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References (53)
-
발레 페르난도, 마거리트 세르빈, 필리페 소우카일레 (2003)
Process for the biological production of 1,3-propanediol with high yield -
S. Saint-Amans, L. Girbal, J. Andrade, K. Ahrens, P. Soucaille (2001)
Regulation of Carbon and Electron Flow inClostridium butyricum VPI 3266 Grown on Glucose-Glycerol MixturesJournal of Bacteriology, 183
-
O. Lowry, N. Rosebrough, A. Farr, R. Randall (1951)
Protein measurement with the Folin phenol reagent.The Journal of biological chemistry, 193 1
-
Luciana Macis, Rolf Daniel, Gerhard Gottschalk (1998)
Properties and sequence of the coenzyme B12-dependent glycerol dehydratase of Clostridium pasteurianum.FEMS microbiology letters, 164 1
-
E. Johnson, R. Levine, E. Lin (1985)
Inactivation of glycerol dehydrogenase of Klebsiella pneumoniae and the role of divalent cationsJournal of Bacteriology, 164
-
H. Biebl, C. Spröer (2002)
Taxonomy of the glycerol fermenting clostridia and description of Clostridium diolis sp. nov.Systematic and applied microbiology, 25 4
-
S. Santra, J. Schmitz, M. Kuroda, T. Fu, Wendeline Wagner, A. Craiu, X. Zheng, G. Krivulka, K. Beaudry, M. Lifton, C. Nickerson, W. Trigona, Kara Punt, D. Freed, D. Casimiro, Adam Simon, M. Davies, M. Chastain, T. Strom, R. Gelman, D. Montefiori, Mark Lewis, E. Emini (2000)
Structure of a glycerol-conducting channel and the basis for its selectivity.Science, 290 5491
-
(1998)
Increased production of 1 , 3 - propanediol by fermentation of inexpensive carbon sources -
R. Gutknecht, Rudolf Beutler, L. Garcia-Alles, U. Baumann, B. Erni (2001)
The dihydroxyacetone kinase of Escherichia coli utilizes a phosphoprotein instead of ATP as phosphoryl donorThe EMBO Journal, 20
-
(2001)
Quantitative Physiologie und metabolische Stof - flussmodellierung der mikrobiellen Herstellung von 1 , 3 - Propandiol -
M. Saier, A. Reizer, J. Reizer (1993)
The MIP family of integral membrane channel proteins: sequence comparisons, evolutionary relationships, reconstructed pathway of evolution, and proposed functional differentiation of the two repeated halves of the proteins.Critical reviews in biochemistry and molecular biology, 28 3
-
F. Skraly, B. Lytle, D. Cameron (1998)
Construction and Characterization of a 1,3-Propanediol OperonApplied and Environmental Microbiology, 64
-
Markus Seyfried, Rolf Daniel, Gerhard Gottschalk (1996)
Cloning, sequencing, and overexpression of the genes encoding coenzyme B12-dependent glycerol dehydratase of Citrobacter freundiiJournal of Bacteriology, 178
-
R. Forage, E. Lin (1982)
DHA system mediating aerobic and anaerobic dissimilation of glycerol in Klebsiella pneumoniae NCIB 418Journal of Bacteriology, 151
-
E. Lin (1976)
Glycerol dissimilation and its regulation in bacteria.Annual review of microbiology, 30
-
K. Menzel, K. Ahrens, A. Zeng, W. Deckwer (1998)
Kinetic, dynamic, and pathway studies of glycerol metabolism by Klebsiella pneumoniae in anaerobic continuous culture: IV. Enzymes and fluxes of pyruvate metabolismBiotechnology and Bioengineering, 60
-
(2003)
Identi - fication and expression of the genes and purification and Biotechnol -
Kirsten Menzel, A. Zeng, H. Biebl, W. Deckwer (2000)
Kinetic, dynamic, and pathway studies of glycerol metabolism by Klebsiella pneumoniae in anaerobic continuous culture: I. The phenomena and characterization of oscillation and hysteresisBiotechnology and Bioengineering, 52
-
R. Apweiler, T. Attwood, A. Bairoch, A. Bateman, E. Birney, M. Biswas, P. Bucher, L. Cerutti, F. Corpet, M. Croning, R. Durbin, L. Falquet, W. Fleischmann, J. Gouzy, H. Hermjakob, N. Hulo, I. Jonassen, D. Kahn, Alexander Kanapin, Youla Karavidopoulou, R. Lopez, B. Marx, N. Mulder, T. Oinn, M. Pagni, F. Servant, Christian Sigrist, E. Zdobnov (2001)
The InterPro database, an integrated documentation resource for protein families, domains and functional sitesNucleic acids research, 29 1
-
Rolf Daniel, T. Bobik, Gerhard Gottschalk (1998)
Biochemistry of coenzyme B12-dependent glycerol and diol dehydratases and organization of the encoding genes.FEMS microbiology reviews, 22 5
-
K. Ahrens, K. Menzel, An-Ping Zeng, W. Deckwer (1998)
