Biofilm Modifies Expression of Ribonucleotide Reductase Genes in Escherichia coli

PLoS ONE

Volumn 7, Issue 9, 2012, Pages

  Cendra, Maria del Mar ^a   Juárez, Antonio ^a,b   Torrents, Eduard ^a  

^a INSTITUTE FOR BIOENGINEERING OF CATALONIA IBEC   (Spain)

^b UNIVERSITY OF BARCELONA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

RIBONUCLEOTIDE REDUCTASE; RIBONUCLEOTIDE REDUCTASE IA; RIBONUCLEOTIDE REDUCTASE IB; RIBONUCLEOTIDE REDUCTASE III; SIGMA FACTOR RPOS; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL STRAIN; BACTERIAL VIRULENCE; BIOFILM; CONTROLLED STUDY; ENTEROPATHOGENIC ESCHERICHIA COLI; GENETIC VARIABILITY; NONHUMAN; OPERON; PLASMID; POLYMERASE CHAIN REACTION; PROTEIN EXPRESSION; TRANSACTIVATION; TRANSCRIPTION REGULATION; UPREGULATION;

BIOFILMS; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; RIBONUCLEOTIDE REDUCTASES;

ESCHERICHIA COLI;

EID: 84866862180     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0046350     Document Type: Article

References (36)

