Light-dependent gene regulation in nonphototrophic bacteria

Current Opinion in Microbiology

Volumn 14, Issue 2, 2011, Pages 128-135

  Elías Arnanz, Montserrat ^a   Padmanabhan, S ^b   Murillo, Francisco J ^a  

^a UNIVERSITY OF MURCIA   (Spain)

^b INSTITUTO DE QUÍMICA FÍSICA ROCASOLANO   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; DNA BINDING PROTEIN; PROTEIN RSBV; RNA POLYMERASE; RSBR PROTEIN; RSBT PROTEIN; RSBU PROTEIN; UNCLASSIFIED DRUG;

AUTOPHOSPHORYLATION; BACILLUS SUBTILIS; BACTERIAL GENE; BIOSYNTHESIS; BLUE LIGHT; CARA GENE; CARD GENE; CARF GENE; CARH GENE; CARQ GENE; CARR GENE; CARS GENE; ESCHERICHIA COLI; GENE CONTROL; GENE EXPRESSION; GENE INACTIVATION; GENETIC ASSOCIATION; MYXOCOCCUS XANTHUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PROTEIN PROTEIN INTERACTION; REVIEW; SIGNAL TRANSDUCTION; STIGMATELLA AURANTIACA; YCGE GENE; YCGF GENE; YTVA GENE;

BACTERIA; GENE EXPRESSION REGULATION, BACTERIAL; LIGHT; SIGNAL TRANSDUCTION;

HARNESS; PHOTOBACTERIA;

EID: 79954595314     PISSN: 13695274     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mib.2010.12.009     Document Type: Review

References (59)

