Systems metabolic engineering of Corynebacterium glutamicum for production of the chemical chaperone ectoine

BackgroundThe stabilizing and function-preserving effects of ectoines have attracted considerable biotechnological interest up to industrial scale processes for their production. These rely on the release of ectoines from high-salinity-cultivated microbial producer cells upon an osmotic down-shock in rather complex processor configurations. There is growing interest in uncoupling the production of ectoines from the typical conditions required for their synthesis, and instead design strains that naturally release ectoines into the medium without the need for osmotic changes, since the use of high-salinity media in the fermentation process imposes notable constraints on the costs, design, and durability of fermenter systems.ResultsHere, we used a Corynebacterium glutamicum strain as a cellular chassis to establish a microbial cell factory for the biotechnological production of ectoines. The implementation of a mutant aspartokinase enzyme ensured efficient supply of L-aspartate-beta-semialdehyde, the precursor for ectoine biosynthesis. We further engineered the genome of the basic C. glutamicum strain by integrating a codon-optimized synthetic ectABCD gene cluster under expressional control of the strong and constitutive C. glutamicum tuf promoter. The resulting recombinant strain produced ectoine and excreted it into the medium; however, lysine was still found as a by-product. Subsequent inactivation of the L-lysine exporter prevented the undesired excretion of lysine while ectoine was still exported. Using the streamlined cell factory, a fed-batch process was established that allowed the production of ectoine with an overall productivity of 6.7 g L-1 day-1 under growth conditions that did not rely on the use of high-salinity media.ConclusionsThe present study describes the construction of a stable microbial cell factory for recombinant production of ectoine. We successfully applied metabolic engineering strategies to optimize its synthetic production in the industrial workhorse C. glutamicum and thereby paved the way for further improvements in ectoine yield and biotechnological process optimization.

[1]  M. M. Bradford A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. , 1976, Analytical biochemistry.

[2]  H. Sahm,et al.  Regulation of enzymes of lysine biosynthesis in Corynebacterium glutamicum. , 1988, Journal of general microbiology.

[3]  H. Sahm,et al.  Genetic and biochemical analysis of the aspartokinase from Corynebacterium glutamicum , 1991, Molecular microbiology.

[4]  A. D. de Graaf,et al.  Flux partitioning in the split pathway of lysine synthesis in Corynebacterium glutamicum. Quantification by 13C- and 1H-NMR spectroscopy. , 1993, European journal of biochemistry.

[5]  M. Ikeda,et al.  Transport of aromatic amino acids and its influence on overproduction of the amino acids in Corynebacterium glutamicum , 1994 .

[6]  M. Ikeda,et al.  Tryptophan Production by Transport Mutants of Corynebacterium glutamicum , 1995 .

[7]  E. Galinski,et al.  Characterization of genes for the biosynthesis of the compatible solute ectoine from Marinococcus halophilus and osmoregulated expression in Escherichia coli. , 1997, Microbiology.

[8]  S. Mikkat,et al.  The ggtA gene encodes a subunit of the transport system for the osmoprotective compound glucosylglycerol in Synechocystis sp. strain PCC 6803 , 1997, Journal of bacteriology.

[9]  E. Bremer,et al.  Uptake and synthesis of compatible solutes as microbial stress responses to high-osmolality environments , 1998, Archives of Microbiology.

[10]  T. Sauer,et al.  Bacterial milking: A novel bioprocess for production of compatible solutes. , 1998, Biotechnology and bioengineering.

[11]  M. Saier,et al.  The LysE superfamily: topology of the lysine exporter LysE of Corynebacterium glutamicum, a paradyme for a novel superfamily of transmembrane solute translocators. , 1999, Journal of Molecular Microbiology and Biotechnology.

[12]  Y. Murooka,et al.  Characterization of Biosynthetic Enzymes for Ectoine as a Compatible Solute in a Moderately Halophilic Eubacterium, Halomonas elongata , 1999, Journal of bacteriology.

[13]  E. Bremer Coping with osmotic challenges : osmoregulation through accumulation and release of compatible solutes in bacteria , 2000 .

