JOURNAL DATABASE OF 1,3-PROPANEDIOL DEHYDROGENASE

 

Veiga-Da-Cunha, M., and Foster, M.A. (1992). "1,3-propanediol : NAD⁺ oxidoreductase of Lactobacillus brevis and Lactobacillus buchneri." Applied and environmental Mirobiology 58: 2005-2010.

 

Németh, Á., Kupcsulik, B, Sevella, B. (2003). "1,3-propanediol oxidoreductase production with Klebsiella pneumoniae DSM 2026." World Journal of Microbiology and Biotechnology 19: 659-663.

 

Boronat, A., and Aguilar, J. (1981). "Metabolism of L-fucose and L-rhamnose in Escherichia coli : Differences in induction of propanediol oxidoreductase." Journal of Bacteriology 147(1): 181-185.

 

Obrados, N., Cabiscol, E., Aguilar, J., and Ros, J. (1998). "Site-directed mutagenesis studies of the metal binding center of the iron-dependent propanediol oxidoreductase from Escherichia coli." Eur. J. Biochem. 258: 207-213.

 

Johnson, E. A., and Lin, E. C. C. (1987). "Klebsiella pneumoniae 1,3-propanediol : NAD⁺ oxidoreductase." Journal of Bacteriology 169(5): 2050-2054.

 

Malaoui, H., and Marczak, R. (2000). "Purification and characterization of the 1,3-propanediol dehydrogenase of Clostridium butyricum E5." Enzyme and Microbial Technology 27: 399-405.

 

Malaoui, H., and Marczak, R. (2001). "Separation and characterization of the 1,3-propanediol and glycerol dehydrogenase activities from Clostridium butyricum E5 wild-type and mutant." Journal of Applied Microbiology 90: 1006-1014.

           

Conway, T., and Ingram, L. O. (1989).  “Similarity of Escherichia coli propanediol oxidoreductase  (fucO product) and an unusual alcohol dehydrogenase from Zymomonas  mobilis and Saccharomyces cerevisiae. ”  Journal of Bacteriology 171: 3754-3759.

 

Koo, P. H., and Adams, E.  (1974).  “α-ketoglutaric semialdehyde dehydrogenase of Pseudomonas – Properties of the separately induced isoenzymes.”  The Journal of Biological Chemistry 249(6): 1704-1716. (No Space)

 

Luers, F., Seyfried, M., Daniel, R., and Gottschalk, G. (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: 337-345.

Daniel, R., Boenigk, R., and Gottschalk, G. (1995). "Purification of 1,3-propanediol dehydrogenase from Citrobacter freundii and cloning, sequencing and overexpression of the corresponding gene in Escherichia coli." Journal of Bacteriology 177(8): 2151-2156.

 

Schwarzenbacher, R., Delft, F., Canaves, J. M., Brinen, L. S., Dai, X.-P, Deacon, A. M., Elsliger, M. A., Eshaghi, S., Floyd, R., Godzik, A., Grittini, C., Grzechnik, S. K., Guda, C., Jaroszewski, L., Karlak, C., Klock, H. E., Koesema, E., Kovarik, J. S., Kreusch, A., Kuhn, P.,  Lesley, S. A., McMullan, D., McPhillips, T. M., Miller, M. A., Miller, M. D., Morse, A., Moy, K., Ouyang, J., Page, R., Robb, A., Rodrigues, K., Selby, T. L., Spraggon, G., Stevens, R. C., Bedem, H., Velasquez, J., Vincent, J., Wang, X.-H., West, B., Wolf, G., Hodgson, K. O., Wooley, J., Wilson, I. A. (2004). "Crystal structure of an iron-containing 1,3-propanediol dehydrogenase (TM0920) from Thermotoga maritima at 1.3 A resolution." Protein : structure, function, and bioinformatics 54: 174-177.

 

Lowry, O. H., Rosebrough, N. J., Farr, A. L., Randall, R. J. (1951). "Protein measurement with the folin phenol reagent." J. Biol. Chem. 193: 265-275.

           

 

 

JOURNAL DATABASE OF GLYCEROL DEHYDRATASE

 

 

Macis, L., Daniel, R., Gottschalk, G. (1998).  “Properties and the sequence of the coenzyme B₁₂-dependent glycerol dehydratase of Clostridium pasteurianum.”  FEMS Microbiology Letters 164: 21-28.

 

Sauvageot, N., Muller, C., Hartke, A., Auffray, Y., Laplace, J.-M. (2002). "Characterization of the diol dehydratase pdu operon of Lactobacillus collinoides." FEMS Microbiology Letters 209: 69-74.