1. Schembri MA, Kjaergaard K, Klemm P, (2003) Global gene expression in Escherichia coli biofilms. Mol Microbiol 48: 253-267.
2. Costerton JW, Stewart PS, Greenberg EP, (1999) Bacterial biofilms: a common cause of persistent infections. Science 284: 1318-1322.
3. Domka J, Lee J, Bansal T, Wood TK, (2007) Temporal gene-expression in Escherichia coli K-12 biofilms. Environ Microbiol 9: 332-346.
4. Ren D, Bedzyk LA, Thomas SM, Ye RW, Wood TK, (2004) Gene expression in Escherichia coli biofilms. Appl Microbiol Biotechnol 64: 515-524.
5. Beloin C, Valle J, Latour-Lambert P, Faure P, Kzreminski M, et al. (2004) Global impact of mature biofilm lifestyle on Escherichia coli K-12 gene expression. Mol Microbiol 51: 659-674.
6. Moreira CG, Palmer K, Whiteley M, Sircili MP, Trabulsi LR, et al. (2006) Bundle-forming pili and EspA are involved in biofilm formation by enteropathogenic Escherichia coli. JBacteriol 188: 3952-3961.
7. Torrents E, Sahlin M, Sjöberg B-M (2008) The Ribonucleotide Reductase Family- Genetics and Genomics. In: Ribonucleotide Reductases (ed KK Andersson) Nova Science Publishers: pp. 17-77.
8. Lundin D, Torrents E, Poole AM, Sjöberg B-M, (2009) RNRdb, a curated database of the universal enzyme family ribonucleotide reductase, reveals a high level of misannotation in sequences deposited to Genbank. BMC Genomics 10: 589.
9. Cotruvo JA, Stubbe J, (2011) Escherichia coli class Ib ribonucleotide reductase contains a dimanganese(III)-tyrosyl radical cofactor in vivo. Biochemistry 50: 1672-1681.
10. Boal AK, Cotruvo JA Jr, Stubbe J, Rosenzweig AC, (2010) Structural basis for activation of class Ib ribonucleotide reductase. Science 329: 1526-1530.
11. Torrents E, Grinberg I, Gorovitz-Harris B, Lundstrom H, Borovok I, et al. (2007) NrdR controls differential expression of the Escherichia coli ribonucleotide reductase genes. JBacteriol 189: 5012-5021.
12. Boston T, Atlung T, (2003) FNR-mediated oxygen-responsive regulation of the nrdDG operon of Escherichia coli. JBacteriol 185: 5310-5313.
13. Roca I, Ballana E, Panosa A, Torrents E, Gibert I, (2008) Fumarate and nitrate reduction (FNR) dependent activation of the Escherichia coli anaerobic ribonucleotide reductase nrdDG promoter. Int Microbiol 11: 49-56.
14. Garriga X, Eliasson R, Torrents E, Jordan A, Barbe J, et al. (1996) nrdD and nrdG genes are essential for strict anaerobic growth of Escherichia coli. Biochem Biophys Res Commun 229: 189-192.
15. Martin JE, Imlay JA, (2011) The alternative aerobic ribonucleotide reductase of Escherichia coli, NrdEF, is a manganese-dependent enzyme that enables cell replication during periods of iron starvation. Mol Microbiol 80: 319-334.
16. Blattner FR, Plunkett G 3rd, Bloch CA, Perna NT, Burland V, et al (1997) The complete genome sequence of Escherichia coli K-12. Science 277: 1453-1462.
17. Iguchi A, Thomson NR, Ogura Y, Saunders D, Ooka T, et al. (2009) Complete genome sequence and comparative genome analysis of enteropathogenic Escherichia coli O127:H6 strain E2348/69. JBacteriol 191: 347-354.
18. Stewart PS, Franklin MJ, (2008) Physiological heterogeneity in biofilms. Nat Rev Microbiol 6: 199-210.
19. Monje-Casas F, Jurado J, Prieto-Alamo MJ, Holmgren A, Pueyo C, (2001) Expression analysis of the nrdHIEF operon from Escherichia coli. Conditions that trigger the transcript level in vivo. JBiol Chem 276: 18031-18037.
20. Ito A, May T, Taniuchi A, Kawata K, Okabe S, (2009) Localized expression profiles of rpoS in Escherichia coli biofilms. Biotechnol Bioeng 103: 975-983.
21. Dong T, Kirchhof MG, Schellhorn HE, (2008) RpoS regulation of gene expression during exponential growth of Escherichia coli K12. Mol Genet Genomics 279: 267-277.
22. Weber H, Polen T, Heuveling J, Wendisch VF, Hengge R, (2005) Genome-wide analysis of the general stress response network in Escherichia coli: sigmaS-dependent genes, promoters, and sigma factor selectivity. JBacteriol 187: 1591-1603.
23. Varghese S, Wu A, Park S, Imlay KR, Imlay JA, (2007) Submicromolar hydrogen peroxide disrupts the ability of Fur protein to control free-iron levels in Escherichia coli. Mol Microbiol 64: 822-830.
24. Horinouchi T, Tamaoka K, Furusawa C, Ono N, Suzuki S, et al. (2010) Transcriptome analysis of parallel-evolved Escherichia coli strains under ethanol stress. BMC Genomics 11: 579.
25. Vassinova N, Kozyrev D, (2000) A method for direct cloning of fur-regulated genes: identification of seven new fur-regulated loci in Escherichia coli. Microbiology 146 Pt 12: 3171-3182.
26. Boles BR, Singh PK, (2008) Endogenous oxidative stress produces diversity and adaptability in biofilm communities. Proc Natl Acad SciUSA 105: 12503-12508.
27. McHugh JP, Rodriguez-Quinones F, Abdul-Tehrani H, Svistunenko DA, Poole RK, et al. (2003) Global iron-dependent gene regulation in Escherichia coli. A new mechanism for iron homeostasis. JBiol Chem 278: 29478-29486.
28. Torrents E, Jordan A, Karlsson M, Gibert I, (2000) Occurrence of multiple ribonucleotide reductase classes in gamma-proteobacteria species. Curr Microbiol 41: 346-351.
29. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular Cloning: A Laboratory Manual: Cold Spring Harbor Laboratory Press.
30. Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2: 2006 0008.
31. Silhavy TJ, Berman ML, Enquist LW (1984) Experiments with gene fusions. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
32. Weiss-Muszkat M, Shakh D, Zhou Y, Pinto R, Belausov E, et al. (2010) Biofilm formation by and multicellular behavior of Escherichia coli O55:H7, an atypical enteropathogenic strain. Appl Environ Microbiol 76: 1545-1554.
33. O'Toole GA, Pratt LA, Watnick PI, Newman DK, Weaver VB, et al. (1999) Genetic approaches to study of biofilms. Methods Enzymol 310: 91-109.
34. Sjöberg BM, Torrents E, (2011) Shift in Ribonucleotide Reductase Gene Expression in Pseudomonas aeruginosa during Infection. Infect Immun 79: 2663-2669.
35. Torrents E, Sjöberg BM, (2010) Antibacterial activity of radical scavengers against class Ib ribonucleotide reductase from Bacillus anthracis. Biol Chem 391: 229-234.
36. Kovach ME, Elzer PH, Hill DS, Robertson GT, Farris MA, et al. (1995) Four new derivatives of the broad-host-range cloning vector pBBR1MCS, carrying different antibiotic-resistance cassettes. Gene 166: 175-176.