This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowReprints and Permissions
Right arrow Copyright Information
Right arrow Books from ASM Press
Right arrow MicrobeWorld
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Van Dyk, T. K.
Right arrow Articles by Gonye, G. E.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Van Dyk, T. K.
Right arrow Articles by Gonye, G. E.

 Previous Article  |  Next Article 

Journal of Bacteriology, October 2001, p. 5496-5505, Vol. 183, No. 19
0021-9193/01/$04.00+0   DOI: 10.1128/JB.183.19.5496-5505.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.

LuxArray, a High-Density, Genomewide Transcription Analysis of Escherichia coli Using Bioluminescent Reporter Strains

Tina K. Van Dyk,* Ellen J. DeRose, and Gregory E. Gonyedagger

Central Research and Development Department, DuPont Company, Wilmington, Delaware 19880-0173

Received 16 April 2001/Accepted 1 July 2001

A sequenced collection of plasmid-borne random fusions of Escherichia coli DNA to a Photorhabdus luminescens luxCDABE reporter was used as a starting point to select a set of 689 nonredundant functional gene fusions. This group, called LuxArray 1.0, represented 27% of the predicted transcriptional units in E. coli. High-density printing of the LuxArray 1.0 reporter strains to membranes on agar plates was used for simultaneous reporter gene assays of gene expression. The cellular response to nalidixic acid perturbation was analyzed using this format. As expected, fusions to promoters of LexA-controlled SOS-responsive genes dinG, dinB, uvrA, and ydjM were found to be upregulated in the presence of nalidixic acid. In addition, six fusions to genes not previously known to be induced by nalidixic acid were also reproducibly upregulated. The responses of two of these, fusions to oraA and yigN, were induced in a LexA-dependent manner by both nalidixic acid and mitomycin C, identifying these as members of the LexA regulon. The responses of the other four were neither induced by mitomycin C nor dependent on lexA function. Thus, the promoters of ycgH, intG, rihC, and a putative operon consisting of lpxA, lpxB, rnhB, and dnaE were not generally DNA damage responsive and represent a more specific response to nalidixic acid. These results demonstrate that cellular arrays of reporter gene fusions are an important alternative to DNA arrays for genomewide transcriptional analyses.

* Corresponding author. Mailing address: DuPont Company CR&D, Rt. 141 and Powdermill Rd., P.O. Box 80173, Wilmington, DE 19880-0173. Phone: (302) 695-1430. Fax: (302) 695-9183. E-mail: Tina.K.Van-Dyk{at}usa.dupont.com.

dagger Present address: Thomas Jefferson University, Department of Pathology, Anatomy and Cell Biology, Philadelphia, PA 19107.

Journal of Bacteriology, October 2001, p. 5496-5505, Vol. 183, No. 19
0021-9193/01/$04.00+0   DOI: 10.1128/JB.183.19.5496-5505.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.


This article has been cited by other articles:

  • Ren, B., Duan, X., Ding, H. (2009). Redox Control of the DNA Damage-inducible Protein DinG Helicase Activity via Its Iron-Sulfur Cluster. J. Biol. Chem. 284: 4829-4835 [Abstract] [Full Text]  
  • Gillor, O., Vriezen, J. A. C., Riley, M. A. (2008). The role of SOS boxes in enteric bacteriocin regulation. Microbiology 154: 1783-1792 [Abstract] [Full Text]  
  • Voloshin, O. N., Camerini-Otero, R. D. (2007). The DinG Protein from Escherichia coli Is a Structure-specific Helicase. J. Biol. Chem. 282: 18437-18447 [Abstract] [Full Text]  
  • Gomez, M. J., Neyfakh, A. A. (2006). Genes Involved in Intrinsic Antibiotic Resistance of Acinetobacter baylyi. Antimicrob. Agents Chemother. 50: 3562-3567 [Abstract] [Full Text]  
  • Vankemmelbeke, M., Healy, B., Moore, G. R., Kleanthous, C., Penfold, C. N., James, R. (2005). Rapid Detection of Colicin E9-Induced DNA Damage Using Escherichia coli Cells Carrying SOS Promoter-lux Fusions. J. Bacteriol. 187: 4900-4907 [Abstract] [Full Text]  
  • Kinch, L. N., Ginalski, K., Rychlewski, L., Grishin, N. V. (2005). Identification of novel restriction endonuclease-like fold families among hypothetical proteins. Nucleic Acids Res 33: 3598-3605 [Abstract] [Full Text]  
  • Erill, I., Jara, M., Salvador, N., Escribano, M., Campoy, S., Barbe, J. (2004). Differences in LexA regulon structure among Proteobacteria through in vivo assisted comparative genomics. Nucleic Acids Res 32: 6617-6626 [Abstract] [Full Text]  
  • Sabina, J., Dover, N., Templeton, L. J., Smulski, D. R., Soll, D., LaRossa, R. A. (2003). Interfering with Different Steps of Protein Synthesis Explored by Transcriptional Profiling of Escherichia coli K-12. J. Bacteriol. 185: 6158-6170 [Abstract] [Full Text]  
  • Bjarnason, J., Southward, C. M., Surette, M. G. (2003). Genomic Profiling of Iron-Responsive Genes in Salmonella enterica Serovar Typhimurium by High-Throughput Screening of a Random Promoter Library. J. Bacteriol. 185: 4973-4982 [Abstract] [Full Text]  
  • Voloshin, O. N., Vanevski, F., Khil, P. P., Camerini-Otero, R. D. (2003). Characterization of the DNA Damage-inducible Helicase DinG from Escherichia coli. J. Biol. Chem. 278: 28284-28293 [Abstract] [Full Text]  
  • Stohl, E. A., Brockman, J. P., Burkle, K. L., Morimatsu, K., Kowalczykowski, S. C., Seifert, H. S. (2003). Escherichia coli RecX Inhibits RecA Recombinase and Coprotease Activities in Vitro and in Vivo. J. Biol. Chem. 278: 2278-2285 [Abstract] [Full Text]  
  • Pruss, B. M., Campbell, J. W., Van Dyk, T. K., Zhu, C., Kogan, Y., Matsumura, P. (2003). FlhD/FlhC Is a Regulator of Anaerobic Respiration and the Entner-Doudoroff Pathway through Induction of the Methyl-Accepting Chemotaxis Protein Aer. J. Bacteriol. 185: 534-543 [Abstract] [Full Text]  
  • Ronen, M., Rosenberg, R., Shraiman, B. I., Alon, U. (2002). Assigning numbers to the arrows: Parameterizing a gene regulation network by using accurate expression kinetics. Proc. Natl. Acad. Sci. USA 99: 10555-10560 [Abstract] [Full Text]  
  • Sabatti, C., Rohlin, L., Oh, M.-K., Liao, J. C. (2002). Co-expression pattern from DNA microarray experiments as a tool for operon prediction. Nucleic Acids Res 30: 2886-2893 [Abstract] [Full Text]  


Copyright © 2009 by the American Society for Microbiology.   For an alternate route to Journals.ASM.org, visit: http://intl-journals.asm.org | More Info»