 

Liao, D. –I., Dotson, G., Turner, I., Reiss, L., Emptage, M. (2003).  “Crystal structure of substrate free form of glycerol dehydratase.”  Journal of Inorganic Biochemistry 93: 84-91.

 

Toraya, T., Kuno, S., and Fukui, S. (1980). "Distribution of coenzyme B₁₂-dependent diol dehydratase and glycerol dehydratase in selected genera of Enterobacteriaceae and Propionibacteriaceae." Journal of Bacteriology 141(3): 1439-1442.

 

Tobimatsu, T., Azuma, M., Matsubara, H., Takatori, H., Niida, T., Nishimoto, K., Satoh, H., Hayashi, R., and Toraya, T. (1996). "Cloning, sequencing, and high level expression of the genes encoding adenosylcobalamin-dependent glycerol dehydrase of Klebsiella pneumonia." The Journal of Biological Chemistry 271(37): 22352-22357.

 

Seyfried, M., Daniel, R., and Gottschalk, G. (1996). "Cloning, sequencing, and overexpression of the genes encoding coenzyme B₁₂-dependent glycerol dehydratase of Citrobacter freundii." Journal of Bacteriology 178(19): 5793-5796.

 

Schneider, Z., Larsen, E. G., Jacobson, G., Johnson, B. C., and Pawelkiewicz, J. (1970). "Purification and properties of glycerol dehydrase." The Journal of Biological Chemistry 245(13): 3388-3396.

Daniel, R., Bobik, T. A. and Gottschalk, G. (1998). "Biochemistry of coenzyme B₁₂-dependent glycerol and diol dehydratases and organization of the encoding genes." FEMS Microbiol. Rev. 22: 553-566.

 

Talarico, T. L., Axelsson, L.T., Novotny, J., Fiuzat, M. and Dobrogosz, W.J. (1990). "Utilization of glycerol as a hydrogen acceptor by Lactobacillus reuteri : purification of 1,3-propanediol : NAD⁺ oxidoreductase." Applied and Environmental Microbiology 56: 943-948.

 

 

 

JOURNAL DATABASE FOR 3-HYDROXYPROPIONALDEHYDE

 

Claisse, O., and Lonvaud-Funel, A. (2000). "Assimilation of glycerol by a strain of Lactobacillus collinoides isolated from cider." Food Microbiology 17: 513-519.

 

Barbirato, F., Grivet, J. P., Soucaille, P. & Bories, A. (1996a). "3-Hydroxypropionaldehyde, an inhibitory metabolite of the glycerol fermentation by enterobacterial species." Applied and environmental Microbiology 62: 1448-1451.

 

Vollenweider, S., Grassi, G., König, I. and Puhan, Z. (2003). "Purification and structural characterization of 3-hydroxypropionaldehyde and its derivatives." Journal of Agricultural and Food Chemistry 51: 3287-3293.

 

Vollenweider, S., Lacroix C. (2004). "3-Hydroxypropionaldehyde : applications and perspectives of biotechnological production." Applied Microbiology and Biotechnology 64: 16-27.

 

Rodríguez, E., Arqués, J. L., Rodríguez, R., Nunez, M., and Medina, M. (2003), “Reuterin production by lactobacilli isolated from pig faeces and evaluation of probiotic traits.” Letters in Applied Microbiology 37: 259-263.

 

Slininger P. J., B. R. J., and Smiley K. L. (1983). "Production of 3-hydroxypropionaldehyde from glycerol." Applied and Environmental Microbiology 46(1): 62-67.

 

Talarico, T. L., and Dobrogosz, W.J. (1989). "Chemical Characterization of an Antimicrobial Substance Produced by Lactobacillus reuteri." Antimicrobial Agents and Chemotherapy 33(5): 674-679.

 

Lüthi-Peng, Q., Schärer, S., Puhan, Z. (2002). "Production and stability of 3-hydroxypropionaldehyde in Lactobacillus reuteri." Applied Microbiology and Biotechnology 60: 73-80.

 

Sobolov, M., and Smiley, K. L. (1959). "Metabolism of glycerol by an acrolein-forming Lactobacillus." Journal of Bacteriology 79: 261-266.

 

Barbirato, F., Soucaille, P., Camarasa, C, Bories, A. (1998). “Uncoupled glycerol distribution as the origin of the accumulation of 3-hydroxypropionaldehyde during the fermentation of glycerol by Enterobacter agglomerans CNCM 1210.” Biotechnology and Bioengineering 58(2): 303-305.

