Detection of essential genes in Streptococcus pneumoniae using bioinformatics and allelic replacement mutagenesis

Methods in Molecular Biology

Volumn 416, Issue , 2007, Pages 401-408

  Song, Jae Hoon ^a   Ko, Kwan Soo ^a  

^a NONE

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; BIOLOGY; ESSENTIAL GENE; GENE EXPRESSION REGULATION; GENETICS; METHODOLOGY; POLYMERASE CHAIN REACTION; STREPTOCOCCUS PNEUMONIAE;

COMPUTATIONAL BIOLOGY; GENES, BACTERIAL; GENES, ESSENTIAL; GENOME, BACTERIAL; MUTAGENESIS, INSERTIONAL; POLYMERASE CHAIN REACTION; STREPTOCOCCUS PNEUMONIAE;

STREPTOCOCCUS PNEUMONIAE;

EID: 40549083680     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: None     Document Type: Article

References (17)

1. Jordan, I. K., Rogozin, I. B., Wolf, Y. I., and Koonin, E. V. (2002) Essential genes are more evolutionarily conserved than are nonessential genes in bacteria. Genome Res. 12, 962-968.
2. Kobayashi, K., Ehrlich, S. D., Albertini, A., Amati, G., Andersen, K. K., Arnaud, M., et al. (2003) Essential Bacillus subtilis genes. Proc. Natl. Acad. Sci. U.S.A. 100, 4678-4683.
3. Arigoni, F., Talabot, F., Peitsch, M., Degerton, M. D., Meldrum, E., Allet, E., et al. (1998) A genome-based approach for the identification of essential bacterial genes. Nat. Biotechnol. 16, 851-858.
4. Bruccoleri, R. E., Dougherty, T. J., and Davison, D. B. (1998) Concordance analysis of microbial genomes. Nucleic Acids Res. 16, 4482-4486.
5. Thanassi, J. A., Hartman-Neumann, S. L., Dougherty, T. J., Dougherty, B. A., and Pucci, M. J. (2002) Identification of 113 conserved essential genes using a high-throughput gene disruption system in Streptococcus pneumoniae. Nucleic Acids Res. 30, 3152-3162.
6. Pierce, B. J., Ianelli, F., and Pozzi, F. (2002) Construction of new unencapsulated (rough) strains of Streptococcus pneumoniae. Res. Microbiol. 153, 243-247.
7. Trieu-Cuot, P., and Courvalin, P. (1983) Nucleotide sequence of the Streptococcus faecalis plasmid gene encoding the 3'5"-aminoglycoside phosphotransferase type III. Gene 3, 331-341.
8. Havarstein, L., Coomaraswamy, G., and Morrison, D. A. (1995) An unmodified heptadecaptide pheromone induces competence for genetic transformation in Streptococcus pneumoniae. Proc. Natl. Acad. Sci. U.S.A. 92, 11140-11144.
9. Akerley, B. J., Rubin, E. J., Novick, V. L., Amaya, K., Judson, N., and Mekalanos, J. J. (2002) A genome-scale analysis for identification of genes required for growth or survival of Haemophilus influenzae. Proc. Natl. Acad. Sci. U.S.A. 99, 966-971.
10. Hutchison, C. A., Pterson, S. N., Gill, S. R., Cline, R. T., White, O. Fraser, C. M., et al. (1999) Global transposon mutagenesis and a minimal Mycoplasma genome. Science 286, 2165-2169.
11. Forsyth, R. A., Haselbeck, R. J., Ohlsen, K. L., Yamamoto, R. T., Xu, H., Trawick, J. D., et al. (2002) A genome-wide strategy for the identification of essential genes in Staphylococcus aureus. Mol. Microbiol. 43, 1387-1400.
12. Ji, Y., Zhang, B., Van Horn, S. F., Warren, P., Woodnutt, G., Burnham, M. K. R., and Rosenberg, M. (2001) Identification of critical staphylococcal genes using conditional phenotypes generated by antisense RNA. Science 293, 2266-2269.
13. Sassetti, C. M., Boyd, D. H., and Rubin, E. J. (2001) Comprehensive identification of conditionally essential genes in mycobacteria. Proc. Natl. Acad. Sci. U.S.A. 98, 12712-12717.
14. Song, J. H., Ko, K. S., Lee, J. Y., Baek, J. Y., Oh, W. S., Yoon, H. S., et al. (2005) Identification of essential genes in Streptococcus pneumoniae by allelic replacement mutagenesis. Mol. Cells 19, 365-374.
15. Zhang, R., Ou, Z. Y., and Zhang, C. T. (2004) DEG: a database of essential genes. Nucleic Acids Res. 32, D271-D272.
16. Sakharkar, K. R., Sakharkar, M. K., and Chow, V. T. K. (2004) A novel genomics approach for the identification of drug targets in pathogens, with special reference to Pseudomonas aeruginosa. In Silico Biol. 4, 355-360.
17. Ko, K. S., Lee, J. Y., Song, J. H., Baek, J. Y., Oh, W. S., Chun, J., and Yoon, H. S. (2006) Screening of essential gene in Staphylococcus aureus N315 using comparative genomics and allelic replacement mutagenesis. J. Microbiol. Biotechnol. 16, 623-632.