[14]  S. Barth,et al.  Compatible-Solute-Supported Periplasmic Expression of Functional Recombinant Proteins under Stress Conditions , 2000, Applied and Environmental Microbiology.

[15]  D. Welsh,et al.  Ecological significance of compatible solute accumulation by micro-organisms: from single cells to global climate. , 2000, FEMS microbiology reviews.

[16]  A. Burkovski,et al.  Bacterial amino acid transport proteins: occurrence, functions, and significance for biotechnological applications , 2002, Applied Microbiology and Biotechnology.

[17]  P. Goloubinoff,et al.  Chemical Chaperones Regulate Molecular Chaperones in Vitro and in Cells under Combined Salt and Heat Stresses* , 2001, The Journal of Biological Chemistry.

[18]  B. Poolman,et al.  Osmosensing and osmoregulatory compatible solute accumulation by bacteria. , 2001, Comparative biochemistry and physiology. Part A, Molecular & integrative physiology.

[19]  New type of osmoregulated solute transporter identified in halophilic members of the bacteria domain: TRAP transporter TeaABC mediates uptake of ectoine and hydroxyectoine in Halomonas elongata DSM 2581(T). , 2002, Journal of bacteriology.

[20]  E. Agosin,et al.  Metabolic flux redistribution in Corynebacterium glutamicum in response to osmotic stress , 2002, Applied Microbiology and Biotechnology.

[21]  Erhard Bremer,et al.  Osmotically Regulated Synthesis of the Compatible Solute Ectoine in Bacillus pasteurii and Related Bacillus spp , 2002, Applied and Environmental Microbiology.

[22]  Christoph Wittmann,et al.  Correcting mass isotopomer distributions for naturally occurring isotopes. , 2002, Biotechnology and bioengineering.

[23]  C. Wittmann,et al.  Metabolic flux analysis using mass spectrometry. , 2002, Advances in biochemical engineering/biotechnology.

[24]  A. Goesmann,et al.  The complete Corynebacterium glutamicum ATCC 13032 genome sequence and its impact on the production of L-aspartate-derived amino acids and vitamins. , 2003, Journal of biotechnology.

[25]  M. Ikeda Amino acid production processes. , 2003, Advances in biochemical engineering/biotechnology.

[26]  J. Kalinowski,et al.  Plasmids in Corynebacterium glutamicum and their molecular classification by comparative genomics. , 2003, Journal of biotechnology.

[27]  T. Hermann Industrial production of amino acids by coryneform bacteria. , 2003, Journal of biotechnology.

[28]  N. Grammel,et al.  Functional Expression of the Ectoine Hydroxylase Gene (thpD) from Streptomyces chrysomallus in Halomonas elongata , 2004, Applied and Environmental Microbiology.

[29]  P. Yancey Compatible and Counteracting Solutes: Protecting Cells from the Dead Sea to the Deep Sea , 2004, Science progress.

[30]  J. J. Nieto,et al.  Complex regulation of the synthesis of the compatible solute ectoine in the halophilic bacterium Chromohalobacter salexigens DSM 3043T. , 2004, Microbiology.

[31]  Stefan Lorkowski,et al.  Characterization of the synthetic compatible solute homoectoine as a potent PCR enhancer. , 2004, Biochemical and biophysical research communications.

[32]  Christoph Wittmann,et al.  Comparative Metabolic Flux Analysis of Lysine-Producing Corynebacterium glutamicum Cultured on Glucose or Fructose , 2004, Applied and Environmental Microbiology.

[33]  A. Dandekar,et al.  The Chemical Chaperone Proline Relieves the Thermosensitivity of a dnaK Deletion Mutant at 42°C , 2004, Journal of bacteriology.

[34]  A. Dandekar,et al.  The chemical chaperone proline relieves the thermosensitivity of a dnaK deletion mutant at 42 degrees C. , 2004, Journal of bacteriology.