1. Ziegelhoffer E.C., Donohue T.J. Bacterial responses to photo-oxidative stress. Nat Rev Microbiol 2009, 7:856-863.
2. Sancar A. Structure and function of photolyase and in vivo enzymology: 50th anniversary. J Biol Chem 2008, 283:32153-32157.
3. Purcell E.B., Crosson S. Photoregulation in prokaryotes. Curr Opin Microbiol 2008, 11:168-178.
4. van der Horst M.A., Key J., Hellingwerf K.J. Photosensing in chemotrophic, non-phototrophic bacteria: let there be light sensing too. Trends Microbiol 2007, 15:554-562.
5. Montgomery B.L. Sensing the light: photoreceptive systems and signal transduction in cyanobacteria. Mol Microbiol 2007, 64:16-27.
6. Bauer C., Elsen S., Swem L.R., Swem D.L., Masuda S. Redox and light regulation of gene expression in photosynthetic prokaryotes. Philos Trans R Soc Lond B Biol Sci 2003, 358:147-153.
7. Losi A., Gartner W. Bacterial bilin- and flavin-binding photoreceptors. Photochem Photobiol Sci 2008, 7:1168-1178.
8. Fuhrman J.A., Schwalbach M.S., Stingl U. Proteorhodopsins: an array of physiological roles?. Nat Rev Microbiol 2008, 6:488-494.
9. Muller M., Carell T. Structural biology of DNA photolyases and cryptochromes. Curr Opin Struct Biol 2009, 19:277-285.
10. Burchard R.P., Dworkin M. Light-induced lysis and carotenogenesis in Myxococcus xanthus. J Bacteriol 1966, 91:535-545.
11. Elías-Arnanz M., Fontes M., Padmanabhan S. Carotenogenesis in Myxococcus xanthus: a complex regulatory network. Myxobacteria Multicellularity and Differentiation 2008, 211-225. ASM Press. D.E. Whitworth (Ed.).
12. Balsalobre J.M., Ruiz-Vazquez R.M., Murillo F.J. Light induction of gene expression in Myxococcus xanthus. Proc Natl Acad Sci U S A 1987, 84:2359-2362.
13. Elías-Arnanz M., Padmanabhan S., Murillo F.J. The regulatory action of the myxobacterial CarD/CarG complex: a bacterial enhanceosome?. FEMS Microbiol Rev 2010, 34:764-778.
14. Gorham H.C., McGowan S.J., Robson P.R., Hodgson D.A. Light-induced carotenogenesis in Myxococcus xanthus: light-dependent membrane sequestration of ECF sigma factor CarQ by anti-sigma factor CarR. Mol Microbiol 1996, 19:171-186.
15. Browning D.F., Whitworth D.E., Hodgson D.A. Light-induced carotenogenesis in Myxococcus xanthus: functional characterization of the ECF sigma factor CarQ and antisigma factor CarR. Mol Microbiol 2003, 48:237-251.
16. Martínez-Argudo I., Ruiz-Vázquez R.M., Murillo F.J. The structure of an ECF-sigma-dependent, light-inducible promoter from the bacterium Myxococcus xanthus. Mol Microbiol 1998, 30:883-893.
17. Fontes M., Ruiz-Vázquez R., Murillo F.J. Growth phase dependence of the activation of a bacterial gene for carotenoid synthesis by blue light. EMBO J 1993, 12:1265-1275.
18. O'Connor K.A., McBride M.J., West M., Yu H., Trinh L., Yuan K., Lee T., Zusman D.R. Photolyase of Myxococcus xanthus, a Gram-negative eubacterium, is more similar to photolyases found in Archaea and 'higher' eukaryotes than to photolyases of other eubacteria. J Biol Chem 1996, 271:6252-6259.
19. Fontes M., Galbis-Martínez L., Murillo F.J. A novel regulatory gene for light-induced carotenoid synthesis in the bacterium Myxococcus xanthus. Mol Microbiol 2003, 47:561-571.
20. Galbis-Martínez L., Galbis-Martínez M., Murillo F.J., Fontes M. An anti-antisigma factor in the response of the bacterium Myxococcus xanthus to blue light. Microbiology 2008, 154:895-904.
21. Gao J., Ajjawi I., Manoli A., Sawin A., Xu C., Froehlich J.E., Last R.L., Benning C. FATTY ACID DESATURASE4 of Arabidopsis encodes a protein distinct from characterized fatty acid desaturases. Plant J 2009, 60:832-839.
22. Moraleda-Muñoz A., Pérez J., Fontes M., Murillo F.J., Muñoz-Dorado J. Copper induction of carotenoid synthesis in the bacterium Myxococcus xanthus. Mol Microbiol 2005, 56:1159-1168.
23. Browning D.F., Grainger D.C., Busby S.J. Effects of nucleoid-associated proteins on bacterial chromosome structure and gene expression. Curr Opin Microbiol 2010, 13:773-780.
24. García-Heras F., Padmanabhan S., Murillo F.J., Elías-Arnanz M. Functional equivalence of HMGA- and histone H1-like domains in a bacterial transcriptional factor. Proc Natl Acad Sci U S A 2009, 106:13546-13551.
25. López-Rubio J.J., Padmanabhan S., Lázaro J.M., Salas M., Murillo F.J., Elías-Arnanz M. Operator design and mechanism for CarA repressor-mediated down-regulation of the photoinducible carB operon in Myxococcus xanthus. J Biol Chem 2004, 279:28945-28953.
26. Navarro-Avilés G., Jiménez M.A., Pérez-Marín M.C., González C., Rico M., Murillo F.J., Elías-Arnanz M., Padmanabhan S. Structural basis for operator and antirepressor recognition by Myxococcus xanthus CarA repressor. Mol Microbiol 2007, 63:980-994.
27. Pérez-Marín M.C., Padmanabhan S., Polanco M.C., Murillo F.J., Elías-Arnanz M. Vitamin B12 partners the CarH repressor to downregulate a photoinducible promoter in Myxococcus xanthus. Mol Microbiol 2008, 67:804-819.
28. León E., Navarro-Avilés G., Santiveri C.M., Flores-Flores C., Rico M., González C., Murillo F.J., Elías-Arnanz M., Jiménez M.A., Padmanabhan S. A bacterial antirepressor with SH3 domain topology mimics operator DNA in sequestering the repressor DNA recognition helix. Nucleic Acids Res 2010, 38:5226-5241.
29. Taylor B.L., Koshland D.E. Intrinsic and extrinsic light responses of Salmonella typhimurium and Escherichia coli. J Bacteriol 1975, 123:557-569.
30. Yang H., Inokuchi H., Adler J. Phototaxis away from blue light by an Escherichia coli mutant accumulating protoporphyrin IX. Proc Natl Acad Sci U S A 1995, 92:7332-7336.