Kinetic, dynamic, and pathway studies of glycerol metabolism by Klebsiella pneumoniae in anaerobic continuous culture: III. Enzymes and fluxes of glycerol dissimilation and 1,3-propanediol formation.Biotechnology and bioengineering, 59 5
-
(2001)
Method for preparing 1 , 3 - propanediol by a recombinant microorganism in the absence of coenzyme B 12 or one of its precursors -
K. Mori, T. Tobimatsu, T. Toraya (1997)
A protein factor is essential for in situ reactivation of glycerol-inactivated adenosylcobalamin-dependent diol dehydratase.Bioscience, biotechnology, and biochemistry, 61 10
-
Metabolic Engineering und Modellierung der Glycerinfermentation zu 1,3-Propandiol. Habilitationschrift, Technical University of Braunschweig -
R. Dixon (1998)
The oxygen-responsive NIFL-NIFA complex: a novel two-component regulatory system controlling nitrogenase synthesis in γ-ProteobacteriaArchives of Microbiology, 169
-
K. Heller, E. Lin, T. Wilson (1980)
Substrate specificity and transport properties of the glycerol facilitator of Escherichia coliJournal of Bacteriology, 144
-
R. Daniel, K. Stuertz, G. Gottschalk (1995)
Biochemical and molecular characterization of the oxidative branch of glycerol utilization by Citrobacter freundiiJournal of Bacteriology, 177
-
D. Cameron, N. Altaras, M. Hoffman, Anita Shaw (1998)
Metabolic Engineering of Propanediol PathwaysBiotechnology Progress, 14
-
T. Toraya (2000)
Radical catalysis of B12 enzymes: structure, mechanism, inactivation, and reactivation of diol and glycerol dehydratasesCellular and Molecular Life Sciences CMLS, 57
-
I. Tong, D. Cameron (1992)
Enhancement of 1,3-Propanediol production by cofermentation inEscherichia coli expressingKlebsiella pneumoniae dha regulon genesApplied Biochemistry and Biotechnology, 34-35
-
Hans Liao, D. Cameron (1991)
1,3-Propanediol production by Escherichia coli expressing genes from the Klebsiella pneumoniae dha regulonApplied and Environmental Microbiology, 57
-
F. Ruch, E. Lin (1975)
Independent constitutive expression of the aerobic and anaerobic pathways of glycerol catabolism in Klebsiella aerogenesJournal of Bacteriology, 124
-
C. Cummins, J. Johnson (1971)
Taxonomy of the Clostridia: Wall Composition and DNA Homologies in Clostridium butyricum and Other Butyric Acid-producing ClostridiaMicrobiology, 67
-
S. Abbad-Andaloussi, E. Guedon, E. Spiesser, H. Petitdemange (1996)
Glycerol dehydratase activity: the limiting step for 1,3‐propanediol production by Clostridium butyricum DSM 5431Letters in Applied Microbiology, 22
-
Figure 3. Enzyme activities in anaerobic glycerol fermentation by K. pneumoniae -
K. Mori, T. Toraya (1999)
Mechanism of reactivation of coenzyme B12-dependent diol dehydratase by a molecular chaperone-like reactivating factor.Biochemistry, 38 40
-
(1999)
Analyse der Stofffluesse und Metabolic Engineering der Glycerinvergaerung zu 1 , 3 - Propandiol durch Klebsiella pneumoniae -
E. Johnson, S. Burke, R. Forage, E. Lin (1984)
Purification and properties of dihydroxyacetone kinase from Klebsiella pneumoniaeJournal of Bacteriology, 160
-
M. Buck, M. Gallegos, D. Studholme, Yuli Guo, J. Gralla (2000)
The Bacterial Enhancer-Dependent ς54(ςN) Transcription FactorJournal of Bacteriology, 182
-
T. Toraya, K. Mori (1999)
A Reactivating Factor for Coenzyme B12-dependent Diol Dehydratase*The Journal of Biological Chemistry, 274
-
G. Sprenger, B. Hammer, E. Johnson, E. Lin (1989)
Anaerobic growth of Escherichia coli on glycerol by importing genes of the dha regulon from Klebsiella pneumoniae.Journal of general microbiology, 135 5
-
Michael Beach, R. Osuna (1998)
Identification and Characterization of thefis Operon in Enteric BacteriaJournal of Bacteriology, 180
-
Frauke Luers, Markus Seyfried, Rolf Daniel, Gerhard Gottschalk (1997)
Glycerol conversion to 1,3-propanediol by Clostridium pasteurianum: cloning and expression of the gene encoding 1,3-propanediol dehydrogenase.FEMS microbiology letters, 154 2
-
D. Richey, E. Lin (1972)
Importance of Facilitated Diffusion for Effective Utilization of Glycerol by Escherichia coliJournal of Bacteriology, 112
-
S. Altschul, Thomas Madden, A. Schäffer, Jinghui Zhang, Zheng Zhang, W. Miller, D. Lipman (1997)