[35]  P. Yancey,et al.  Organic osmolytes as compatible, metabolic and counteracting cytoprotectants in high osmolarity and other stresses , 2005, Journal of Experimental Biology.

[36]  M. Inui,et al.  Production of organic acids by Corynebacterium glutamicum under oxygen deprivation , 2005, Applied Microbiology and Biotechnology.

[37]  Y. Trotsenko,et al.  Characterization of the ectoine biosynthesis genes of haloalkalotolerant obligate methanotroph “Methylomicrobium alcaliphilum 20Z” , 2005, Archives of Microbiology.

[38]  Christoph Wittmann,et al.  Amplified Expression of Fructose 1,6-Bisphosphatase in Corynebacterium glutamicum Increases In Vivo Flux through the Pentose Phosphate Pathway and Lysine Production on Different Carbon Sources , 2005, Applied and Environmental Microbiology.

[39]  Hyohak Song,et al.  Genome-Based Metabolic Engineering of Mannheimia succiniciproducens for Succinic Acid Production , 2006, Applied and Environmental Microbiology.

[40]  V. Wendisch,et al.  Metabolic engineering of Escherichia coli and Corynebacterium glutamicum for biotechnological production of organic acids and amino acids. , 2006, Current opinion in microbiology.

[41]  G. Rose,et al.  Erratum: A molecular mechanism for osmolyte-induced protein stability (Proceedings of the National Academy of Sciences of the United States of America (September 19, 2006) 38, 103 (13997-14002) DOI 10.1073/pnas.0606236103) , 2006 .

[42]  L. Gierasch,et al.  Inhibition of protein aggregation in vitro and in vivo by a natural osmoprotectant , 2006, Proceedings of the National Academy of Sciences.

[43]  J. J. Nieto,et al.  The ectD Gene, Which Is Involved in the Synthesis of the Compatible Solute Hydroxyectoine, Is Essential for Thermoprotection of the Halophilic Bacterium Chromohalobacter salexigens , 2006, Journal of bacteriology.

[44]  M. de Rosa,et al.  High-yield cultivation of Marinococcus M52 for production and recovery of hydroxyectoine. , 2006, Research in microbiology.

[45]  G. Lentzen,et al.  Extremolytes: natural compounds from extremophiles for versatile applications , 2006, Applied Microbiology and Biotechnology.

[46]  W. Wiechert,et al.  Emerging Corynebacterium glutamicum systems biology. , 2006, Journal of biotechnology.

[47]  K. Hyung-Min,et al.  Deregulation of aspartokinase by single nucleotide exchange leads to global flux rearrangement in the central metabolism of Corynebacterium glutamicum , 2006 .

[48]  G. Rose,et al.  A molecular mechanism for osmolyte-induced protein stability , 2006, Proceedings of the National Academy of Sciences.

[49]  R. Krämer,et al.  Characterization of compatible solute transporter multiplicity in Corynebacterium glutamicum , 2007, Applied Microbiology and Biotechnology.

[50]  M. Hatsu,et al.  Metabolic Engineering of Corynebacterium glutamicum for Cadaverine Fermentation , 2007, Bioscience, biotechnology, and biochemistry.

[51]  C. Wittmann,et al.  Sampling for metabolome analysis of microorganisms. , 2007, Analytical chemistry.

[52]  V. Wendisch Amino acid biosynthesis : pathways, regulation and metabolic engineering , 2007 .

[53]  C. Wittmann,et al.  The l -Lysine Story: From Metabolic Pathways to Industrial Production , 2007 .

[54]  D. Benndorf,et al.  Continuous Synthesis and Excretion of the Compatible Solute Ectoine by a Transgenic, Nonhalophilic Bacterium , 2007, Applied and Environmental Microbiology.

[55]  Christoph Wittmann,et al.  Fluxome analysis using GC-MS , 2007, Microbial cell factories.

[56]  M. Inui,et al.  Production of d-lactic acid by Corynebacterium glutamicum under oxygen deprivation , 2005, Applied Microbiology and Biotechnology.