31. Gomelsky M., Klug G. BLUF: a novel FAD-binding domain involved in sensory transduction in microorganisms. Trends Biochem Sci 2002, 27:497-500.
32. Tschowri N., Busse S., Hengge R. The BLUF-EAL protein YcgF acts as a direct anti-repressor in a blue-light response of Escherichia coli. Genes Dev 2009, 23:522-534.
33. Hasegawa K., Masuda S., Ono T.A. Light induced structural changes of a full-length protein and its BLUF domain in YcgF(Blrp), a blue-light sensing protein that uses FAD (BLUF). Biochemistry 2006, 45:3785-3793.
34. Nakasone Y., Ono T.A., Ishii A., Masuda S., Terazima M. Transient dimerization and conformational change of a BLUF protein: YcgF. J Am Chem Soc 2007, 129:7028-7035.
35. Schroeder C., Werner K., Otten H., Kratzig S., Schwalbe H., Essen L.O. Influence of a joining helix on the BLUF domain of the YcgF photoreceptor from Escherichia coli. Chembiochem 2008, 9:2463-2473.
36. Barends T.R., Hartmann E., Griese J.J., Beitlich T., Kirienko N.V., Ryjenkov D.A., Reinstein J., Shoeman R.L., Gomelsky M., Schlichting I. Structure and mechanism of a bacterial light-regulated cyclic nucleotide phosphodiesterase. Nature 2009, 459:1015-1018.
37. Wu Q., Gardner K.H. Structure and insight into blue light-induced changes in the BlrP1 BLUF domain. Biochemistry 2009, 48:2620-2629.
38. Propst-Ricciuti C., Lubin L.B. Light-induced inhibition of sporulation in Bacillus licheniformis. J Bacteriol 1976, 128:506-509.
39. Akbar S., Gaidenko T.A., Kang C.M., O'Reilly M., Devine K.M., Price C.W. New family of regulators in the environmental signaling pathway which activates the general stress transcription factor sigma(B) of Bacillus subtilis. J Bacteriol 2001, 183:1329-1338.
40. Losi A., Polverini E., Quest B., Gartner W. First evidence for phototropin-related blue-light receptors in prokaryotes. Biophys J 2002, 82:2627-2634.
41. Losi A. The bacterial counterparts of plant phototropins. Photochem Photobiol Sci 2004, 3:566-574.
42. Jurk M., Dorn M., Kikhney A., Svergun D., Gartner W., Schmieder P. The switch that does not flip: the blue-light receptor YtvA from Bacillus subtilis adopts an elongated dimer conformation independent of the activation state as revealed by a combined AUC and SAXS study. J Mol Biol 2010, 403:78-87.
43. Tang Y., Cao Z., Livoti E., Krauss U., Jaeger K.E., Gartner W., Losi A. Interdomain signalling in the blue-light sensing and GTP-binding protein YtvA: a mutagenesis study uncovering the importance of specific protein sites. Photochem Photobiol Sci 2010, 9:47-56.
44. Buttani V., Losi A., Eggert T., Krauss U., Jaeger K.E., Cao Z., Gartner W. Conformational analysis of the blue-light sensing protein YtvA reveals a competitive interface for LOV-LOV dimerization and interdomain interactions. Photochem Photobiol Sci 2007, 6:41-49.
45. Marles-Wright J., Lewis R.J. Stress responses of bacteria. Curr Opin Struct Biol 2007, 17:755-760.
46. Marles-Wright J., Grant T., Delumeau O., van Duinen G., Firbank S.J., Lewis P.J., Murray J.W., Newman J.A., Quin M.B., Race P.R., et al. Molecular architecture of the 'stressosome' a signal integration and transduction hub. Science 2008, 322:92-96.
47. Avila-Perez M., Hellingwerf K.J., Kort R. Blue light activates the sigmaB-dependent stress response of Bacillus subtilis via YtvA. J Bacteriol 2006, 188:6411-6414.
48. Gaidenko T.A., Kim T.J., Weigel A.L., Brody M.S., Price C.W. The blue-light receptor YtvA acts in the environmental stress signaling pathway of Bacillus subtilis. J Bacteriol 2006, 188:6387-6395.
49. Suzuki N., Takaya N., Hoshino T., Nakamura A. Enhancement of a sigma(B)-dependent stress response in Bacillus subtilis by light via YtvA photoreceptor. J Gen Appl Microbiol 2007, 53:81-88.
50. Avila-Perez M., van der Steen J.B., Kort R., Hellingwerf K.J. Red light activates the sigmaB-mediated general stress response of Bacillus subtilis via the energy branch of the upstream signaling cascade. J Bacteriol 2010, 192:755-762.
51. Qualls G.T., Stephens K., White D. Light-stimulated morphogenesis in the fruiting myxobacterium Stigmatella aurantiaca. Science 1978, 201:444-445.
52. Li S., Lee B.U., Shimkets L.J. csgA expression entrains Myxococcus xanthus development. Genes Dev 1992, 6:401-410.
53. Takano H., Obitsu S., Beppu T., Ueda K. Light-induced carotenogenesis in Streptomyces coelicolor A3(2): identification of an extracytoplasmic function sigma factor that directs photodependent transcription of the carotenoid biosynthesis gene cluster. J Bacteriol 2005, 187:1825-1832.
54. Swartz T.E., Tseng T.S., Frederickson M.A., Paris G., Comerci D.J., Rajashekara G., Kim J.G., Mudgett M.B., Splitter G.A., Ugalde R.A., et al. Blue-light-activated histidine kinases: two-component sensors in bacteria. Science 2007, 317:1090-1093.
55. Davis S.J., Vener A.V., Vierstra R.D. Bacteriophytochromes: phytochrome-like photoreceptors from nonphotosynthetic eubacteria. Science 1999, 286:2517-2520.
56. Li H., Zhang J., Vierstra R.D. Quaternary organization of a phytochrome dimer as revealed by cryoelectron microscopy. Proc Natl Acad Sci U S A 2010, 107:10872-10877.
57. Yang X., Kuk J., Moffat K. Crystal structure of Pseudomonas aeruginosa bacteriophytochrome: photoconversion and signal transduction. Proc Natl Acad Sci U S A 2008, 105:14715-14720.
58. Jentzsch K., Wirtz A., Circolone F., Drepper T., Losi A., Gartner W., Jaeger K.E., Krauss U. Mutual exchange of kinetic properties by extended mutagenesis in two short LOV domain proteins from Pseudomonas putida. Biochemistry 2009, 48:10321-10333.
59. Moglich A., Ayers R.A., Moffat K. Design and signaling mechanism of light-regulated histidine kinases. J Mol Biol 2009, 385:1433-1444.