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.Nucleic acids research, 25 17
-
K. Mori, T. Tobimatsu, T. Hara, T. Toraya (1997)
Characterization, Sequencing, and Expression of the Genes Encoding a Reactivating Factor for Glycerol-inactivated Adenosylcobalamin-dependent Diol Dehydratase*The Journal of Biological Chemistry, 272
-
Tohru Shimizu, K. Ohtani, H. Hirakawa, Kenshiro Ohshima, A. Yamashita, T. Shiba, N. Ogasawara, M. Hattori, S. Kuhara, H. Hayashi (2002)
Complete genome sequence of Clostridium perfringens, an anaerobic flesh-eaterProceedings of the National Academy of Sciences of the United States of America, 99
-
Rolf Daniel, Rainer Boenigk, G. Gottschalk (1995)
Purification of 1,3-propanediol dehydrogenase from Citrobacter freundii and cloning, sequencing, and overexpression of the corresponding gene in Escherichia coliJournal of Bacteriology, 177
-
H. Ozaki, I. Shiio (1969)
Regulation of the TCA and glyoxylate cycles in Brevibacterium flavum. II. Regulation of phosphoenolpyruvate carboxylase and pyruvate kinase.Journal of biochemistry, 66 3
-
Yi-Chyi Lai, Shu-li Yang, Hwei-Ling Peng, Hwan-You Chang (2000)
Identification of Genes Present Specifically in a Virulent Strain of Klebsiella pneumoniaeInfection and Immunity, 68
-
G. Chotani, T. Dodge, A. Hsu, M. Kumar, R. LaDuca, D. Trimbur, W. Weyler, K. Sanford (2000)
The commercial production of chemicals using pathway engineering.Biochimica et biophysica acta, 1543 2
-
B. Taylor, I. Zhulin (1999)
PAS Domains: Internal Sensors of Oxygen, Redox Potential, and LightMicrobiology and Molecular Biology Reviews, 63
-
C. Seifert, S. Bowien, G. Gottschalk, R. Daniel (2001)
Identification and expression of the genes and purification and characterization of the gene products involved in reactivation of coenzyme B12-dependent glycerol dehydratase of Citrobacter freundii.European journal of biochemistry, 268 8
- Publisher
- Wiley
- Copyright
- Copyright © 2002 American Institute of Chemical Engineers (AIChE)
- ISSN
- 8756-7938
- eISSN
- 1520-6033
- DOI
- 10.1021/bp025739m
- pmid
- 12675558
- Publisher site
- See Article on Publisher Site
Abstract
The dihydroxyacetone ( dha) regulon of bacteria encodes genes for the anaerobic metabolism of glycerol. In this work, genomic data are used to analyze and compare the dha regulon and related genes in different organisms in silico with respect to gene organization, sequence similarity, and possible functions. Database searches showed that among the organisms, the genomes of which have been sequenced so far, only two, i.e., Klebsiella pneumoniaeMGH 78578 and Clostridium perfringens contain a complete dha regulon bearing all known enzymes. The components and their organization in the dha regulon of these two organisms differ considerably from each other and also from the previously partially sequenced dha regulons in Citrobacter freundii, Clostridium pasteurianum, and Clostridium butyricum. Unlike all of the other organisms, genes for the oxidative and reductive pathways of anaerobic glycerol metabolism in C. perfringens are located in two separate organization units on the chromosome. Comparisons of deduced protein sequences of genes with similar functions showed that the dha regulon components in K. pneumoniae and C. freundii have high similarities (80–95%) but lower similarities to those of the Clostridium species (30–80%). Interestingly, the protein sequence similarities among the dha genes of the Clostridium species are in many cases even lower than those between the Clostridium species and K. pneumoniae or C. freundii, suggesting two different types of dharegulon in the Clostridium species studied. The in silico reconstruction and comparison of dha regulons revealed several new genes in the microorganisms studied. In particular, a novel dha kinase that is phosphoenolpyruvate‐dependent is identified and experimentally confirmed for K. pneumoniaein addition to the known ATP‐dependent dha kinase. This finding gives new insights into the regulation of glycerol metabolism in K. pneumoniaeand explains some hitherto not well understood experimental observations.
Journal
Biotechnology Progress – Wiley
Published: Jan 1, 2003