 

Slininger, P. J., and Bothast, R. J. (1985). "Optimizing aerobic conversion of glycerol to 3-hydroxypropionaldehyde." Applied and Environmental Microbiology 50: 1444-1450.

 

Barbirato, F., Grivet, J. P., Soucaille, P. & Bories, A. (1996b). "Physiologic mechanisms involved in accumulation of 3-hydroxypropionaldehyde during fermentation of glycerol by Enterobacter agglomerans." Applied and Environmental Microbiology 62: 4405-4409.

 

Sauvageot, N., Gouffi, K., Laplace, J.-M., Auffray, Y. (2000). "Glycerol metabolism in Lactobacillus collinoides : production of 3-Hydroxypropionaldehyde, a precursor of acrolein." International Journal of Food Microbiology 55: 167-170.

 

Talarico, T. L., Casas, I. A., Chung, T. C., and Dobrogosz, W. J. (1988). "Production and isolation of reuterin, a growth inhibitor produced by Lactobacillus reuteri." Antimicrobial Agents and Chemotherapy 32(12): 1854-1858.

 

Vancauwenberge, J. E., Slinger, P. J., and Bothast, R. J. (1990). "Bacterial conversion of glycerol to b-hydroxypropionaldehyde." Applied and Environmental Microbiology 56(2): 329-332.

 

 

 

JOURNAL DATABASE FOR 1,3-PROPANEDIOL

 

Biebl, H., Zeng, A. -P., Menzel, K., Deckwer, W. -D. (1998). "Fermentation of glycerol to 1,3-propanediol and 2,3-butanediol by Klebsiella pneumoniae." Appl. Microbiol. Biotechnol. 50: 24-29.

 

Ahrens, K., Menzel, K., Zeng, A. -P., Deckwer, W. -D. (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): 544-552.

 

Mickelson, M. N., Werkman, C. H. (1940). "The dissimilation of glycerol by coli-aerogenes intermediates." Journal of Bacteriology 39: 709-715.

 

Reimann, A., Biebl, H., Deckwer, W. D. (1998b). "Production of 1,3-propanediol by Clostridium butyricum in continuous culture with cell recycling." Applied Microbiology and Biotechnology 49: 359-363.

 

Gingell, R., Kirkpatrick, J. B., and Steup, D. R. (2000). "Subchronic toxicity study of 1,3-propanediol administered orally to rats." International Journal of Toxicology 19: 27-32.

 

Gonzalez-Pajuelo, M., Andrade, J. C., Vasconcelos, I. (2004). "Production of 1,3-propanediol by Clostridium butyricum VPI 3266 using a synthetic medium and raw glycerol." Journal of Industrial Microbiology and Biotechnology 31: 442-446.

New Technology (www.ccr.com.cn)(2004). "Tsinghua Develops 1,3-Propanediol Pilot Technology." China Chemical Reporter: 12.

 

Abbad-Andaloussi, S., Amine, J., Gerard, P., Petitdemange, H. (1998). "Effect of glucose on glycerol metabolim by Clostridium butyricum DSM 5431." Journal of Applied Microbiology 84: 515-522.

 

Anonymous Resource (2001). "Global partner to develop polymers." Academic Research Library 8(1): 16.

           

News of Agribusiness (2004 - October 7, Thursday). "DuPont and Tate & Lyle form bio-products joint venture." Southwest Farm Press: 23.

 

Moore, S. K. (1999 - December 1). "DuPont, Genencor Close In on Biological Propanediol Production." Chemical Week: 17.

 

Sissell, K. (2000-August 9). "Biomaterials-DuPont, Tate & Lyle Link to Develop Renewable Polymers." Chemical Weeks 162(30): 14.

 

Chen, X., Zhang, D.-J., Qi, W.-T, Gao, S.-J, Xiu, Z.-L, Xu, P. (2003). "Microbial fed-batch production of 1,3-propanediol by Klebsiella pneumoniae under micro-aerobic conditions." Applied Microbiology and Biotechnology 63: 143-146.

 

Barbirato, F., Astruc, S., Soucaille, P., Camarasa, C., Salmon, J. M., Bories, A. (1997). "Anaerobic pathways of glycerol dissimilation by Enterobacter agglomerans CNCM 1210: limitations and regulations." Microbiology 143: 2423-2432.

 

Biebl, H. (2001). "Fermentation of glycerol by Clostridium pasteurianum - batch and continuous culture studies." Journal of Industrial Microbiology and Biotechnology 27: 18-26.

 

Biebl, H., Menzel, K., Zeng, A.-P, Deckwer, W. D. (1999). "Microbial production of 1,3-propanediol." Applied Microbiology and Biotechnology 52: 289-297.

