Characterization, distribution, and expression of novel genes among eight clinical isolates of Streptococcus pneumoniae

Infection and Immunity

Volumn 74, Issue 1, 2006, Pages 321-330

  Shen, Kai ^a   Gladitz, John ^a   Antalis, Patricia ^a   Dice, Bethany ^a   Janto, Benjamin ^a   Keefe, Randy ^a   Hayes, Jay ^a   Ahmed, Azad ^a   Dopico, Richard ^a   Ehrlich, Nathan ^a,e   Jocz, Jennifer ^a,f   Kropp, Laura ^a,g   Yu, Shujun ^a   Nistico, Laura ^a   Greenberg, David P ^c   Barbadora, Karen ^c   Preston, Robert A ^a   Post, J Christopher ^a,b   Ehrlich, Garth D ^a,b,d   Hu, Fen Z ^a,b  

^a ALLEGHENY SINGER RESEARCH INSTITUTE   (United States)

^b DREXEL UNIVERSITY COLLEGE OF MEDICINE   (United States)

^c CHILDREN S HOSPITAL OF PITTSBURGH   (United States)

^d ALLEGHENY GENERAL HOSPITAL   (United States)

^e UNIVERSITY OF PITTSBURGH   (United States)

^f CARNEGIE MELLON UNIVERSITY   (United States)

^g PENNSYLVANIA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIUM ISOLATION; GENE EXPRESSION REGULATION; GENE FUNCTION; GENOME ANALYSIS; HUMAN; HUMAN CELL; MOLECULAR CLONING; MULTILOCUS SEQUENCE TYPING; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PLANKTON; PRIORITY JOURNAL; PROTEIN ANALYSIS; REVERSED PHASE HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; STRAIN DIFFERENCE; STREPTOCOCCUS PNEUMONIAE; TRANSCRIPTION REGULATION;

ALPHA-GALACTOSIDASE; BACTERIOCINS; BLOOD PLATELETS; CARRIER PROTEINS; CHILD; CLONING, MOLECULAR; GENE EXPRESSION PROFILING; HUMANS; MOLECULAR SEQUENCE DATA; PEPTIDES; SERINE ENDOPEPTIDASES; STREPTOCOCCUS PNEUMONIAE; VIRULENCE;

EID: 29644442803     PISSN: 00199567     EISSN: None     Source Type: Journal    
DOI: 10.1128/IAI.74.1.321-330.2006     Document Type: Article

References (49)

