Regulation of the Bacillus subtilis divergent yetL and yetM genes by a transcriptional repressor, YetL, in response to flavonoids

Journal of Bacteriology

Volumn 191, Issue 11, 2009, Pages 3685-3697

  Hirooka, Kazutake ^a   Danjo, Yusuke ^a   Hanano, Yuki ^a   Kunikane, Satoshi ^a   Matsuoka, Hiroshi ^a   Tojo, Shigeo ^a   Fujita, Yasutaro ^a  

^a FUKUYAMA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

APIGENIN; BACTERIAL PROTEIN; BETA GALACTOSIDASE; CHRYSIN; DAIDZEIN; DEOXYRIBONUCLEASE I; FISETIN; FLAVONOID; GALANGIN; GENISTEIN; KAEMPFEROL; LUTEOLIN; MORIN; QUERCETIN; UNCLASSIFIED DRUG; YETL PROTEIN; KAEMPFEROL DERIVATIVE;

AMINO ACID SEQUENCE; ARTICLE; BACILLUS SUBTILIS; BACTERIAL GENE; BINDING SITE; DNA FOOTPRINTING; ECHINACEA; GENE CONTROL; GENE REPRESSION; GENE SEQUENCE; GENETIC VARIABILITY; IN VITRO STUDY; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN BINDING; YETL GENE; YETM GENE; DNA MICROARRAY; DRUG EFFECT; GENE EXPRESSION REGULATION; GENETICS; METABOLISM;

BACILLUS SUBTILIS;

APIGENIN; BACILLUS SUBTILIS; BACTERIAL PROTEINS; DNA FOOTPRINTING; FLAVONOIDS; GENE EXPRESSION REGULATION, BACTERIAL; KAEMPFEROLS; LUTEOLIN; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROMOTER REGIONS, GENETIC; PROTEIN BINDING;

EID: 66149149832     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.00202-09     Document Type: Article

References (39)

