PROKARYOTIC GENE REGULATION BY LIGHT AND OXYGEN

Summary

Principal Investigator: CARL EUGENE BAUER
Affiliation: Indiana University
Country: USA
Abstract: [unreadable] DESCRIPTION (provided by applicant): Alteration in oxygen tension affects gene expression in all cell types. In bacterial systems, oxygen regulates a variety of genes involved in aerobic versus anaerobic energy metabolism. Metabolic processes such as carbon fixation, nitrogen fixation, respiration and photosynthesis are regulated in response to the presence or absence of oxygen. In yeast and algal cells, oxygen is known to affect transcription of oxidative defense genes as well as metabolic enzymes. In mammalian cells, a growing number of genes are known to be oxygen regulated such as vascular growth factors that are key regulators for the synthesis of new capillary sprouts from preexisting vessels. Besides physiological roles, these growth factors are involved in disease processes such as the stimulation of capillary formation during tumor growth. This proposal is centered on elucidating molecular details of how bacteria Rhodobacter capsulatus and Rhodobacter sphaeroides are able to sense changes in oxygen tension, and in response, alter gene expression. These related species are capable of growth in a variety of energy generating modes including aerobic respiration, anaerobic fermentation and photosynthesis. The expression of genes involved in each of these processes are affected by alterations in oxygen tension, as well as by variations in light intensity. Regulation of cell physiology by light is also known to occur in a number of organisms ranging from bacterial to mammals and is a second process that is studied by this proposal. Indeed, one of the key oxygen regulated transcription factors studied in this proposal is also regulated by light intensity. As a model system for studying both oxygen and light regulation of gene expression, we have focused on the process of tetrapyrrole biosynthesis. This pathway is highly regulated by oxygen and light intensity and is responsible for the production of such important metabolites as B12, heme and chlorophylls. [unreadable] [unreadable] [unreadable]
Funding Period: 1989-12-01 - 2011-03-31
more information: NIH RePORT

Top Publications

  1. pmc Identification of a ubiquinone-binding site that affects autophosphorylation of the sensor kinase RegB
    Lee R Swem
    Department of Biology, Indiana University, Bloomington, Indiana 47405, USA
    J Biol Chem 281:6768-75. 2006
  2. pmc Vitamin B12 regulates photosystem gene expression via the CrtJ antirepressor AerR in Rhodobacter capsulatus
    Zhuo Cheng
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN, 47405, USA
    Mol Microbiol 91:649-64. 2014
  3. pmc The LysR-type transcription factor HbrL is a global regulator of iron homeostasis and porphyrin synthesis in Rhodobacter capsulatus
    Sébastien Zappa
    Department of Molecular and Cellular Biochemistry, Indiana University, Simon Hall, 212 S Hawthorne Dr, Bloomington, IN, 47405, USA
    Mol Microbiol 90:1277-92. 2013
  4. pmc Redox and light control the heme-sensing activity of AppA
    Liang Yin
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana, USA
    MBio 4:e00563-13. 2013
  5. pmc Controlling the delicate balance of tetrapyrrole biosynthesis
    Liang Yin
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN 47405, USA
    Philos Trans R Soc Lond B Biol Sci 368:20120262. 2013
  6. pmc RegB kinase activity is repressed by oxidative formation of cysteine sulfenic acid
    Jiang Wu
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana 47405, USA
    J Biol Chem 288:4755-62. 2013
  7. pmc Activity of the tetrapyrrole regulator CrtJ is controlled by oxidation of a redox active cysteine located in the DNA binding domain
    Zhuo Cheng
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN 47405, USA
    Mol Microbiol 85:734-46. 2012
  8. pmc A Q63E Rhodobacter sphaeroides AppA BLUF domain mutant is locked in a pseudo-light-excited signaling state
    Vladimira Dragnea
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana 47405, United States
    Biochemistry 49:10682-90. 2010
  9. pmc Tetrapyrrole biosynthesis in Rhodobacter capsulatus is transcriptionally regulated by the heme-binding regulatory protein, HbrL
    James L Smart
    Department of Biology, Indiana University, Bloomington, Indiana 47405, USA
    J Bacteriol 188:1567-76. 2006
  10. pmc Purification and assays of Rhodobacter capsulatus RegB-RegA two-component signal transduction system
    Lee R Swem
    Department of Molecular Biology, Princeton University, Princeton, New Jersey, USA
    Methods Enzymol 422:171-83. 2007

