Dieses Bild zeigt Siemann-Herzberg

Herr apl. Prof. Dr. habil.

Martin Siemann-Herzberg

stellv. Institutsleitung/Akademischer Direktor
Institut für Bioverfahrenstechnik

Kontakt

0711 685-65161
0711 685-65164

Allmandring 31
70569 Stuttgart
Deutschland
Raum: 1.305

Sprechstunde

Every Tuesday (Dienstags),  15.00-17.00; Room 1.317.

Fachgebiet

Research in Metabolic Engineering (e.g. Synthetic Biology) and Systems Biology with emphasis on the application of science for technical purpose. Establised research topics are mathematical modelling of biological systems and its experimental validation ( Bioanalytics, e.g. Proteomics, Fluxomics and Tanscriptomics) all along with current topics in Bioprocess Engineerin g (up- and downstream processing), Biocatalysis, and Nanobiotechnology. Current examples are the optimiztion of rec. protein production (in vitro and in vivo) , and the investigation of global stress responses of micro-organisms at process relevant conditions. 

 
  • Habilitation:    IN VITRO AND  IN VIVO BIOSYNTHESIS: STEPS TOWARDS SYSTEMS BIOLOGY              UNDERSTANDING OF LIVING PRODUCTION SYSTEMS (link);  In vitro und  in vivo Biosynthesen: Beiträge zum ganzheitlichen Verständnis biologischer Produktionssysteme; kumulative Habilitationsschrift / Martin Siemann-Herzberg. - 2012 [erschienen] 2014. - Getr. Zählung, zahlr. Ill. und graph. Darst. Stuttgart, Univ., Habil.-Schr., 2012 Signatur: Diss. 2014/2163

Venia legendi in  'Biotechnology'

  • MOST CURRENT RESEARCH TOPICS: BMBF-Project ' SelekomM ' (Selective compartment-membranes: The  in vitro Golgi-apparatus ( BMBF ); 
  • 'Forschungscluster Nachhaltige und Effiziente Biosynthesen (BW Landesprojekt)', Teilprojekt Peptide'

  • RESEARCH PROFILE at  ResearchGate

  

    CURRENT PUBLIC ACTIVITIES

  • Siemann-Herzberg, M. (2014) “Does Germany need Synthetic Biology to improve (personalized) medicine?  iGEM/LMU Munic ; LMU-Munich
  • Siemann-Herzberg, M. (2013) Engineering Life:  Aspekte der Synthetischen Biologie aus der Sicht der Systembiologie und des 'Metabolic Engineerings' (Synthetische Biologie).  Von der Technikfolgen-abschätzung zur Governance von Forschungs- und Innovationsprozessen, Universität Bremen. online 

MOST RECENT ARTICLES

  • Henkel, M, M. Zwick, J. Beuker, J. Willenbacher, S. Baumann, F. Oswald, A. Neumann, M. Siemann-Herzberg, C. Syldatk, R. Hausmann (2015) Multi-Disciplinary Hands-on Training in a One-Week Practical Course. Biochemistry and Molecular Biology Education (in press).
  • Lindner, R., A. Moosmann, H. Böttinger, R. Kontermann, M. Siemann-Herzberg. (2014) Preparative up- and downstream processing of periplasmatically produced single chain fragment variable against epidermal growth factor receptor in Escherichia coli.  J. Biotechnol. 192, 136-145. 
  • Sudarsan, S., S. Dethlefsen, L. M. Blank, M. Siemann-Herzberg, A. Schmid (2014) Regulatory analyses identify the functional structure of central carbon metabolism. Appl. Env. Micobiol , 80 (17), 5292-5303. 