1. Alekshun, M. N., S. B. Levy, T. R. Mealy, B. A. Seaton, and J. F. Head. 2001. The crystal structure of MarR, a regulator of multiple antibiotic resistance, at 2.3 A resolution. Nat. Struct. Biol. 8:710-714.
2. Atkinson, M. R., L. V. Wray, Jr., and S. H. Fisher. 1990. Regulation of histidine and proline degradation enzymes by amino acid availability in Bacillus subtilis. J. Bacteriol. 172:4758-4765. (Pubitemid 20281919)
3. Bais, H. P., T. L. Weir, L. G. Perry, S. Gilroy, and J. M. Vivanco. 2006. The role of root exudates in rhizosphere interactions with plants and other organisms. Annu. Rev. Plant Biol. 57:233-266.
4. Bowater, L., S. A. Fairhurst, V. J. Just, and S. Bornemann. 2004. Bacillus subtilis YxaG is a novel Fe-containing quercetin 2,3-dioxygenase. FEBS Lett. 557:45-48.
5. Grkovic, S., M. H. Brown, and R. A. Skurray. 2002. Regulation of bacterial drug export systems. Microbiol. Mol. Biol. Rev. 66:671-701.
6. Halbwirth, H., and K. Stich. 2006. An NADPH and FAD dependent enzyme catalyzes hydroxylation of flavonoids in position 8. Phytochemistry 67:1080-1087. (Pubitemid 44177484)
7. Haldenwang, W. G. 1995. The sigma factors of Bacillus subtilis. Microbiol. Rev. 59:1-30.
8. Higuchi, R. 1990. Recombinant PCR, p. 177-183. In M. A. Innis, D. H. Gelfand, J. J. Sninsky, and T. J. White (ed.), PCR protocols: a guide to methods and applications. Academic Press, San Diego, CA.
9. Hirooka, K., S. Kunikane, H. Matsuoka, K. Yoshida, K. Kumamoto, S. Tojo, and Y. Fujita. 2007. Dual regulation of the Bacillus subtilis regulon comprising the lmrAB and yxaGH operons and yxaF gene by two transcriptional repressors, LmrA and YxaF, in response to flavonoids. J. Bacteriol. 189:5170-5182.
10. Hong, M., M. Fuangthong, J. D. Helmann, and R. G. Brennan. 2005. Structure of an OhrR-ohrA operator complex reveals the DNA binding mechanism of the MarR family. Mol. Cell 20:131-141. (Pubitemid 41396568)
11. Horinouchi, S., and B. Weisblum. 1982. Nucleotide sequence and functional map of pC194, a plasmid that specifies inducible chloramphenicol resistance. J. Bacteriol. 150:815-825.
12. Hund, H. K., J. Breuer, F. Lingens, J. Hüttermann, R. Kappl, and S. Fetzner. 1999. Flavonol 2,4-dioxygenase from Aspergillus niger DSM 821, a type 2 CuII-containing glycoprotein. Eur. J. Biochem. 263:871-878.
13. Kobayashi, H., Y. Naciri-Graven, W. J. Broughton, and X. Perret. 2004. Flavonoids induce temporal shifts in gene-expression of nod-box controlled loci in Rhizobium sp. NGR234. Mol. Microbiol. 51:335-347.
14. Kobayashi, K., S. D. Ehrlich, A. Albertini, et al. 2003. Essential Bacillus subtilis genes. Proc. Natl. Acad. Sci. USA 100:4678-4683.
15. Lee, J. R., K. R. Min, Y. C. Kim, C. K. Kim, J. Y. Lim, H. J. Yoon, K. H. Min, K. S. Lee, and Y. Kim. 1995. Cloning of the salicylate hydroxylase gene and catechol 2,3-dioxygenase gene, and sequencing of an intergenic sequence between the two genes of Pseudomonas putida KF715. Biochem. Biophys. Res. Commun. 211:382-388.
16. Leelakriangsak, M., N. T. T. Huyen, S. Töwe, N. van Duy, D. Becher, M. Hecker, H. Antelmann, and P. Zuber. 2008. Regulation of quinone detoxification by the thiol stress sensing DUF24/MarR-like repressor YodB in Bacillus subtilis. Mol. Microbiol. 67:1108-1124.
17. Merkens, H., S. Sielker, K. Rose, and S. Fetzner. 2007. A new monocupin quercetinase of Streptomyces sp. FLA: identification and heterologous expression of the queD gene and activity of the recombinant enzyme towards different flavonols. Arch. Microbiol. 187:475-487.
18. Miwa, Y., and Y. Fujita. 2001. Involvement of two distinct catabolite-responsive elements in catabolite repression of the Bacillus subtilis myo-inositol (iol) operon. J. Bacteriol. 183:5877-5884.
19. Murata, M., S. Ohno, M. Kumano, K. Yamane, and R. Ohki. 2003. Multidrug resistant phenotype of Bacillus subtilis spontaneous mutants isolated in the presence of puromycin and lincomycin. Can. J. Microbiol. 49:71-77.
20. Plaper, A., M. Golob, I. Hafner, M. Oblak, T. Solmajer, and R. Jerala. 2003. Characterization of quercetin binding site on DNA gyrase. Biochem. Biophys. Res. Commun. 306:530-536.
