Enhanced recombinant protein productivity by genome reduction in bacillus subtilis

DNA Research

Volumn 15, Issue 2, 2008, Pages 73-81

  Morimoto, Takuya ^a,b   Kadoya, Ryosuke ^a,b   Endo, Keiji ^a   Tohata, Masatoshi ^a   Sawada, Kazuhisa ^a   Liu, Shengao ^a   Ozawa, Tadahiro ^a   Kodama, Takeko ^a,c   Kakeshita, Hiroshi ^a,d   Kageyama, Yasushi ^a   Manabe, Kenji ^a   Kanaya, Shigehiko ^b   Ara, Katsutoshi ^a   Ozaki, Katsuya ^a   Ogasawara, Naotake ^b  

^a KAO CORPORATION   (Japan)

^b NARA INSTITUTE OF SCIENCE AND TECHNOLOGY   (Japan)

^c SHINSHU UNIVERSITY   (Japan)

^d UNIVERSITY OF TSUKUBA   (Japan)

Author keywords

Bacillus subtilis; Genome size reduction; Recombinant protein productivity

Indexed keywords

ALKALINE PROTEINASE; BACTERIAL PROTEIN; CELLULASE; PROTEINASE; RECOMBINANT PROTEIN;

ARTICLE; BACILLUS SUBTILIS; BACTERIAL GENOME; BACTERIAL SPORE; EVALUATION; GENE DELETION; GENE EXPRESSION REGULATION; GENETICS; GENOMICS; GROWTH, DEVELOPMENT AND AGING; METABOLISM; METHODOLOGY; MICROBIOLOGY;

BACILLUS SUBTILIS; BACTERIAL PROTEINS; CELLULASES; ENDOPEPTIDASES; GENE DELETION; GENE EXPRESSION REGULATION, BACTERIAL; GENOME, BACTERIAL; GENOMICS; INDUSTRIAL MICROBIOLOGY; RECOMBINANT PROTEINS; SPORES, BACTERIAL;

EID: 48049110998     PISSN: 13402838     EISSN: 17561663     Source Type: Journal    
DOI: 10.1093/dnares/dsn002     Document Type: Article

References (28)