 

Tsukushi, I., Yamamuro, O., Sadanami, K., Nishizawa, M., and Matsuo, T. (1998). "Construction of a top-loading adiabatic calorimeter and enthalpy relaxation of glassy (1,3-propanediol)_0.5(1,2-propanediamine)_0.5." Rev. Sci. Instrum. 69(1): 179.

 

Triangle Chemical,  (January 24, 2004). 1,3-Propanediol (PDO). PO Box 707, Pennsylvania 19335, UK.

 

Dabrock, B., Bahl, H., Gottschalk, G. (1992). "Parameters affecting solvent production by Clostridium pasteurianum." Applied and Environmental Microbiology 58(4): 1233-1239.

 

Anisimov, M. P., Nasibulin, A. G., Timoshina, L. V., and Koropchak, J. A. (2000). "Propanediol Vapour Nucleation Rate." Nucleation and Atmospheric Aerosols 15th International Conference: 99-102.

 

 

Elliott, D. C., Lasure, L., Werpy, T. A. (2002 -August 15). “1,3-Propanediol via Fermentation-Derived Malonic Acid.”  National Laboratory Field Work Proposal Final Report.: 1-5.

           

Biebl, H., Marten, S. (1995). "Fermentation of glycerol to 1,3-propanediol: use of cosubstrates." Appl. Microbiol. Biotechnol. 44: 15-19.

 

 

Hartlep, M., Hussmann, W., Prayitno, N., Meynial-Salles, I., Zeng, A. -P. (2002). "Study of two-stage processes for the microbial production of 1,3-propanediol from glucose." Appl. Microbiol. Biotechnol. 60: 60-66.

 

Barbirato, F., Larguier, A., Conte, T., Astruc, S., Bories, A. (1997). "Sensitivity to pH, product inhibition and inhibition by NAD⁺ of 1,3-propanediol dehydrogenase purified from Enterobacter agglomerans CNCM 1210." Archive of Microbiology 168: 160-163.

 

           

 

JOURNAL DATABASE FOR ACIDOVORAX

 

Brunen, M., Engelhardt, H., Schmid, A., Benz, R. (1991). "The major outer membrane protein of Acidovorax delafieldii is an anion-selective porin." Journal of Bacteriology 173(13): 4182-4187.

 

Hu, F.-P., Young, J. M., Triggs, C. M., Park, D. -C., Saul, D. J. (2001). "Relationships within the Proteobacteria of plant pathogenic Acidovorax species and subspecies, Burkholderia species, and Herbaspirillum rubrisubalbicans by sequence analysis of 16S rDNA, numerical analysis and determinative tests." Antonie van Leeuwenhoek 80: 201-214.

 

Song, W. Y., Kim, H. M., Hwang, C. Y., Schaad, N. W. (2004). "Detection of Acidovorax avenae ssp. avenae in rice seeds using BIO-PCR." J. Phytopathology 152: 667-676.

 

Sugiyama, A., Shiraki, M., Kobayashi, T., Morikawa, G., Yamamoto, M., Yamaoka, M., Saito, T. (2002). "Cloning and sequencing of an intracellular D(-)-3-hydroxybutyrate oligomer hydrolase from Acidovorax sp. strain SA1 and purification of the enzyme." Current Microbiology 45: 123-127.

 

West, T. P. (2005). "Regulation of pyrimidine biosynthesis in Acidovorax delafieldii." J. Basic Microbiol. 45(2): 160-165.

 

Gavagan, J. E., DiCosimo, R., Eisenberg, A., Fager, S. K., Folsom, P. W., Hann, E. C., Schneider, K. J., Fallon, R. D. (1999). "A gram-negative bacterium producing a heat-stable nitrilase highly active on aliphatic dinitriles." Appl. Microbiol. Biotechnol. 52: 654-659.

 

Walcott, R. R., Langston, D. B., Sanders, F. H., Gitaitis, R. D. (2000). "Investigating intraspecific variation of Acidovorax avenae subsp. citrulli using DNA fingerprinting and whole cell fatty acid analysis." Phytopathology 90(2): 2000.

 

Stovold, G. E., Bradley, J., Fahy, P. C. (2001). "Acidovorax avenae subsp. cattleyae (Pseudomonas cattleyae) causing leafspot and death of Phalaenopsis orchids in New South Wales." Australasian Plant Pathology 30: 73-74.

 

Hu, F.-P., Young, J. M. (1998). "Biocidal activity in plant pathogenic Acidovorax, Burkholderia, Herbaspirillum, Ralstonia and Xanthomonas spp." Journal of Applied Microbiology 84: 263-271.

