility
Centrum für Biotechnologie > Arbeitsgruppe A. Goesmann
Fakultät für Biologie
Technische Fakultät > AG Genominformatik
Centrum für Biotechnologie > Institut für Genomforschung und Systembiologie
Technische Fakultät > Computational Genomics
Centrum für Biotechnologie > Arbeitsgruppe J. Kalinowski
Centrum für Biotechnologie > Arbeitsgruppe A. Pühler
Centrum für Biotechnologie > Institut für Bioinformatik
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.
Erscheinungsjahr
2007
Zeitschriftentitel
Nature Biotechnology
Band
25
Ausgabe
11
Seite(n)
1281-1289
ISSN
1087-0156
Page URI
https://pub.uni-bielefeld.de/record/1631327

Zitieren

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. https://doi.org/10.1038/nbt1354
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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The Nla6S protein of Myxococcus xanthus is the prototype for a new family of bacterial histidine kinases.
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The growing family of photoactive yellow proteins and their presumed functional roles.
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Genomic insights into the metabolic potential of the polycyclic aromatic hydrocarbon degrading sulfate-reducing Deltaproteobacterium N47.
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Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes.
Treangen TJ, Rocha EP., PLoS Genet 7(1), 2011
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Unusual outer membrane lipid composition of the gram-negative, lipopolysaccharide-lacking myxobacterium Sorangium cellulosum So ce56.
Keck M, Gisch N, Moll H, Vorhölter FJ, Gerth K, Kahmann U, Lissel M, Lindner B, Niehaus K, Holst O., J Biol Chem 286(15), 2011
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Characterization and engineering of a novel pyrroloquinoline quinone dependent glucose dehydrogenase from Sorangium cellulosum So ce56.
Hofer M, Bönsch K, Greiner-Stöffele T, Ballschmiter M., Mol Biotechnol 47(3), 2011
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Insights into the complex biosynthesis of the leupyrrins in Sorangium cellulosum So ce690.
Kopp M, Irschik H, Gemperlein K, Buntin K, Meiser P, Weissman KJ, Bode HB, Müller R., Mol Biosyst 7(5), 2011
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Investigation of cytochromes P450 in myxobacteria: excavation of cytochromes P450 from the genome of Sorangium cellulosum So ce56.
Khatri Y, Hannemann F, Perlova O, Müller R, Bernhardt R., FEBS Lett 585(11), 2011
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Functional characterization of Fdx1: evidence for an evolutionary relationship between P450-type and ISC-type ferredoxins.
Ewen KM, Hannemann F, Iametti S, Morleo A, Bernhardt R., J Mol Biol 413(5), 2011
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Non-contiguous finished genome sequence and contextual data of the filamentous soil bacterium Ktedonobacter racemifer type strain (SOSP1-21).
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A novel cold-adapted lipase from Sorangium cellulosum strain So0157-2: gene cloning, expression, and enzymatic characterization.
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Genome organisation of the marine Roseobacter clade member Marinovum algicola.
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Complete genome sequence of Haliangium ochraceum type strain (SMP-2).
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Proteogenomics and systems biology: quest for the ultimate missing parts.
Armengaud J., Expert Rev Proteomics 7(1), 2010
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Myxococcus xanthus viability depends on groEL supplied by either of two genes, but the paralogs have different functions during heat shock, predation, and development.
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Natural products version 2.0: connecting genes to molecules.
Walsh CT, Fischbach MA., J Am Chem Soc 132(8), 2010
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Biosynthesis of thuggacins in myxobacteria: comparative cluster analysis reveals basis for natural product structural diversity.
Buntin K, Irschik H, Weissman KJ, Luxenburger E, Blöcker H, Müller R., Chem Biol 17(4), 2010
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Biosynthesis of polyketides by trans-AT polyketide synthases.
Piel J., Nat Prod Rep 27(7), 2010
PMID: 20464003
The regulatory action of the myxobacterial CarD/CarG complex: a bacterial enhanceosome?
Elías-Arnanz M, Padmanabhan S, Murillo FJ., FEMS Microbiol Rev 34(5), 2010
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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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Prokaryote-derived protein inhibitors of peptidases: A sketchy occurrence and mostly unknown function.
Kantyka T, Rawlings ND, Potempa J., Biochimie 92(11), 2010
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The phosphatomes of the multicellular myxobacteria Myxococcus xanthus and Sorangium cellulosum in comparison with other prokaryotic genomes.
Treuner-Lange A., PLoS One 5(6), 2010
PMID: 20567509
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
PMID: 20659313
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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Glycosylation and production characteristics of epothilones in alkali-tolerant Sorangium cellulosum strain So0157-2.
Zhao L, Li PF, Lu CH, Li SG, Shen YM, Li YZ., J Microbiol 48(4), 2010
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Correlations between the role, sequence conservation, genomic location and severity of phenotype in myxobacterial developmental genes.