Scientific Experts

  • Sébastien Zappa
  • Carl E Bauer
  • Vladimira Dragnea
  • Liang Yin
  • Zhuo Cheng
  • Hua Yuan
  • Jonathan A Karty
  • Loubna A Hammad
  • Jiang Wu
  • Lee R Swem
  • Shinji Masuda
  • Khalilah Reddie
  • Kate Carroll
  • David P Giedroc
  • Alphonse I Arunkumar
  • Jin Xiong
  • James L Smart
  • Keran Li
  • Charles E Dann
  • George Feldman
  • Aaron Setterdahl
  • Kevin H Gardner
  • Qiong Wu
  • Chul Won Lee
  • James Berleman
  • Ben M Hasselbring
  • Danielle L Swem
  • Anjly Pancholy
  • Chang An Yu
  • Keith Moffat
  • Carl Bauer
  • Spencer Anderson
  • Xing Gong

Detail Information

Publications19

  1. pmc Identification of a ubiquinone-binding site that affects autophosphorylation of the sensor kinase RegB
    Lee R Swem
    Department of Biology, Indiana University, Bloomington, Indiana 47405, USA
    J Biol Chem 281:6768-75. 2006
    ....
  2. pmc Vitamin B12 regulates photosystem gene expression via the CrtJ antirepressor AerR in Rhodobacter capsulatus
    Zhuo Cheng
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN, 47405, USA
    Mol Microbiol 91:649-64. 2014
    ..This study thus provides a mechanism for how the essential tetrapyrrole, cobalamin controls the synthesis of bacteriochlorophyll, an essential component of the photosystem. ..
  3. pmc The LysR-type transcription factor HbrL is a global regulator of iron homeostasis and porphyrin synthesis in Rhodobacter capsulatus
    Sébastien Zappa
    Department of Molecular and Cellular Biochemistry, Indiana University, Simon Hall, 212 S Hawthorne Dr, Bloomington, IN, 47405, USA
    Mol Microbiol 90:1277-92. 2013
    ..Finally, HbrL activates the expression of numerous haem biosynthesis genes. Thus, HbrL has a central role in controlling the amount of iron transport in conjunction with the synthesis of its cognate tetrapyrrole haem. ..
  4. pmc Redox and light control the heme-sensing activity of AppA
    Liang Yin
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana, USA
    MBio 4:e00563-13. 2013
    ..These results demonstrate that light, redox, and heme are integrated inputs that control AppA's ability to disrupt the DNA binding activity of PpsR...
  5. pmc Controlling the delicate balance of tetrapyrrole biosynthesis
    Liang Yin
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN 47405, USA
    Philos Trans R Soc Lond B Biol Sci 368:20120262. 2013
    ..The mechanism of regulating haem and chlorophyll synthesis has been studied intensively in Rhodobacter species and will be discussed...
  6. pmc RegB kinase activity is repressed by oxidative formation of cysteine sulfenic acid
    Jiang Wu
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana 47405, USA
    J Biol Chem 288:4755-62. 2013
    ..Cys-265 thus functions as a complex redox switch that can form multiple thiol modifications in response to different redox signals to control the kinase activity of RegB...
  7. pmc Activity of the tetrapyrrole regulator CrtJ is controlled by oxidation of a redox active cysteine located in the DNA binding domain
    Zhuo Cheng
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, IN 47405, USA
    Mol Microbiol 85:734-46. 2012
    ..These results provide the first example where sulfenic acid oxidation of a cysteine in a HTH-motif leads to differential effects on gene expression...
  8. pmc A Q63E Rhodobacter sphaeroides AppA BLUF domain mutant is locked in a pseudo-light-excited signaling state
    Vladimira Dragnea
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana 47405, United States