[57]  E. Bremer,et al.  Synthesis and Uptake of the Compatible Solutes Ectoine and 5-Hydroxyectoine by Streptomyces coelicolor A3(2) in Response to Salt and Heat Stresses , 2008, Applied and Environmental Microbiology.

[58]  E. Bremer,et al.  Synthesis of the Compatible Solute Ectoine in Virgibacillus pantothenticus Is Triggered by High Salinity and Low Growth Temperature , 2008, Applied and Environmental Microbiology.

[59]  Erwin A Galinski,et al.  Heterologous ectoine production in Escherichia coli: By-passing the metabolic bottle-neck , 2008, Saline systems.

[60]  Zhanglin Lin,et al.  Nitrogen fixation island and rhizosphere competence traits in the genome of root-associated Pseudomonas stutzeri A1501 , 2008, Proceedings of the National Academy of Sciences.

[61]  Sang Yup Lee Systems Metabolic Engineering , 2008, RECOMB.

[62]  S. Anzali,et al.  The multifunctional role of ectoine as a natural cell protectant. , 2008, Clinics in dermatology.

[63]  Christoph Wittmann,et al.  Metabolic Engineering of the Tricarboxylic Acid Cycle for Improved Lysine Production by Corynebacterium glutamicum , 2009, Applied and Environmental Microbiology.

[64]  K. Unfried,et al.  The compatible solute ectoine protects against nanoparticle-induced neutrophilic lung inflammation , 2009 .

[65]  M. D'Souza,et al.  Cohesion Group Approach for Evolutionary Analysis of Aspartokinase, an Enzyme That Feeds a Branched Network of Many Biochemical Pathways , 2009, Microbiology and Molecular Biology Reviews.

[66]  G. van Echten-Deckert,et al.  A Natural Tetrahydropyrimidine Protects Small Bowel from Cold Ischemia and Subsequent Warm in vitro Reperfusion Injury , 2009, Pathobiology.

[67]  C. Wittmann,et al.  Systems-wide metabolic pathway engineering in Corynebacterium glutamicum for bio-based production of diaminopentane. , 2010, Metabolic engineering.

[68]  M. Salvador,et al.  Ectoines in cell stress protection: uses and biotechnological production. , 2010, Biotechnology advances.

[69]  C. Wittmann,et al.  Identification and Elimination of the Competing N-Acetyldiaminopentane Pathway for Improved Production of Diaminopentane by Corynebacterium glutamicum , 2010, Applied and Environmental Microbiology.

[70]  Christoph Wittmann,et al.  Systems level engineering of Corynebacterium glutamicum – Reprogramming translational efficiency for superior production , 2010 .

[71]  A. Heine,et al.  Synthesis of 5-Hydroxyectoine from Ectoine: Crystal Structure of the Non-Heme Iron(II) and 2-Oxoglutarate-Dependent Dioxygenase EctD , 2010, PloS one.

[72]  Rajni Hatti-Kaul,et al.  High productivity of ectoines by Halomonas boliviensis using a combined two-step fed-batch culture and milking process. , 2010, Journal of biotechnology.

[73]  C. Fallet,et al.  Process optimization of the integrated synthesis and secretion of ectoine and hydroxyectoine under hyper/hypo‐osmotic stress , 2010, Biotechnology and bioengineering.

[74]  D. Agard,et al.  Osmolyte‐induced conformational changes in the Hsp90 molecular chaperone , 2009, Protein science : a publication of the Protein Society.

[75]  E. Galinski,et al.  Natural and Engineered Hydroxyectoine Production Based on the Pseudomonas stutzeri ectABCD-ask Gene Cluster , 2010, Applied and Environmental Microbiology.

[76]  C. Wittmann,et al.  From zero to hero--design-based systems metabolic engineering of Corynebacterium glutamicum for L-lysine production. , 2011, Metabolic engineering.

[77]  G. Storz,et al.  Bacterial stress responses. , 2011 .

[78]  Lin Bai,et al.  Production of ectoine through a combined process that uses both growing and resting cells of Halomonas salina DSM 5928T , 2011, Extremophiles.

