Antisense RNA downregulation of coenzyme A transferase combined with alcohol-aldehyde dehydrogenase overexpression leads to predominantly alcohologenic Clostridium acetobutylicum fermentations

Journal of Bacteriology

Volumn 185, Issue 12, 2003, Pages 3644-3653

  Tummala, Seshu B ^a   Junne, Stefan G ^a,b   Papoutsakis, Eleftherios T ^a  

^a Northwestern University   (United States)

^b TECHNISCHE UNIVERSITÄT BERLIN   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ACETONE; ALCOHOL; ALCOHOL DEHYDROGENASE; BUTANOL; BUTYRIC ACID; COENZYME A TRANSFERASE; COMPLEMENTARY RNA;

ARTICLE; BACTERIAL STRAIN; CHEMOTAXIS; CLOSTRIDIUM ACETOBUTYLICUM; DNA MICROARRAY; ENZYME REGULATION; FERMENTATION; GENE OVEREXPRESSION; GENETIC TRANSCRIPTION; NONHUMAN; PLASMID; PRIORITY JOURNAL; SPOROGENESIS; STRESS; WESTERN BLOTTING;

ALCOHOL DEHYDROGENASE; ALCOHOLS; ALDEHYDE DEHYDROGENASE; BIOREACTORS; CLOSTRIDIUM; COENZYME A-TRANSFERASES; DOWN-REGULATION; FERMENTATION; GENE EXPRESSION REGULATION, BACTERIAL; GENE EXPRESSION REGULATION, ENZYMOLOGIC; PROTEIN ENGINEERING; RNA, ANTISENSE; RNA, BACTERIAL;

BACTERIA (MICROORGANISMS); CLOSTRIDIUM; CLOSTRIDIUM ACETOBUTYLICUM; CLOSTRIDIUM ACETOBUTYLICUM ATCC 824; POSIBACTERIA;

EID: 0037608873     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.185.12.3644-3653.2003     Document Type: Article

References (24)

1. Alter, O., P. O. Brown, and D. Botstein. 2000. Singular value decomposition for genome-wide expression data processing and modeling. Proc. Natl. Acad. Sci. USA 97:10101-10106.
2. Bahl, H., H. Muller, S. Behrens, H. Joseph, and F. Narberhaus. 1995. Expression of heat shock genes in Clostridium acetobutylicum. FEMS Microbiol. Rev. 17:341-348.
3. Buday, Z., J. C. Linden, and M. N. Karim. 1990. Improved acetone-butanol fermentation analysis using subambient HPLC column temperature. Enzymol. Microb. Technol. 12:24-27.
4. Cary, J. W., D. J. Petersen, E. T. Papoutsakis, and G. N. Bennett. 1990. Cloning and expression of Clostridium acetobutylicum ATCC 824 acetoacetyl-coenzyme A:acetate/butyrate:coenzyme A-transferase in Escherichia coli. Appl. Environ. Microbiol. 56:1576-1583.
5. Desai, R. P., L. K. Nielsen, and E. T. Papoutsakis. 1999. Stoichiometric modeling of Clostridium acetobutylicum fermentations with non-linear constraints. J. Biotechnol. 71:191-205.
6. Desai, R. P., and E. T. Papoutsakis. 1999. Antisense RNA strategies for the metabolic engineering of Clostridium acetobutylicum. Appl. Environ. Microbiol. 65:936-945.
7. Eisen, M. B., P. T. Spellman, P. O. Brown, and D. Botstein. 1998. Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA 95:14863-14868.
8. Fontaine, L., I. Meynial-Salles, L. Girbal, X. H. Yang, C. Croux, and P. Soucaille. 2002. Molecular characterization and transcriptional analysis of adhE2, the gene encoding the NADH-dependent aldehyde/alcohol dehydrogenase responsible for butanol production in alcohologenic cultures of Clostridium acetobutylicum ATCC 824. J. Bacteriol. 184:821-830.
9. Green, E. M., Z. L. Boynton, L. M. Harris, F. B. Rudolph, E. T. Papoutsakis, and G. N. Bennett. 1996. Genetic manipulation of acid formation pathways by gene inactivation in Clostridium acetobutylicum ATCC 824. Microbiology 142:2079-2086.
10. Harris, L. M., R. P. Desai, N. E. Welker, and E. T. Papoutsakis. 2000. Characterization of recombinant strains of the Clostridium acetobutylicum butyrate kinase inactivation mutant: need for new phenomenological models for solventogenesis and butanol inhibition? Biotechnol. Bioeng. 67:1-11.
11. Harris, L. M., N. E. Welker, and E. T. Papoutsakis. 2002. Northern, morphological, and fermentation analysis of spoOA inactivation and overexpression in Clostridium acetobutylicum ATCC 824. J. Bacteriol. 184:3586-3597.
12. Hegde, P., R. Qi, K. Abernathy, C. Gay, S. Dharap, R. Gaspard, J. E. Hughes, E. Snesrud, N. Lee, and J. Quackenbush. 2000. A concise guide to cDNA microarray analysis. BioTechniques 29:548-562.
13. Husemann, M. H. W., and E. T. Papoutsakis. 1988. Solventogenesis in Clostridium acetobutylicum fermentations related to carboxylic acid and proton concentrations. Biotechnol. Bioeng. 32:843-852.
14. Lee, S. Y., and S. Rasheed. 1990. A simple procedure for maximum yield of high-quality plasmid DNA. BioTechniques 9:676-679.
15. Mermelstein, L. D., and E. T. Papoutsakis. 1993. In vivo methylation in Escherichia coli by the Bacillus subtilis phage Φ3T I methyltransferase to protect plasmids from restriction upon transformation of Clostridium acetobutylicum ATCC 824. Appl. Environ. Microbiol. 59:1077-1081.
16. Nair, R. V., G. N. Bennett, and E. T. Papoutsakis. 1994. Molecular Characterization of an aldehyde/alcohol dehydrogenase gene from Clostridium acetobutylicum ATCC 824. J. Bacteriol. 176:871-885.
17. Papoutsakis, E. T. 1984. Equations and calculations for fermentations of butyric acid bacteria. Biotechnol. Bioeng. 26:174-187.
18. Patzel, V., and G. Sczakiel. 1998. Theoretical design of antisense RNA structures substantially improves annealing kinetics and efficacy in human cells. Nat. Biotechnol. 16:64-68.
19. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
20. Thormann, K., L. Feustel, K. Lorenz, S. Nakotte, and P. Durre. 2002. Control of butanol formation in Clostridium acetobutylicum by transcriptional activation. J. Bacteriol. 184:1966-1973.
21. Tomas, C. A., K. V. Alsaker, H. P. J. Bonarius, W. T. Hendriksen, H. Yang, J. A. Beamish, C. J. Paredes, and E. T. Papoutsakis. DNA-array based transcriptional analysis of asporogenous, non-solventogenic Clostridium acetobutylicum strains SKO1 and M5. J. Bacteriol., in press.
22. Tummala, S. B., N. E. Welker, and E. T. Papoutsakis. 2003. Design of antisense RNA constructs for downregulation of the acetone formation pathway of Clostridium acetobutylicum. J. Bacteriol. 185:1923-1934.
23. Wagner, E. G., and R. W. Simons. 1994. Antisense RNA control in bacteria, phages, and plasmids. Annu. Rev. Microbiol. 48:713-742.
24. Yang, H., H. Haddad, C. A. Tomas, K. V. Alsaker, and E. T. Papoutsakis. 2003. A segmental nearest neighbor normalization and gene identification method gives superior results for DNA-array analysis. Proc. Natl. Acad. Sci. USA 100:1122-1127.