 

Lessner, D. J., Parales, R. E., Narayan, S., Gibson, D. T. (2003). "Expression of the nitroarene dioxygenase genes in Comamonas sp. strain JS765 and Acidovorax sp. strain JS42 is induced by multiple aromatic compounds." Journal of Bacteriology 185(13): 3895-3904.

 

Wang, Y., Inagawa, Y., Osanai, Y., Kasuya, K., Saito, T., Matsumura, S., Doi, Y., Inoue, Y. (2002). "Enzymatic hydrolysis of chemosynthesized atactic poly(3-hydroxybutyrate) by poly(3-hydroxyalkanoate) depolymerase from Acidovorax sp. TP4 and Ralstonia pickettii T1." Biomacromolecules 3(5): 894-898.

 

Brunen, M., Engelhardt, H., Schmid, A., Benz, R. (1993). "Asymmetry of orientation and voltage gating of the Acidovorax delafieldii porin Omp34 in lipid bilayers." Eur. J. Biochem. 212: 129-135.

 

McManus, P. S. (1998). "First report on early rot of cranberry caused by Phyllosticta vaccinii in Wisconsin." Plant Disease 82(3): 350-351.

 

Hopkins, D. L., Thompson, C. M. (2002). "Evaluation of citrullus sp. germ plasm for resistance to Acidovorax avenae subsp. citrulli." Plant Disease 86(1): 61-64.

 

Chauhan, S., Wu, S., Blumerman, S., Fallon, R. D., Gavagan, J. E., DiCosimo, R., Payne, M. S. (2003). "Purification, cloning, sequencing and overexpression in Escherichia coli of a regioselective aliphatic nitrilase from Acidovorax facilis 72W." Appl. Microbiol. Biotechnol. 61: 118-122.

 

Walcott, R. R., Gitaitis, R. D., and Castro, A. C. (2003). "Role of blossoms in watermelon seed infestation by Acidovorax avenae subsp. citrulli." Phytopathology 93(5): 528-534.

 

Walcott, R. R., Fessehaie, A., and Castro, A. C. (2004). "Differences in pathogenicity between two genetically distinct groups of Acidovorax avenae subsp. citrulli on cucurbit hosts." J. Phytopathology 152: 277-285.

 

Assouline, I., Milshtein, H., Mizrahi, M., Levy, E., Ben-Ze'ev, I. S. (1997). "Acidovorax avenae subsp. citrulli transmitted by solanaceous seeds." Phytoparasitica 25(2): 117-118.

           

Martin, L. H., O'Brien, R. G. (1999). "First report of Acidovorax avenae subsp. citrulli as a pathogen of cucumber." Plant Disease 83(10): 964-967.

 

Skipper, H. D., Frederick, J. R., Norsworthy, J. K., Walcott, R. R. (2003). Acidovorax avenae: Causal agent for soybean yield decline in South Carolina (Project Report).

 

Mudingotto, P. J., Veena, M. S., Mortensen, C. N. (2002). "First report of bacterial blight caused by Acidovorax avenae ssp. avenae associated with finger millet seeds from Uganda." Plant Pathology 51: 396.

 

Wang, Y., Inagawa, Y., Saito, T., Kasuya, K., Doi, Y., Inoue, Y. (2002). "Enzymatic hydrolysis of bacterial poly(3-hydroxybutyrate-co-3-hydroxypropanate)s by poly(3-hydroxyalkanoate) depolymerase from Acidovorax sp. TP4." Biomacromolecules 3(4): 828-834.

 

Schatz, A., Bovell, C. (1953). "Growth and hydrogenase activity of a new bacterium, hydrogenomonas facilis." Journal of Bacteriology 63: 87-98.

 

           

           

 

JOURNAL DATABASE FOR MATHEMATICAL MODELLING SAMPLES OF GROWTH

 

Kreft, J.-U., Booth, G., Wimpenny, W. T. (1998). "BacSim, a simulator for individual-based modelling of a bacterial colony growth." Microbiology 144: 3275-3287.

           

Wimpenny, W. (1999). “Modelling in Microbial Ecology - Application of individual-based modelling in microbial ecology.” Microbial Biosystem: New Frontiers, Proceedings of the 8^th International Symposium on Microbial Ecology, Atlanta Canada Society for Microbiology, Halifax, Canada.

           

Wimpenny, W. (1999). “Modelling in Microbial Ecology - Modelling in microbiology.” Microbial Biosystem: New Frontiers, Proceedings of the 8^th International Symposium on Microbial Ecology, Atlanta Canada Society for Microbiology, Halifax, Canada.