1. Altena, K., A. Guder, C. Cramer, and G. Bierbaum. 2000. Biosynthesis of the lantibiotic mersacidin: organization of a type B lantibiotic gene cluster. Appl. Environ. Microbiol. 66:2565-2571.
2. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
3. Ausubel, F. M., R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith, and K. Struhl. 1990. Current protocols in molecular biology. Greene Publishing Associates and Wiley-Interscience, New York, N.Y.
4. Avery, O. T., C. M. MacLeod, and M. McCarty. 1944. Studies on the chemical nature of the substance inducing transformation of pneumococcal types. Induction of transformation by a desoxyribonucleic acid fraction isolated from pneumococcus type III. J. Exp. Med. 89:137-158.
5. Bensing, B. A., C. Rubens, and P. M. Sullam. 2001. Genetic loci of Streptococcus mitis that mediate binding to human platelets. Infect. Immun. 69:1373-1380.
6. Bensing, B. A., I. R. Siboo, and P. M. Sullam. 2001. Proteins PbIA and PbIB of Streptococcus mitis, which promote binding to human platelets, are encoded within a lysogenic bacteriophage. Infect. Immun. 69:6186-6192.
7. Bethe, G., R. Nau, A. Wellmer, R. Hakenbeck, R. R. Reinert, H. P. Heinz, and G. Zysk. 2001. The cell wall-associated serine protease PrtA: a highly conserved virulence factor of Streptococcus pneumoniae. FEMS Microbiol. Lett. 205:99-104.
8. Bierbaum, G., H. Brotz, K. P. Koller, and H. G. Sahl. 1995. Cloning, sequencing and production of the Iantibiotic mersacidin. FEMS Microbiol. Lett. 127:121-126.
9. Borriello, G., E. Werner, F. Roe, A. M. Kim, G. D. Ehrlich, and P. S. Stewart. 2004. Oxygen limitation contributes to antibiotic tolerance of Pseudomonas aeruginosa in biofilms. Antimicrob. Agents Chemother. 48:2659-2664.
10. Brotz, H., G. Bierbaum, A. Markus, E. Molitor, and H. G. Sahl. 1995. Mode of action of the Iantibiotic mersacidin: inhibition of peptidoglycan biosynthesis via a novel mechanism. Antimicrob. Agents Chemother. 39:714-719.
11. Bruckner, R., M. Nuhn, P. Reichmann, B. Weber, and R. Hakenbeck. 2004. Mosaic genes and mosaic chromosomes-genomic variation in Streptococcus pneumoniae. Int. J. Med. Microbiol. 294:157-168.
12. Chole, R. A., and B. T. Faddis. 2003. Anatomical evidence of microbial biofilms in tonsillar tissues: a possible mechanism to explain chronicity. Arch. Otolaryngol. Head Neck Surg. 129:634-636.
13. Claverys, J. P., M. Prudhomme, I. Mortier-Barriere, and B. Martin. 2000. Adaptation to the environment: Streptococcus pneumoniae, a paradigm for recombination-mediated genetic plasticity? Mol. Microbiol. 35:251-259.
14. Costerton, W., R. Veeh, M. Shirtliff, M. Pasmore, C. Post, and G. Ehrlich. 2003. The application of biofilm science to the study and control of chronic bacterial infections. J. Clin. Investig. 112:1466-1477.
15. Ehrlich, G. D., R. Veeh, X. Wang, J. W. Costerton, J. D. Hayes, F. Z. Hu, B. J. Daigle, M. D. Ehrlich, and J. C. Post. 2002. Mucosal biofilm formation on middle-ear mucosa in the chinchilla model of otitis media. JAMA 287:1710-1715.
16. Ehrlich, G. D., F. Z. Hu, and J. C. Post. 2004. Role for biofilms in infectious disease, p. 332-358. In M. Ghannoum and G. A. O'Toole (ed.), Microbial biofilms. ASM Press, Washington, D.C.
17. Ehrlich, G. D., F. Z. Hu, K. Shen, P. Stoodley, and J. C. Post. 2005. Bacterial plurality as a general mechanism driving persistence in chronic infections. Clin. Orthop. Relat. Res. 437:20-24.
18. Ehrlich, G. D., P. Stoodley, S. Kathju, Y. Zhao, B. R. McLeod, N. Balaban, F. Z. Hu, N. G. Sotereanos, J. W. Costerton, P. S. Stewart, J. C. Post, and Q. Lin. 2005. Engineering approaches for the detection and control of orthopaedic biofilm infections. Clin. Orthop. Relat. Res. 437:59-66.