REVIEWS AND TEXT BOOKS

  • H.-P. Görtz, F. Brümmer, M. Siemann-Herzberg (2012).   Biologie für Ingenieure, Springer Verlag  (Text Book)
  • Hardiman, T., K. Lemuth, M. Siemann-Herzberg, M. Reuss (2009) Dynamic modeling of the central metabolism of E. coli – linking metabolite and regulatory networks. Chapter 11, pp 209-236. In: Systems Biology and Biotechnology of E. coli. 978-1-4020-9393-7 , Ed. S.Y. Lee, Springer Verlag, ISBN 1402093934 
  • Franzreb, M., N. Ebner, M. Siemann-Herzberg, T.J. Hobley, O.R.T. Thomas (2006) Product recovery by high-gradient magnetic fishing (HGMF). In: Process Scale Bioseparations for the Biopharmaceutical Industry, Eds A. A. Shukla, M. R. Etzel, S. Gadam, Marcel Dekker Inc., New York. pp 83-121.
  • Altenbuchner J., M. Siemann, C. Syldatk (2001) Hydantoinase and related enzymes as biocatalysts for the synthesis of unnatural chiral amino acids. Curr. Opin. Biotechnol., 12, 559-563.
  • Syldatk, C., O. May, J. Altenbuchner, R. Mattes and M. Siemann (1999) Microbial hydantoinases - industrial enzymes from the origin of life? Appl. Microb. Biotechnol., 51, 293-309.
  • Siemann, M., and F. Wagner (1993) Prospects and limits for the production of biosurfactants using immobilized biocatalysts. In: Biosurfactants, Advances, Applications Ed.: N. Kosaric; Marcel Dekker Inc., New York, Basel, Hong Kong, pp 99-133.
  • Syldatk, C., R. Müller, M. Siemann, K. Krohn, and F. Wagner (1992) Microbial and enzymatic production of D-amino acids from D,L-monosubstituted hydantoins. In : Biocatalytic Production of Amino Acids and Derivatives . Ed.: J.D. Rozzell. Hanser Publishers, Munich, Vienna, New York, Barcelona, pp 75-128.

PEER REVIEWED ARTICLES (Selected Research Topics)


SYSTEMS BIOLOGY and METABOLIC ENGINEERING

  • Söllner, S., M. Rahnert, M. Siemann-Herzberg, R. Takors, J. Alterbuchner (2013). Evolution of Pyruvate Kinase Deficient Escherichia coli Mutants enables both Glycerol based Cell-growth and Succinate production.   J Appl Microbiol, 115(6), 1368-78. 

  • Sudarsan, S., S. Dethlefsen, L. M. Blank, M. Siemann-Herzberg, A. Schmid (2014) Regulatory analyses identify the functional structure of central carbon metabolism.  Appl. Env. Micobiol , 80 (17), 5292-5303. 

  • Vallon,T, M. Glemser, D. Scheps,. J. Schmid,. M Siemann-Herzberg, B. Hauer. R. Takors (2013) Production of 1-octanol from N-octane by Pseudomonas putida KT2440.  Chemie Ingenieur Technik , 85:6, 841-848.

  • Canelas  A. B., et al. (2011). Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains. Nature Communications ". Doi:10.1038/ncomms1150

  • Hardiman,T., H. Meinhold, J. Hofmann, J.C. Ewald, M.Siemann-Herzberg, M. Reuss (2010) Prediction of kinetic parameters from DNA-binding site sequences for modelingglobal transcription dynamics in Escherichia coli. J. Metab. Eng., 12, 196-211

  • Lemuth, K., T.Hardiman, S. Winter, D.Pfeiffer, M. A. Keller, S.Lange, M. Reuss, R. D. Schmid,and M. Siemann-Herzberg (2008) Global transcription and metabolicflux analysis of Escherichia coli inglucose-limited fed-batch cultivations. Appl. Environ. Microbiol. 74, (22), 7002-7015

  • Buziol, S., L. Warth, I. Magario, A.Freund, M. Siemann-Herzberg, M. Reuss (2008) Dynamic response of the transport proteins Hxt1, Hxt5 and Hxt7 in Saccharomyces cerevisiae to perturbations in the extracellular glucose concentration J. Biotechnology 132, 359-374

  • Hardiman, T., K. Lemuth, M.A. Keller, S.Lange, M. Reuss, M. Siemann-Herzberg (2007) Topology of the global regulatory network of carbon limitation in Escherichia coli. J. Biotechnology 132,359-374

  • Hardiman, T.,  M. Siemann-Herzberg, M. Reuss (2007) Derivation of kinetic parameters for coupled regulatory and metabolic network modelling from DNA-binding site sequences. Proceedings of the FOSBE , Fraunhofer IRBVerlag, 255-259

  • Arnold, S., J. Schmid, M. Siemann-Herzberg, M. Reuss (2005) Model-based inference of gene expression dynamics from sequence information. A dv. Biochem. Eng. Biotec hnol. , 100, 89-179