    Biochemistry 49:10682-90. 2010
    ..The significance of these findings on the mechanism of light-induced output signaling is discussed...
  9. pmc Tetrapyrrole biosynthesis in Rhodobacter capsulatus is transcriptionally regulated by the heme-binding regulatory protein, HbrL
    James L Smart
    Department of Biology, Indiana University, Bloomington, Indiana 47405, USA
    J Bacteriol 188:1567-76. 2006
    ..Electrophoretic gel shift analysis demonstrated that HbrL binds the promoter region of hemA, hemB, and hemZ as well as its own promoter and that the presence of heme increases the binding affinity of HbrL to hemB...
  10. pmc Purification and assays of Rhodobacter capsulatus RegB-RegA two-component signal transduction system
    Lee R Swem
    Department of Molecular Biology, Princeton University, Princeton, New Jersey, USA
    Methods Enzymol 422:171-83. 2007
    ..In addition we describe the overexpression and purification of the cognate response regulator RegA and a technique used to visualize the phosphotransfer reaction from RegB to RegA...
  11. pmc Insight into the haem d1 biosynthesis pathway in heliobacteria through bioinformatics analysis
    Jin Xiong
    Department of Biology, Texas A and M University, College Station, TX 77843, USA
    Microbiology 153:3548-62. 2007
    ....
  12. pmc Regulation of aerobic photosystem synthesis in the purple bacterium Rhodospirillum centenum by CrtJ and AerR
    Shinji Masuda
    Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, Yokohama, 226 8501, Japan
    Photochem Photobiol Sci 7:1267-72. 2008
    ..centenum. We suggest that AerR and CrtJ regulate aerobic photosystem synthesis primarily through controlling activity of the transcriptional readthrough...
  13. pmc PpsR, a regulator of heme and bacteriochlorophyll biosynthesis, is a heme-sensing protein
    Liang Yin
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana 47405, USA
    J Biol Chem 287:13850-8. 2012
    ..Thus, PpsR functions as both a redox and heme sensor to coordinate the amount of heme, bacteriochlorophyll, and photosystem apoprotein synthesis thereby providing fine tune control to avoid excess free tetrapyrrole accumulation...
  14. pmc Mutational and structural studies of the PixD BLUF output signal that affects light-regulated interactions with PixE
    Hua Yuan
    Department of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana 47405, USA
    Biochemistry 50:6365-75. 2011
    ....
  15. pmc The tetrapyrrole biosynthetic pathway and its regulation in Rhodobacter capsulatus
    Sébastien Zappa
    Biology Department, Indiana University, Bloomington, IN 47405, USA
    Adv Exp Med Biol 675:229-50. 2010
    ..Finally, the interdependence of the tetrapyrrole branches on each other synthesis is discussed...
  16. pmc Spectroscopic studies of the AppA BLUF domain from Rhodobacter sphaeroides: addressing movement of tryptophan 104 in the signaling state
    Vladimira Dragnea
    Departments of Molecular and Cellular Biochemistry, Indiana University, Bloomington, Indiana 47405, USA
    Biochemistry 48:9969-79. 2009
    ..These results do not support a model of Trp104 movement as a key output signal...
  17. pmc Crystal structures of the Synechocystis photoreceptor Slr1694 reveal distinct structural states related to signaling
    Hua Yuan
    Department of Biology, Indiana University, Bloomington, Indiana 47405, USA
    Biochemistry 45:12687-94. 2006
    ..These different tertiary structures may be associated with absorption changes in the blue region of the spectrum...