19. Enright, M. C., and B. G. Spratt. 1998. A multilocus sequence typing scheme for Streptococcus pneumoniae: identification of clones associated with serious invasive disease. Microbiology 144:3049-3060.
20. Erdos, G., S. Sayeed, P. Antalis, F. Z. Hu, J. Hayes, J. Goodwin, R. Dopico, J. C. Post, and G. D. Ehrlich. 2003. Development and characterization of a pooled Haemophilus influenzae genomic library for the evaluation of gene expression changes associated with mucosal biofilm formation in otitis media. Int. J. Pediatr. Otorhinolaryngol. 67:749-755.
21. Feil, E. J., M. C. Enright, and B. G. Spratt. 2000. Estimating the relative contributions of mutation and recombination to clonal diversification: a comparison between Neisseria meningitidis and Streptococcus pneumoniae. Res. Microbiol. 151:465-469.
22. Fux, C. A., M. Shirtliff, P. Stoodley, and J. W. Costerton. 2005. Can laboratory reference strains mirror "real-world" pathogenesis? Trends Microbiol. 13:58-63.
23. Griffith, F. 1928. The significance of pneumococcal types. J. Hyg. 27:113-159.
24. Harris, T. O., D. W. Shelver, J. F. Bohnsack, and C. E. Rubens. 2003. A novel streptococcal surface protease promotes virulence, resistance to opsonophagocytosis, and cleavage of human fibrinogen. J. Clin. Investig. 111:61-70.
25. Hollingshead, S. K., and D. E. Briles. 2001. Streptococcus pneumoniae: new tools for an old pathogen. Curr. Opin. Microbiol. 4:71-77.
26. Holt, J., N. R. Krieg, P. H. A. Sneath, J. T. A. Staley, and S. T. Williams. 1994. Bergey's manual of determinative bacteriology. Williams & Wilkins, Baltimore, Md.
27. Hoskins, J., W. E. Alborn, Jr., J. Arnold, L. C. Blaszczak, S. Burgett, B. S. DeHoff, S. T. Estrem, L. Fritz, D. J. Fu, W. Fuller, C. Geringer, R. Gilmour, J. S. Glass, H. Khoja, A. R. Kraft, R. E. Lagace, D. J. LeBlanc, L. N. Lee, E. J. Lefkowitz, J. Lu, P. Matsushima, S. M. McAhren, M. McHenney, K. McLeaster, C. W. Mundy, T. I. Nicas, F. H. Norris, M. O'Gara, R. B. Peery, G. T. Robertson, P. Rockey, P. M. Sun, M. W. Winkler, Y. Yang, M. Young-Bellido, G. Zhao, C. A. Zook, R. H. Baltz, S. R. Jaskunas, P. R. Rosteck, Jr., P. L. Skatrud, and J. I. Glass. 2001. Genome of the bacterium Streptococcus pneumoniae strain R6. J. Bacteriol. 183:5709-5717.
28. Hotchkiss, R. D. 1951. Transfer of penicillin resistance in pneumococci by the desoxyribonucleate derived from resistant cultures. Cold Spring Harbor Symp. Quant. Biol. 16:457-461.
29. Kilian, M., J. Mestecky, and M. W. Russell. 1988. Defense mechanisms involving Fc-dependent functions of immunoglobulin A and their subversion by bacterial immunoglobulin A proteases. Microbiol. Rev. 252:296-303.
30. Klein, J. O. 2000. The burden of otitis media. Vaccine 19(Suppl. 1):S2-S8.
31. Kreth, J., J. Merritt, W. Shi, and F. Qi. 2005. Co-ordinated bacteriocin production and competence development: a possible mechanism for taking up DNA from neighbouring species. Mol. Microbiol. 57:392-404.
32. Lomholt, H. 1995. Evidence of recombination and an antigenically diverse immunoglobulin Al protease among strains of Streptococcus pneumoniae. Infect. Immun. 63:4238-4243.
33. Maeda, H. 1996. Role of microbial proteases in pathogenesis. Microbiol. Immunol. 40:685-699.
34. Mavroidi, A., D. Godoy, D. M. Aanensen, D. A. Robinson, S. K. Hollingshead, and B. G. Spratt. 2004. Evolutionary genetics of the capsular locus of serogroup 6 pneumococci. J. Bacteriol. 186:8181-8192.
