Differential gene expression in Escherichia coli following exposure to nonthermal atmospheric pressure plasma

Journal of Applied Microbiology

Volumn 107, Issue 5, 2009, Pages 1440-1449

  Sharma, A ^a   Collins, G ^a   Pruden, A ^b  

^a Department of Mechanical Engineering   (United States)

^b Virginia Polytechnic Institute and State University   (United States)

Author keywords

Disinfection; Microarray; Nonthermal processes; Plasma; Transcriptomics

Indexed keywords

ATMOSPHERIC PRESSURE; DISINFECTION; GENE EXPRESSION; MICROARRAYS; OLIGONUCLEOTIDES;

ARGON PLASMAS; DIFFERENTIAL GENE EXPRESSIONS; DISINFECTION APPROACH; DNA DAMAGES; EXPRESSION IN ESCHERICHIA COLI; NON-THERMAL ATMOSPHERIC PRESSURE; NON-THERMAL PROCESS; NONTHERMAL ATMOSPHERIC PRESSURE PLASMAS; PLASMA EXPOSURE; TRANSCRIPTOMICS;

ESCHERICHIA COLI;

ATMOSPHERIC PRESSURE; COLIFORM BACTERIUM; DISINFECTION; GENE EXPRESSION; GENETIC DIFFERENTIATION; GENOMICS; PLASMA; POLLUTANT REMOVAL;

ARTICLE; ATMOSPHERIC PRESSURE; DNA DAMAGE; DNA REPAIR; DNA SYNTHESIS; ESCHERICHIA COLI; GENE EXPRESSION; NONHUMAN; OXIDATIVE STRESS;

ESCHERICHIA COLI;

EID: 70349954947     PISSN: 13645072     EISSN: 13652672     Source Type: Journal    
DOI: 10.1111/j.1365-2672.2009.04323.x     Document Type: Article

References (34)