  • Arnold S., M. Siemann, K. Scharnweber, M. Werner, S. Baumann, and M. Reuss (2001) Kinetic modelling and simulation of in-vitro transcription by phage T7 RNA polymerase. Bi otec hnol. Bioeng. 72, 548-561

SYNTHETIC BIOLOGY

  • Oelschlaeger, P., S. Lange, J. Schmitt, M. Reuss, R. D. Schmid and M. Siemann-Herzberg (2003) Identification of factors impeding the production of a single-chain antibody fragment in Escherichia coli by comparing in vivo and in vitro expression. Appl. Microbiol. Biotechnol. 61, 123-132
  • Siemann,M., N. Rahaus, C. Fritz, S. Arnold, M. Reuss (2002) Reaktionstechnische Analyse der zellfreien Proteinsynthese: Systemoptimierung durch Verwendung supplementierter Zellextrakte (2002) Chemie Ingenieur Technik ,74, 692

  • Schindler P.T., S. Baumann,M. Reuss and M. Siemann (2000) In-vitro coupled transcription/translation: Effects of modification in lysate preparation on protein composition and biosynthesis activity. Electrophoresis 21, 2606-2609
  • Katanaev, V., L., A. S. Spirin, M. Reuss and Martin Siemann (1996) Formation of bacteriophage MS2 infectious units in a cell-free translation system. FEBS Letters 397,143-148

BIOPROCESS ENGINEERING (Fermentation Technology, Downstream Processing)

  • Lindner, R., A. Moosmann, H. Böttinger, R. Kontermann, M. Siemann-Herzberg. (2014) Preparative up- and downstream processing of periplasmatically produced single chain fragment variable against epidermal growth factor receptor in  Escherichia coli . J. Biotechnol.  192, 136-145. 
  • Wenzel, M., A. Müller, M. Siemann-Herzberg, J. Altenbuchner (2011) Self-inducible Bacil­lus subtilis expression system enables the reliable and inexpensive protein production by high-cell-density fermentation, Appl. Environ. Microb . 77, 6419-6425.
  • Franzreb, M., M. Siemann-Herzberg,T.J. Hobley, O.R.T. Thomas (2006) Protein purification using magnetic adsorbent particles. Appl. Microbiol. Biotechnol. 70, 5. 505-519
  • Siemann-Herzberg, M., C. Fritz, M.Reuss (2004) Integrierte Bioprozessentwicklung zur Herstellung rekombinanter Proteine. Chemie Ingenieur Technik ,76, 9, 1232-1233
  • Wilms, B., A. Hauck, M. Reuss, C. Syldatk,R. Mattes, M. Siemann, J. Altenbuchner. (2001) High cell density cultivation for production of L -N-carbamoylasein pilot scale using a newly developed expression systembased on the Escherichia coli rhaBAD-promoter . Biotechnol. Bioeng. 73, 95-10
  • Siemann, M., and F. Wagner (1993) Prospectsand limits for the production of biosurfactants using immobilized biocatalysts. In : Biosurfactants, Advances,Applications Ed.: N.Kosaric; Marcel Dekker Inc., New York, Basel, Hong Kong, pp 99-133

BIOANALYICS (Metabolome, Transcriptome and Proteome Analysis)

  • Schuhmacher, T., K. Lemuth, G. Vacun, T. Hardiman, M. Reuss, and M. Siemann-Herzberg (2010) Quantifying cytosolic mRNA concentrations in Escherichia coli using real-time PCR for a Systems Biology Approach. Anal. Biochem., 398, 212–217
  • Hardiman, T., V.  Windeisen, J. C. Ewald,S. Zibek, P. Schlack, J. Rebell, M. Reuss and M.Siemann-Herzberg (2008) In vitro synthesis and characterization of guanosine 3',5'-bis(diphosphate) Anal. Biochem. 383, 337-339
  • Hardiman, T., J. Ewald, K. Lemuth, M. Reuss and M. Siemann-Herzberg (2008) High-precision, absolute quantification of ribosomal RNA in Escherichia coli with laser-induced fluorescence detection (CGE-LIF). Anal. Biochem. ,374, 79-86
  • G. Franke,N. Stoepel, K. Reidegeld, M. Siemann-Herzberg, M. Reuss, H. Meyer, B. Warscheid (2005) Quantitative profiling of the phosphotransferase system in Escherichia coli.  Molecular & Cellular Proteomics . 4/8, 319. 