Evans AR, Whitworth DE., FEMS Microbiol Lett 312(1), 2010
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Analysis of the sorangicin gene cluster reinforces the utility of a combined phylogenetic/retrobiosynthetic analysis for deciphering natural product assembly by trans-AT PKS.
Irschik H, Kopp M, Weissman KJ, Buntin K, Piel J, Müller R., Chembiochem 11(13), 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.
Rachid S, Gerth K, Müller R., J Biotechnol 140(1-2), 2009
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A brief tour of myxobacterial secondary metabolism.
Weissman KJ, Müller R., Bioorg Med Chem 17(6), 2009
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Establishment of a high content assay for the identification and characterisation of bioactivities in crude bacterial extracts that interfere with the eukaryotic cell cycle.
Jensen NA, Gerth K, Grotjohann T, Kapp D, Keck M, Niehaus K., J Biotechnol 140(1-2), 2009
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Identification of additional players in the alternative biosynthesis pathway to isovaleryl-CoA in the myxobacterium Myxococcus xanthus.
Bode HB, Ring MW, Schwär G, Altmeyer MO, Kegler C, Jose IR, Singer M, Müller R., Chembiochem 10(1), 2009
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Unusual chemistry in the biosynthesis of the antibiotic chondrochlorens.
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Sociobiology of the myxobacteria.
Velicer GJ, Vos M., Annu Rev Microbiol 63(), 2009
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Novel expression hosts for complex secondary metabolite megasynthetases: Production of myxochromide in the thermopilic isolate Corallococcus macrosporus GT-2.
Perlova O, Gerth K, Kuhlmann S, Zhang Y, Müller R., Microb Cell Fact 8(), 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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Total synthesis of (-)-spirangien A, an antimitotic polyketide isolated from the myxobacterium Sorangium cellulosum.
Paterson I, Findlay AD, Noti C., Chem Asian J 4(4), 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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Myxobacteria--'microbial factories' for the production of bioactive secondary metabolites.
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Natural paradigms of plant cell wall degradation.
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Are there lateral as well as polar engines for A-motile gliding in myxobacteria?
Kaiser D., J Bacteriol 191(17), 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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The impact of genomics on the exploitation of the myxobacterial secondary metabolome.
Wenzel SC, Müller R., Nat Prod Rep 26(11), 2009
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Biosynthesis of 2-hydroxy and iso-even fatty acids is connected to sphingolipid formation in myxobacteria.
Ring MW, Schwär G, Bode HB., Chembiochem 10(12), 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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Myxococcus-from single-cell polarity to complex multicellular patterns.
Kaiser D., Annu Rev Genet 42(), 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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Origins of replication in Sorangium cellulosum and Microcystis aeruginosa.
Gao F, Zhang CT., DNA Res 15(3), 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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Efficient mining of myxobacterial metabolite profiles enabled by liquid chromatography-electrospray ionisation-time-of-flight mass spectrometry and compound-based principal component analysis.
Krug D, Zurek G, Schneider B, Garcia R, Müller R., Anal Chim Acta 624(1), 2008
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Two functionally redundant Sfp-type 4'-phosphopantetheinyl transferases differentially activate biosynthetic pathways in Myxococcus xanthus.
Meiser P, Müller R., Chembiochem 9(10), 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
PMID: 18629560
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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Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world.
Koonin EV, Wolf YI., Nucleic Acids Res 36(21), 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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Proteome analysis of Myxococcus xanthus by off-line two-dimensional chromatographic separation using monolithic poly-(styrene-divinylbenzene) columns combined with ion-trap tandem mass spectrometry.
Schley C, Altmeyer MO, Swart R, Muller R, Huber CG., J. Proteome Res. 5(10), 2006
PMID: 17022647
Molecular breeding of carotenoid biosynthetic pathways.
Schmidt-Dannert C, Umeno D, Arnold FH., Nat. Biotechnol. 18(7), 2000
PMID: 10888843
A novel type of geosmin biosynthesis in myxobacteria.
Dickschat JS, Bode HB, Mahmud T, Muller R, Schulz S., J. Org. Chem. 70(13), 2005
PMID: 15960521
Geosmin biosynthesis. Streptomyces coelicolor germacradienol/germacrene D synthase converts farnesyl diphosphate to geosmin.
Jiang J, He X, Cane DE., J. Am. Chem. Soc. 128(25), 2006
PMID: 16787064
Possibility of bacterial recruitment of plant genes associated with the biosynthesis of secondary metabolites.
Bode HB, Muller R., Plant Physiol. 132(3), 2003
PMID: 12857798
Overexpression of a gene cluster encoding a chalcone synthase-like protein confers redbrown pigment production in Streptomyces griseus.
Ueda K, Kim KM, Beppu T, Horinouchi S., J. Antibiot. 48(7), 1995
PMID: 7649862
Bacterial type III polyketide synthases: phylogenetic analysis and potential for the production of novel secondary metabolites by heterologous expression in pseudomonads.