[79]  J. Heider,et al.  A Specialized Aspartokinase Enhances the Biosynthesis of the , 2011 .

[80]  Christoph Wittmann,et al.  Metabolic engineering of cellular transport for overproduction of the platform chemical 1,5-diaminopentane in Corynebacterium glutamicum. , 2011, Metabolic engineering.

[81]  H. Klenk,et al.  A blueprint of ectoine metabolism from the genome of the industrial producer Halomonas elongata DSM 2581T , 2011, Environmental microbiology.

[82]  Christoph Wittmann,et al.  Metabolic engineering of Corynebacterium glutamicum for production of 1,5-diaminopentane from hemicellulose. , 2011, Biotechnology journal.

[83]  Rob Phillips,et al.  Mechanosensitive channels: what can they do and how do they do it? , 2011, Structure.

[84]  J. J. Nieto,et al.  Temperature- and Salinity-Decoupled Overproduction of Hydroxyectoine by Chromohalobacter salexigens , 2012, Applied and Environmental Microbiology.

[85]  E. Bremer,et al.  Synthesis, Release, and Recapture of Compatible Solute Proline by Osmotically Stressed Bacillus subtilis Cells , 2012, Applied and Environmental Microbiology.

[86]  Christoph Wittmann,et al.  Systems Metabolic Engineering of Corynebacterium glutamicum for Biobased Production of Chemicals, Materials and Fuels , 2012 .

[87]  Christoph Wittmann,et al.  Systems and synthetic metabolic engineering for amino acid production - the heartbeat of industrial strain development. , 2012, Current opinion in biotechnology.

[88]  Ian R. Booth,et al.  The MscS and MscL Families of Mechanosensitive Channels Act as Microbial Emergency Release Valves , 2012, Journal of bacteriology.

[89]  C. Wittmann,et al.  Bio-based production of chemicals, materials and fuels -Corynebacterium glutamicum as versatile cell factory. , 2012, Current opinion in biotechnology.

[90]  M. Inui,et al.  Corynebacterium glutamicum: Biology and Biotechnology , 2013 .

[91]  C. Wittmann,et al.  Systems metabolic engineering of xylose-utilizing Corynebacterium glutamicum for production of 1,5-diaminopentane. , 2013, Biotechnology journal.

[92]  C. Wittmann,et al.  Membrane fluidity of halophilic ectoine-secreting bacteria related to osmotic and thermal treatment , 2013, Bioprocess and Biosystems Engineering.

[93]  Boris Martinac,et al.  Glutamate efflux mediated by Corynebacterium glutamicum MscCG, Escherichia coli MscS, and their derivatives. , 2013, Biochimica et biophysica acta.

[94]  H. Abdel-Aziz,et al.  Novel effects of ectoine, a bacteria-derived natural tetrahydropyrimidine, in experimental colitis. , 2013, Phytomedicine : international journal of phytotherapy and phytopharmacology.

[95]  Christoph Wittmann,et al.  Pathways at Work: Metabolic Flux Analysis of the Industrial Cell Factory Corynebacterium glutamicum , 2020, Corynebacterium glutamicum.

[96]  M. Inui,et al.  Genome Engineering of Corynebacterium glutamicum , 2013 .

[97]  S. Takeno,et al.  Amino Acid Production by Corynebacterium glutamicum , 2013 .

[98]  C. Hollenberg,et al.  Synthesis and release of the bacterial compatible solute 5-hydroxyectoine in Hansenula polymorpha. , 2013, Journal of biotechnology.

[99]  Volker F. Wendisch,et al.  Transcriptome/Proteome Analysis of Corynebacterium glutamicum , 2013 .

[100]  Christoph Wittmann,et al.  Metabolic engineering of industrial platform microorganisms for biorefinery applications--optimization of substrate spectrum and process robustness by rational and evolutive strategies. , 2013, Bioresource technology.

[101]  J. Kalinowski,et al.  A Functionally Split Pathway for Lysine Synthesis in Corynebacterium glutamicum BARBEL SCHRUMPF , 2022 .