  • Schindler, P.T., F. Macherhammer, S. Arnold, M. Reuss and M. Siemann (1999) Investigation of translation dynamics under cell-free protein biosynthesis conditions using High Resolution Two-Dimensional Gel Electrophoresis. Electrophoresis 20,806-812
  • Siemann, M., C. Syldatk and F. Wagner(1993) Characterization of serological properties of polyclonal antibodies produced againstenzymes involved in the L-selective cleavage of hydantoins. Biotechnol. Letters 1, 1-6

BIOCATALYSIS and ENZYME TECHNOLOGY

  • Werner, M., F. J. Las Heras Vazques, C. Fritz, O. Vielhauer, M. Siemann-Herzberg, J. Altenbuchner, C. Syldatk (2004) Cloning of D-specific hydantoin utilization genes from Arthrobacter crystallopoietes. Eng. Life Sci. 4, 563-572
  • Abendroth, J., K. Niefind, O. May., M.Siemann, C. Syldatk, D.Schomburg (2002) The structure ofL-hydantoinase from Arthrobacter aurescens leadsto an understanding of dihyropyrimidinases substrate and enantiospecificity. Biochemistry , 41, 8589-8597
  • Siemann, M., A. Alvarado-Marín, M.Pietzsch, C. Syldatk (1999) A D-specific hydantoin amidohydrolase: properties of the metallo enzyme purified from Arthrobacter crystallopoietes. J. Mol. Catal. B. Enzyme , 6, 387-397
  • May, O.,A. Habenicht, R. Mattes, C. Syldatk, and M. Siemann (1998) Molecular evolution of hydantoinases. Biol. Chem . , 379, 743-747
  • May, O., M. Siemann and C. Syldatk (1998) A new method for the detection of hydantoinases withrespect to their enantioselectivity on acrylamide gels based on enzyme activity stain. Biotechnol. Techniques, 12, 309-312
  • May, O.,M. Siemann, M. Pietzsch, M. Kiess, R. Mattes and C.Syldatk (1998) Substrate-dependent enantioselectivity of a novel hydantoinasefrom Arthrobacter aurescens DSM 3745: Purification and characterization among other cyclicamidases. J. Biotechnol. ,61, 1-13
  • May, O.,M. Siemann, M. G. Siemann and C. Syldatk (1998) Thehydantoin amidohydrolase from Arthrobacter aurescens DSM 3745 is a zinc metalloenzyme. J. Mol. Catal. B. Enzyme, 5, 367-370
  • May, O.,M. Siemann, M. G. Siemann and C. Syldatk (1998) Catalytic and Structural Function of Zinc for the Hydantoinase from Arthrobacter aurescens DSM 3745. J. Mol. Catal. B. Enzyme, 4,211-218
  • May, O.,M. Siemann, C. Syldatk, K. Niefind and D. Schomburg(1996) Crystallisation and preliminary X-ray analysis of a hydantoinase from Arthrobacter aurescens DSM3745. Acta Cryst. D52, 1209–1210
  • Siemann, M., C. Syldatk and F. Wagner(1994) Enhanced stability of an L-hydantoinase mediated by its corresponding polyclonal antibody. Biotechnol. Letters 4, 349-354
  • Siemann, M., C. Syldatk and F. Wagner (1993) Detection and comparison of production strains with selective L-selective hydantoin-cleaving activity using polyclonal antibodies. Biotechnol. Techniques 5, 361-366

OTHERS (Molecular Imprinting; Antibiotics)

  • Siemann, M., L. I. Andersson and K.Mosbach (1997) Separation and detection of macrolideantibiotics by HPLC using macrolide-imprinted synthetic polymers as stationary phases. J Antibiotics , 50, 89-91
  • Senholdt, M., M. Siemann, K. Mosbach andL. I. Andersson (1997) Determination of cyclosporin A and metabolites total concentration using a molecularly imprinted polymer-based radioassay Analytical Letters, 30, 1809-1821
  • Siemann, M., L. I. Andersson and K.Mosbach (1996) Selective recognition of the herbicide atrazine by non-covalent molecularly imprinted polymers. J. Agric. Food Chem .,44, 141-145