Gross F, Luniak N, Perlova O, Gaitatzis N, Jenke-Kodama H, Gerth K, Gottschalk D, Dittmann E, Muller R., Arch. Microbiol. 185(1), 2006
PMID: 16395556
Lipase-specific foldases.
Rosenau F, Tommassen J, Jaeger KE., Chembiochem 5(2), 2004
PMID: 14760735
Recent advances in the biocatalytic reduction of ketones and oxidation of sec-alcohols.
Kroutil W, Mang H, Edegger K, Faber K., Curr Opin Chem Biol 8(2), 2004
PMID: 15062771
Complete genome sequence of the industrial bacterium Bacillus licheniformis and comparisons with closely related Bacillus species.
Rey MW, Ramaiya P, Nelson BA, Brody-Karpin SD, Zaretsky EJ, Tang M, Lopez de Leon A, Xiang H, Gusti V, Clausen IG, Olsen PB, Rasmussen MD, Andersen JT, Jorgensen PL, Larsen TS, Sorokin A, Bolotin A, Lapidus A, Galleron N, Ehrlich SD, Berka RM., Genome Biol. 5(10), 2004
PMID: 15461803
[The study of enzymatic cellulolysis of Sorangium composition]
Coucke P, Voets JP., Ann Inst Pasteur (Paris) 115(4), 1968
PMID: 4880382
Deciphering regulatory mechanisms for secondary metabolite production in the myxobacterium Sorangium cellulosum So ce56.
Rachid S, Gerth K, Kochems I, Muller R., Mol. Microbiol. 63(6), 2007
PMID: 17367395
Base-calling of automated sequencer traces using phred. I. Accuracy assessment.
Ewing B, Hillier L, Wendl MC, Green P., Genome Res. 8(3), 1998
PMID: 9521921
Whole genome shotgun sequencing guided by bioinformatics pipelines--an optimized approach for an established technique.
Kaiser O, Bartels D, Bekel T, Goesmann A, Kespohl S, Puhler A, Meyer F., J. Biotechnol. 106(2-3), 2003
PMID: 14651855
Automated finishing with autofinish.
Gordon D, Desmarais C, Green P., Genome Res. 11(4), 2001
PMID: 11282977
BACCardI--a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison.
Bartels D, Kespohl S, Albaum S, Druke T, Goesmann A, Herold J, Kaiser O, Puhler A, Pfeiffer F, Raddatz G, Stoye J, Meyer F, Schuster SC., Bioinformatics 21(7), 2004
PMID: 15514001
GenDB--an open source genome annotation system for prokaryote genomes.
Meyer F, Goesmann A, McHardy AC, Bartels D, Bekel T, Clausen J, Kalinowski J, Linke B, Rupp O, Giegerich R, Puhler A., Nucleic Acids Res. 31(8), 2003
PMID: 12682369
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ., Nucleic Acids Res. 25(17), 1997
PMID: 9254694
The Gene Ontology (GO) database and informatics resource.
Harris MA, Clark J, Ireland A, Lomax J, Ashburner M, Foulger R, Eilbeck K, Lewis S, Marshall B, Mungall C, Richter J, Rubin GM, Blake JA, Bult C, Dolan M, Drabkin H, Eppig JT, Hill DP, Ni L, Ringwald M, Balakrishnan R, Cherry JM, Christie KR, Costanzo MC, Dwight SS, Engel S, Fisk DG, Hirschman JE, Hong EL, Nash RS, Sethuraman A, Theesfeld CL, Botstein D, Dolinski K, Feierbach B, Berardini T, Mundodi S, Rhee SY, Apweiler R, Barrell D, Camon E, Dimmer E, Lee V, Chisholm R, Gaudet P, Kibbe W, Kishore R, Schwarz EM, Sternberg P, Gwinn M, Hannick L, Wortman J, Berriman M, Wood V, de la Cruz N, Tonellato P, Jaiswal P, Seigfried T, White R; Gene Ontology Consortium., Nucleic Acids Res. 32(Database issue), 2004
PMID: 14681407
GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes.
Boyle EI, Weng S, Gollub J, Jin H, Botstein D, Cherry JM, Sherlock G., Bioinformatics 20(18), 2004
PMID: 15297299
Identification and analysis of the chivosazol biosynthetic gene cluster from the myxobacterial model strain Sorangium cellulosum So ce56.
Perlova O, Gerth K, Kaiser O, Hans A, Muller R., J. Biotechnol. 121(2), 2005
PMID: 16313990
Phosphoric acid as a matrix additive for MALDI MS analysis of phosphopeptides and phosphoproteins.
Kjellstrom S, Jensen ON., Anal. Chem. 76(17), 2004
PMID: 15373450
Rapid identification of proteins by peptide-mass fingerprinting.
Pappin DJ, Hojrup P, Bleasby AJ., Curr. Biol. 3(6), 1993
PMID: 15335725
Electrospray tandem mass spectrometric studies of phosphopeptides and phosphopeptide analogues.
Tholey A, Reed J, Lehmann WD., J Mass Spectrom 34(2), 1999
PMID: 12440389
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