35. Meats, E., E. J. Feil, S. Stringer, A. Cody, R. Goldstein, J. S. Kroll, T. Popovic, and B. G. Spratt. 2003. Characterization of encapsulated and non-encapsulated Haemophilia influenzae and determination of phylogenetic relationships by multilocus sequence typing. J. Clin. Microbiol. 41:1623-1636.
36. Molin, S., and T. Tolker-Nielsen. 2003. Gene transfer occurs with enhanced efficiency in biofilms and induces enhanced stabilisation of the biofilm structure. Curr. Opin. Biotechnol. 14:255-261.
37. Palmer, R. J., Jr., S. M. Gordon, J. O. Cisar, and P. E. Kolenbrander. 2003. Coaggregation-mediated interactions of streptococci and actinomyces detected in initial human dental plaque. J. Bacteriol. 185:3400-3409.
38. Peterson, S. N., C. K. Sung, R. Cline, B. V. Desai, E. C. Snesrud, P. Luo, J. Walling, H. Li, M. Mintz, G. Tsegaye, P. C. Burr, Y. Do, S. Ahn, J. Gilbert, R. D. Fleischmann, and D. A Morrison. 2004. Identification of competence pheromone responsive genes in Streptococcus pneumoniae by use of DNA microarrays. Mol. Microbiol. 51:1051-1070.
39. Poulsen, K., J. Reinholdt, C. Jespersgaard, K. Boye, T. A. Brown, M. Hauge, and M. Kilian. 1998. A comprehensive genetic study of streptococcal immunoglobulin Al proteases: evidence for recombination within and between species. Infect. Immun. 66:181-190.
40. Rayner, M. G., Y. Zhang, M. C. Gorry, Y. Chen, J. C. Post, and G. D. Ehrlich. 1998. Evidence of bacterial metabolic activity in culture-negative otitis media with effusion. JAMA 279:296-299.
41. Reinholdt, J., M. Tomana, S. B. Mortensen, and M. Kilian. 1990. Molecular aspects of immunoglobulin A1 degradation by oral streptococci. Infect. Immun. 58:1186-1194.
42. Reinholdt, J., and M. Kilian. 1997. Comparative analysis of immunoglobulin A1 protease activity among bacteria representing different genera, species, and strains. Infect. Immun. 65:4452-4459.
43. Robinson, D. A., D. E. Briles, M. J. Crain, and S. K. Hollingshead. 2002. Evolution and virulence of serogroup 6 pneumococci on a global scale. J. Bacteriol. 184:6367-6375.
44. Rosenow, C., M. Maniar, and J. Trias. 1999. Regulation of the alpha-galactosidase activity in Streptococcus pneumoniae: characterization of the raffinose utilization system. Genome Res. 9:1189-1197.
45. Shen, K., P. Antalis, J. Gladitz, S. Sayeed, A. Ahmed, S. Yu, J. Hayes, S. Johnson, B. Dice, R. Dopico, R. Keefe, B. Janto, W. Chong, J. Goodwin, R. M. Wadowsky, G. Erdos, J. C. Post, G. D. Ehrlich, and F. Z. Hu. 2005. Identification, distribution, and expression of novel genes in 10 clinical isolates of nontypeable Haemophilus influenzas. Infect. Immun. 73:3479-3491.
46. Siezen, R. J., and J. A. Leunissen. 1997. Subtilases: the superfamily of subtilisin-like serine proteases. Protein Sci. 6:501-523.
47. Smith, A. W., H. Roche, M. C. Trombe, D. E. Briles, and A. Hakansson. 2002. Characterization of the dihydrolipoamide dehydrogenase from Streptococcus pneumoniae and its role in pneumococcal infection. Mol. Microbiol. 44:431-448.
48. Southern, E. M. 1975. Detection of specific sequences among DNA fragments separated by gel electrophoresis. J. Mol. Biol. 98:503-517.
49. Tettelin, H., K. E. Nelson, I. T. Paulsen, J. A. Eisen, T. D. Read, S. Peterson, J. Heidelberg, R. T. DeBoy, D. H. Haft, R. J. Dodson, A. S. Durkin, M. Gwinn, J. F. Kolonay, W. C. Nelson, J. D. Peterson, L. A. Umayam, O. White, S. L. Salzberg, M. R. Lewis, D. Radune, E. Holtzapple, H. Khouri, A. M. Wolf, T. R. Utterback, C. L. Hansen, L. A. McDonald, T. V. Feldblyum, S. Angiuoli, T. Dickinson, E. K. Hickey, I. E. Holt, B. J. Loftus, F. Yang, H. O. Smith, J. C. Venter, B. A. Dougherty, D. A. Morrison, S. K. Hollingshead, and C. M. Fraser. 2001. Complete genome sequence of a virulent isolate of Streptococcus pneumoniae. Science 293:498-506.