PATENTS

  • European Patent WO/2011/018377; PCT/EP2010/061195: Fermentation Process(A novel mannose expression system for Bacillus subtilis in fermentation processes); Sept. 2010. M. Wenzel, J. Altenbuchner, C. Kiziak, M. Siemann-Herzberg
  • Patent No: US 6,800,464 B2: Arthrobacter D-carbamoylase and methods ofpreparing enantiomerically enriched D-amino acids (2004) K. Drauz, O. May, A. Bommarius, C. Syldatk, J.Altenbuchner, M. Werner, M. Siemann-
    Herzberg
  • World Patent WO/2002/077212: D-Carbamylase from Arthrobacter crystallopoietes DSM 20117(2002) K. Drauz, O. May, A. Bommarius, C. Syldatk, J. Altenbuchner, M. Werner, M. Siemann-Herzberg
  • European Patent EP1270720 : Activated rec-D-Hydantoinases (2003) A. Bommarius, K.  Drauz, O. May, M. Siemann-Herzberg, C.Syldatk, M. Werner, J. Altenbuchner

BADEN WUERTTEMBERG CERTIFICATE in Higher Eduction Pedagogy

  • Fully graduated since 2008   (certificated) 

Current LECTURES at University Stuttgart (for Details see ILIAS Portal, Univ. Stuttgart (Bachelor-/Master-/Diploma in: Technische Biologie, Verfahrenstechnik, Umweltschutztechnik, SimTech, Techn. Kybernetik)

  • Technical Biology I;  Technische Biologie  I ;   'siehe auch  Schnupperstudium an der  Univ. Stuttgart'
  • Technical Biology II;  Technische Biologie II
  • Principles in Metabolic Regulation;  Prinzipien der Stoffwechselregulation
  • Biological Systems (Biologische Systeme), since 2013    

PRACTICAL COURSES at University Stuttgart: (TB: Technische Biologie; VT: Verfahrenstechnik)

  • Up-and Downstream Processing (MSC TB)
  • Process Engineering, Lab Course;   Praktikum (Bio)Verfahrenstechnik  (BSC, TB )
  • Lab-Course on Biochemical Engineering;  Laborpraktikum BVT  (MSC,VT)
  • Arbeitstechniken und Projektarbeit  (BSC, VT)
  • Semesterbegleitende Projektarbeit  (BSC, VT)

INSTITUTE and UNIVERSITY ADMINISTRATION 

  • Stellvertretender Insitutsleiter
  • Projektleiter Gentechnische Arbeiten (bis 2013)
  • Biologischer Sicherheitsbeauftragter (seit 2013) 
  • Elected Member of the Faculty 04: ' Energie-, Verfahrens- und Biotechnik (since 2010)
  • Elected Member of the Shared Commission for Study Affairs in  Process Engineering and  Technical Biology, Faculties 04 and 07. ('Gemeinsame Studienkommission', GKM)
  • Member of the ' Studienkommissionen Verfahrenstechnik und  Technische Biologie'  


since 1994

 University Stuttgart, Germany, Institute of Biochemical Engineering (IBVT-S)

  • since 2009: Associate Director of the IBVT-S (Director: Prof. Dr.-Ing. R. Takors); 'Senior Lecturer and Scientist'
  • 2014: ' Habilitation' and 'Privatdozent' ( venia legendi in 'Biotechnology')
  • 1994-2001: Post doctoral research (Prof. Dr.-Ing. Dr. h.c. M. Reuss and Prof. Dr. Ch. Syldatk), with emphasis on Systems Biology, Metabolic and Bioprocess Engineering, Molecular Biology and Biocatalysis
   


1992
-

1993

 University of Lund, Sweden, Institute of Pure and Applied Biochemistry

  • Post doctoral research with Prof. Dr. Klaus Mosbach, granted by the Royal Swedish Academy of Sciences. Research activity: Molecular Imprinting
 
 

1983 - 1992

 Technical University of Braunschweig, Germany

  • 1989-1992: Doctoral research at the Institute of Biochemistry and Biotechnology. Dissertation (Dr. rer. nat.): Molecular and selerological investigation of the L-selective hydantoin-degradation pathway of Arthrobacter species., Advisor: Prof. Dr. Fritz Wagner
  • 1983-1989: Studying Biology (Diploma degree), majoring Biochemistry, Biotechnology and Botany