1. Ball, P. 2007, Synthetic biology: Designs for life, Nature, 448, 32-33. (Pubitemid 47037031)
2. Drubin, D. A., Way, J. C. and Silver, P. A. 2007, Designing biological systems, Genes Develop., 21, 242-254.
3. Forster, A. C. and Church, G. M. 2007, Synthetic biology projects in vitro, Genome Res., 17, 1-6. (Pubitemid 46041659)
4. Posfai, G., Plunkett, G. III, Feher, T., Frisch, D., Keil, G. M., Umenhoffer, K., Kolisnychenko, V., Stahl, B., Sharma, S. S., de Arruda, M., et al. 2006, Emergent properties of reduced-genome Escherichia coli, Science, 312, 1044-1046.
5. Mizoguchi, H., Mori, H. and Fujio, T. 2007, Escherichia coli minimum genome factory, Biotechnol. Appl. Biochem., 46, 157-167. (Pubitemid 46587484)
6. Ara, K., Ozaki, K., Nakamura, K., Yamane, K., Sekiguchi, J. and Ogasawara, N. 2007, Bacillus minimum genome factory: Effective utilization of microbial genome information, Biotechnol. Appl. Biochem., 46, 169-178. (Pubitemid 46587485)
7. Westers, H., Dorenbos, R., van Dijl, J. M., Kabel, J., Flanagan, T., Devine, K. M., Jude, F., Seror, S. J., Beekman, A. C., Darmon, E., et al. 2003, Genome engineering reveals large dispensable regions in Bacillus subtilis, Mol. Biol. Evol., 20, 2076-2090. (Pubitemid 38057771)
8. Westers, L., Westers, H. and Quax, W. J. 2004, Bacillus subtilis as cell factory for pharmaceutical proteins: A biotechnological approach to optimize the host organism, Biochim. Biophys. Acta, 1694, 299-310. (Pubitemid 39535076)
9. Kunst, F., Ogasawara, N., Moszer, I., Albertini, A. M., Alloni, G., Azevedo, V., Bertero, M. G., Bessieres, P., Bolotin, A., Borchert, S., et al. 1997, The complete genome sequence of the gram-positive bacterium Bacillus subtilis, Nature, 390, 249-256. (Pubitemid 27513299)
10. Kobayashi, K., Ehrlich, S. D., Albertini, A., Amati, G., Andersen, K. K., Arnaud, M., Asai, K., Ashikaga, S., Aymerich, S., Bessieres, P., et al. 2003, Essential Bacillus subtilis genes, Proc. Natl. Acad. Sci. USA, 100, 4678-4683. (Pubitemid 36457789)
11. Anagnostopoulos, C. and Spizizen, J. 1961, Requirements for transformation in Bacillus Subtilis, J. Bacteriol., 81, 741-746.
12. Harwood, C. R. and Archibald, A. R. 1990, Growth, maintenance and general techniques, In: Harwood, C. R. and Cutting, S. M. (eds), Molecular Biological Methods for Bacillus, Chichester, New York, Brisbane, Toronto, Singapore: John Wiley & Sons, p. 549.
13. Hakamada, Y., Hatada, Y., Koike, K., Yoshimatsu, T., Kawai, S., Kobayashi, T. and Ito, S. 2000, Deduced amino acid sequence and possible catalytic residues of a thermostable, alkaline cellulase from an Alkaliphilic bacillus strain, Biosci. Biotech. Biochem., 64, 2281-2289.
14. Kobayashi, T., Hakamada, Y., Adachi, S., Hitomi, J., Yoshimatsu, T., Koike, K., Kawai, S. and Ito, S. 1995, Purification and properties of an alkaline protease from alkalophilic Bacillus sp. KSM-K16, Appl. Microbiol. Biotechnol., 43, 473-481.
15. Ishikawa, S., Ogura, Y., Yoshimura, M., Okumura, H., Cho, E., Kawai, Y., Kurokawa, K., Oshima, T. and Ogasawara, N. 2007, Distribution of stable DnaA binding sites on the Bacillus subtilis genome detected using a modified ChIP-chip method, DNA Res., 14, 155-168.
16. Igo, M. M. and Losick, R. 1986, Regulation of a promoter that is utilized by minor forms of RNA polymerase holoenzyme in Bacillus subtilis, J. Mol. Biol., 191, 615-624. (Pubitemid 17185963)
17. Quackenbush, J. 2002, Microarray data normalization and transformation, Nature Genet, 32, Suppl., 496-501. (Pubitemid 35435152)
18. Hirai, M. Y., Klein, M., Fujikawa, Y., Yano, M., Goodenowe, D. B., Yamazaki, Y., Kanaya, S., Nakamura, Y., Kitayama, M., Suzuki, H., et al. 2005, Elucidation of gene-to-gene and metabolite-to-gene networks in Arabidopsis by integration of metabolomics and transcriptomics, J. Biol. Chem., 280, 25590-25595. (Pubitemid 40962266)
19. Itaya, M. 1992, Construction of a novel tetracycline resistance gene cassette useful as a marker on the Bacillus subtilis chromosome, Biosci. Biotech. Biochem., 56, 685-686.
20. Fabret, C., Ehrlich, S. D. and Noirot, P. A. 2002, A new mutation delivery system for genome-scale approaches in Bacillus subtilis, Mol. Microbiol., 46, 25-36. (Pubitemid 35231944)
21. Hodge, J. E. and Hofreiter, B. T. 1962, Analysis and preparation of sugars, In: Whistler, R. L. and Wolfrom, M. L. (eds), Methods in Carbohydrate Chemistry, New York, San Francisco, London: Academic Press, p p. 388-389.
22. Piggot, P. J. and Hilbert, D. W. 2004, Sporulation of Bacillus subtilis, Curr. Opin. Microbiol., 7, 579-586. (Pubitemid 39536283)
23. Ogura, M., Yamaguchi, H., Yoshida, K., Fujita, Y. and Tanaka, T. 2001, DNA microarray analysis of Bacillus subtilis DegU, ComA and PhoP regulons: An approach to comprehensive analysis of B. subtilis two-component regulatory systems, Nucleic Acids Res., 29, 3804-3813. (Pubitemid 32910521)
24. Hamoen, L. W., Van Werkhoven, A. F., Venema, G. and Dubnau, D. 2000, The pleiotropic response regulator DegU functions as a priming protein in competence development in Bacillus subtilis, Proc. Natl. Acad. Sci. USA, 97, 9246-9251. (Pubitemid 30626704)
25. Olmos, J., de Anda, R., Ferrari, E., Bolivar, F. and Valle, F. 1997, Effects of the sinR and degU32 (Hy) mutations on the regulation of the aprE gene in Bacillus subtilis, Mol. Gen. Genet., 253, 562-567.
26. Mirel, D. B., Estacio, W. F., Mathieu, M., Olmsted, E., Ramirez, J. and Marquez-Magana, L. M. 2000, Environmental regulation of Bacillus subtilis sigma(D)- dependent gene expression, J. Bacteriol., 182, 3055-3062. (Pubitemid 30326918)
27. Serizawa, M., Yamamoto, H., Yamaguchi, H., Fujita, Y., Kobayashi, K., Ogasawara, N. and Sekiguchi, J. 2004, Systematic analysis of SigD-regulated genes in Bacillus subtilis by DNA microarray and northern blotting analyses, Gene, 329, 125-136. (Pubitemid 38366501)
28. Antelmann, H., Scharf, C. and Hecker, M. 2000, Phosphate starvation-inducible proteins of Bacillus subtilis: Proteomics and transcriptional analysis, J. Bacteriol., 182, 4478-4490. (Pubitemid 30599811)