21. Ramos, J. L., M. Martínez-Bueno, A. J. Molina-Henares, W. Terán, K. Watanabe, X. Zhang, M. T. Gallegos, R. Brennan, and R. Tobes. 2005. The TetR family of transcriptional repressors. Microbiol. Mol. Biol. Rev. 69:326-356.
22. Rao, J. R., and J. E. Cooper. 1994. Rhizobia catabolize nod gene-inducing flavonoids via C-ring fission mechanisms. J. Bacteriol. 176:5409-5413.
23. Sambrook, J., and D. W. Russell. 2001. Molecular cloning: a laboratory manual, 3rd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
24. Satomura, T., D. Shimura, K. Asai, Y. Sadaie, K. Hirooka, and Y. Fujita. 2005. Enhancement of glutamine utilization in Bacillus subtilis through the GlnK-GlnL two-component regulatory system. J. Bacteriol. 187:4813-4821.
25. Seetharaman, J., D. Kumaran, J. B. Bonanno, S. K. Burley, and S. Swaminathan. 2006. Crystal structure of a putative HTH-type transcriptional regulator yxaF from Bacillus subtilis. Proteins 63:1087-1091. (Pubitemid 43765159)
26. Shaw, L. J., P. Morris, and J. E. Hooker. 2006. Perception and modification of plant flavonoid signals by rhizosphere microorganisms. Environ. Microbiol. 8:1867-1880.
27. Shingler, V., J. Powlowski, and U. Marklund. 1992. Nucleotide sequence and functional analysis of the complete phenol/3,4-dimethylphenol catabolic pathway of Pseudomonas sp. strain CF600. J. Bacteriol. 174:711-724.
28. Steinmetz, M., and R. Richter. 1994. Plasmids designed to alter the antibiotic resistance expressed by insertion mutations in Bacillus subtilis, through in vivo recombination. Gene 142:79-83.
29. Tam, L. T., C. Eymann, D. Albrecht, R. Sietmann, F. Schauer, M. Hecker, and H. Antelmann. 2006. Differential gene expression in response to phenol and catechol reveals different metabolic activities for the degradation of aromatic compounds in Bacillus subtilis. Environ. Microbiol. 8:1408-1427. (Pubitemid 44025334)
30. Terán, W., T. Krell, J. L. Ramos, and M. T. Gallegos. 2006. Effector-repressor interactions, binding of a single effector molecule to the operator-bound TtgR homodimer mediates derepression. J. Biol. Chem. 281:7102-7109.
31. Tojo, S., T. Satomura, K. Kumamoto, K. Hirooka, and Y. Fujita. 2008. Molecular mechanisms underlying the positive stringent response of the Bacillus subtilis ilv-leu operon, involved in the biosynthesis of branched-chain amino acids. J. Bacteriol. 190:6134-6147.
32. Töwe, S., M. Leelakriangsak, K. Kobayashi, N. van Duy, M. Hecker, P. Zuber, and H. Antelmann. 2007. The MarR-type repressor MhqR (YkvE) regulates multiple dioxygenases/glyoxalases and an azoreductase which confer resistance to 2-methylhydroquinone and catechol in Bacillus subtilis. Mol. Microbiol. 66:40-54. (Pubitemid 47414789)
33. Ulanowska, K., A. Tkaczyk, G. Konopa, and G. Wegrzyn. 2006. Differential antibacterial activity of genistein arising from global inhibition of DNA, RNA and protein synthesis in some bacterial strains. Arch. Microbiol. 184:271-278.
34. Vagner, V., E. Dervyn, and S. D. Ehrlich. 1998. A vector for systematic gene inactivation in Bacillus subtilis. Microbiology 144:3097-3104.
35. Wach, A. 1996. PCR-synthesis of marker cassettes with long flanking homology regions for gene disruptions in S. cerevisiae. Yeast 12:259-265. (Pubitemid 26077146)
36. Wang, S. C., W. H. Johnson, Jr., R. M. Czerwinski, S. L. Stamps, and C. P. Whitman. 2007. Kinetic and stereochemical analysis of YwhB, a 4-oxalocrotonate tautomerase homologue in Bacillus subtilis: mechanistic implications for the YwhB- and 4-oxalocrotonate tautomerase-catalyzed reactions. Biochemistry 46:11919-11929.
37. Yoshida, K., Y. Fujita, and A. Sarai. 1993. Missense mutations in the Bacillus subtilis gnt repressor that diminish operator binding ability. J. Mol. Biol. 231:167-174.
38. Yoshida, K., I. Ishio, E. Nagakawa, Y. Yamamoto, M. Yamamoto, and Y. Fujita. 2000. Systematic study of gene expression and transcription organization in the gntZ-ywaA region of the Bacillus subtilis genome. Microbiology 146:573-579.
39. Yoshida, K., K. Kobayashi, Y. Miwa, C. M. Kang, M. Matsunaga, H. Yamaguchi, S. Tojo, M. Yamamoto, R. Nishi, N. Ogasawara, T. Nakayama, and Y. Fujita. 2001. Combined transcriptome and proteome analysis as a powerful approach to study genes under glucose repression in Bacillus subtilis. Nucleic Acids Res. 29:683-692. (Pubitemid 32124379)