1. Altuvia, S., Weinstein-Fischer, D., Zhang, A., Postow, L. Storz, G. (1997) A small, stable RNA induced by oxidative stress: role as a pleiotropic regulator and antimutator. Cell 90, 43 53.
2. Andrew, S.C., Robinson, A.K. Rodríguez-Quiñones, F. (2003) Bacterial iron homeostasis. FEMS Microb Rev 27, 215 237.
3. Claiborne, A. Fridovich, I. (1979) Purification of the o-dianisidine peroxidase from Escherichia coli B. Physicochemical characterization and analysis of its dual catalatic and peroxidatic activities. J Biol Chem 254, 4245 4252.
4. Courcelle, J., Khodursky, A., Peter, B., Brown, P.O. Hanawalt, P.C. (2001) Comparative gene expression profiles following UV exposure in wild-type and SOS-deficient Escherichia coli. Genetics 158, 41 64.
5. Friedberg, E.C., Walker, G.C. Siede, W. (1995) DNA Repair and Mutagenesis, pp. 407 462. Washington, DC : ASM Press.
6. Gonzalez, C.F., Proudfoot, M., Brown, G., Korniyenko, Y., Mori, H., Savchenko, A.V. Yakunin, A.F. (2006) Molecular basis of formaldehyde detoxification: characterization of two s-formylglutathione hydrolases from Escherichia coli, FrmB and YeiG. J Biol Chem 281, 14514 14522.
7. Griffith, K.L., Shah, I.M. Wolf, R.E. (2004) Proteolytic degradation of Escherichia coli transcription activators SoxS and MarA as the mechanism for reversing the induction of the superoxide (SoxRS) and multiple antibiotic resistance (Mar) regulons. Mol Microbiol 51, 1801 1816.
8. Haemig, H.A. Brooker, R.J. (2004) Importance of conserved acidic residues in mntH, the Nramp homolog of Escherichia coli. J Membr Biol 201, 97 107.
9. Jacques, J.F., Jang, S., Prévost, K., Desnoyers, G., Desmarais, M., Imlay, J. Massé, E. (2006) RyhB small RNA modulates the free intracellular iron pool and is essential for normal growth during iron limitation in Escherichia coli. Mol Microbiol 62, 1181 1190.
10. Kandror, O., DeLeon, A. Goldberg, A.L. (2002) Trehalose synthesis is induced upon exposure of Escherichia coli to cold and is essential for viability at low temperatures. Proc Natl Acad Sci USA 99, 9727 9732.
11. Karp, P.D., Keseler, I.M., Shearer, A., Latendresse, M., Krummenacker, M., Paley, S.M., Paulsen, I., Collado-Vides, J. et al. (2007) Multidimensional annotation of the Escherichia coli K-12 genome. Nucl Acids Res 35, 7577 7590.
12. Koch, W.H. Woodgate, R. (1998) The SOS respone. DNA repair in prokaryotes and lower eukaryotes. In DNA Damage and Repair, Vol. 1. ed. Nickoloff, J.A. Hoektra, M.F 107 125. Totowa, NJ : Humana Press Inc.
13. Laroussi, M. Lu, X. (2005) Room-temperature atmospheric pressure plasma plume for biomedical applications. Appl Phys Lett 87, 113902 113903.
14. Li, C. Wong, W.H 2001a) Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol Res 2, research032.
15. Li, C. Wong, W.H. (2001b) Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc Natl Acad Sci USA 98, 31 36.
16. McKenzie, G.J., Magner, D.B., Lee, P.L. Rosenberg, S.M. (2003) The dinB operon and spontaneous mutation in Escherichia coli. J Bacteriol 185, 3972 3977.
17. Moisan, M., Barbeau, J., Moreau, S., Pelletier, J., Tabrizian, M. Yahia, L'H. (2001) Low-temperature sterilization using gas plasmas: a review of the experiments and an analysis of the inactivation mechanisms. Int J Pharm 226, 1 21.
18. Muller, K., Matzanke, BF., Schunemann, V., Trautwein, A.X. Hantke, K. (1998) FhuF, an iron-regulated protein of Escherichia coli with a new type of [2Fe-2S] center. Eur J Biochem 258, 1001 1008.
19. Neidhardt, F.C., Curtiss, R. III., Ingraham, J.L., Lin, E.C.C., Low, K.B. Jr., Magasanik, B., Reznikoff, W.S., Riley, M. et al. (1996) Escherichia coli and Salmonella, Cellular and Molecular Biology, 2nd edn, pp. 156 169. Washington, DC : ASM Press.
20. Phadtare, S., Tadigotla, V., Shin, W.H., Sengupta, A. Severinov, K. (2006) Analysis of Escherichia coli global gene expression profiles in response to overexpression and deletion of CspC and CspE. J Bacteriol 188, 2521 2527.
21. Pichoff, S., Vollrath, B., Touriol, C. Bouche, J.P. (1995) Deletion analysis of gene minE which encodes the topological specificity factor of cell division in Escherichia coli. Mol Microbiol 18, 321 329.
22. Pollak, J., Moisan, M., Kéroack, D., Séguin, J. Barbeau, J. (2008) Plasma sterilisation within long and narrow bore dielectric tubes contaminated with stacked bacterial spores. Plasma Process Poly 5, 14 25.
23. Qiu, X., Sundin, G.W., Wu, L., Zhou, J. Tiedje, J.M. (2005) Comparative analysis of differentially expressed genes in Shewanella oneidensis MR-1 following exposure to UVC, UVB, and UVA radiation. J Bacteriol 187, 3556 3564.
24. Sharma, A., Pruden, A., Yu, Z. Collins, G.J. (2005) Bacterial inactivation in open air by the afterglow plume emitted from a grounded hollow slot electrode. Environ Sci Technol 39, 339 344.
25. Sharma, A., Pruden, A., Stan, O. Collins, G.J. (2006) Bacterial inactivation using an RF-powered atmospheric pressure plasma. IEEE Trans Plasma Sci Special Issue - Non-thermal Med Biol Appl Ionized Gases EM Fields, 34, 1290 1296.
26. Snyder, L. Champness, W. (2007) Molecular Genetics of Bacteria, 3rd edn, pp. 459 497. Washington, DC : ASM Press.
27. Steelman, V.M. (1992) Issues in sterilization and disinfection. Urolog Nurs 12, 123 127.
28. Tjaden, B., Goodwin, S.S., Opdyke, J.A., Guillier, M., Fu, D.X., Gottesman, S. Storz, G. (2006) Target prediction for small, noncoding RNAs in bacteria. Nucleic Acids Res 34, 2791 2802.
29. Touati, D. (1988) Transcriptional and posttranscriptional regulation of manganese superoxide dismutase biosynthesis in Escherichia coli, studied with operon and protein fusions. J Bacteriol 170, 2511 2520.
30. Van Dyk, T.K., Wei, Y., Hanafey, M.K., Dolan, M., Reeve, M.G.J., Rafalski, A., Rothman-Denes, L.B. LaRossa, R.A. (2001) A genomic approach to gene fusion technology. Proc Natl Acad Sci USA 98, 2555 2560.
31. Wang, Z. (2001) Translesion synthesis by the UmuC family of DNA polymerases. Mutat Res 486, 59 70.
32. Yalin, A.P., Yu, Z.Q., Stan, O., Hoshimiya, K., Abdur, R., Surla, V. Collins, G.J. (2003) Electrical and optical emission characteristics of radio-frequency-driven hollow slot microplasmas operating in open air. Appl Phys Lett 83, 2766 2768.
33. Yura, T., Kanemori, M. Morita, M.T. (2000) The heat shock response: regulation and function. In Bacterial Stress Responses ed. Storz, G. Hengge-Aronis, R 3 10. Washington, DC : ASM Press.
34. Zheng, M., Wang, X., Templeton, L.J., Smulski, D.R., Larossa, R.A. Storz, G. (2001) DNA microarray-mediated transcriptional profiling of the Escherichia coli response to hydrogen peroxide. J Bacteriol 183, 4562 4570.