Regulators of nonsulfur purple phototrophic bacteria and the interactive control of CO2assimilation, nitrogen fixation, hydrogen metabolism and energy generation

FEMS Microbiology Reviews - Tập 28 - Trang 353-376 - 2004
James M. Dubbs1, F. Robert Tabita2
1Laboratory of Biotechnology, Chulabhorn Research Institute, Lak Si, Bangkok, 10210, Thailand
2Department of Microbiology and Plant Biotechnology Center, The Ohio State University, 484 West 12th Avenue, Columbus, OH 43210-1292, USA

Tài liệu tham khảo

Tabita F.R. (1988) Molecular and cellular regulation of autotrophic carbon dioxide fixation in microorganisms. Microbiol. Rev. 52, 155–189. 10.1023/A:1006211417981 Tabita, F.R. (1995) The biochemistry and metabolic regulation of carbon metabolism and CO2 fixation in purple bacteria. In: Anoxygenic Photosynthetic Bacteria (Blankenship, R.E., Madigar, M.T., Bauer, C.E., Eds.), pp.885–914 Kluwer Academic Publishers, Dordrecht, The Netherlands. Zannoni, D. (1995) Aerobic and anaerobic electron transport chains in anoxygenic phototrophic bacteria. In: Anoxygenic Photosynthetic Bacteria (Blankenship, R.E., Madigan, M.T., Bauer, C.E., Eds.), pp.885–914 Kluwer Academic Publishers, Dordrecht, The Netherlands. Hilmer P. Gest H. (1977) H2 metabolism in the photosynthetic bacterium Rhodopseudomonas capsulata: H2 production by growing cultures. J. Bacteriol. 129, 724–731. Ormerod J.G. Gest H. (1962) Symposium on metabolism of inorganic compounds. IV. Hydrogen photosynthesis and alternative metabolic pathways in photosynthetic bacteria. Bacteriol. Rev. 26, 51–66. 10.1016/0092-8674(92)90037-D Mosely C.S. Suzuky J.Y. Bauer C.E. (1994) Identification and molecular genetic characterization of a sensor kinase responsible for coordinately regulating light harvesting and reaction center gene expression in response to anaerobiosis. J. Bacteriol. 176, 7566–7573. Eraso J.M. Kaplan S. (1994) prrA, a putative response regulator involved in oxygen regulation of photosynthesis gene expression in Rhodobacter sphaeroides . J. Bacteriol. 176, 32–43. 10.1111/j.1574-6968.1994.tb06714.x Eraso J.M. Kaplan S. (1995) Oxygen-insensitive synthesis of the photosynthetic membranes of Rhodobacter sphaeroides: a mutant histidine kinase. J. Bacteriol. 177, 2695–2706. Masuda S. Masimoto Y. Nagashima K.V.P. Shimada K. Inoue K. Bauer C.E. Matsuura K. (1999) Structural and functional analyses of photosynthetic regulatory genes regA and regB from Rhodovulum sulfidophilum, Roseobacter denitrificans, and Rhodobacter capsulatus . J. Bacteriol. 181, 4205–4215. 10.1021/bi00002a002 10.1016/0092-8674(93)90267-T 10.1146/annurev.ge.26.120192.000443 10.1074/jbc.274.24.17290 10.1128/JB.183.23.6807-6814.2001 10.1074/jbc.274.23.16343 10.1128/JB.184.2.390-399.2002 10.1016/S0022-2836(02)00424-2 10.1099/13500872-141-8-1805 Eraso J.M. Kaplan S. (1996) Complex regulatory activities associated with the histidine kinase PrrB in the expression of photosynthesis genes in Rhodobacter sphaeroides 2.4.1. J. Bacteriol. 178, 7037–7046. Hemschemeier S.K. Kirndorfer M. Hebermehl M. Klug G. (2000) DNA binding of wild type RegA protein and its differential effect on the expression of pigment binding proteins in Rhodobacter capsulatus . J. Mol. Microbiol. Biotechnol. 2, 234–243. 10.1074/jbc.273.29.18509 Hemschemeier S.K. Ebel U. Jager A. Balzer A. Kirndorfer M. Klug G. (2000) In vivo and in vitro analysis of RegA response regulator mutants of Rhodobacter capsulatus . J. Mol. Microbiol. Biotechnol. 2, 291–300. Emmerich R. Panglungtshang K. Strehler P. Hennecke H. Fischer H.M. (1999) Phosphorylation, dephosphorylation and DNA-binding of the Bradyrhizobium japonicum RegSR two-component regulatory proteins. Eur. J. Biochem. 263, 455–463. Buggy J. Bauer C.E. (1995) Cloning and characterization of senC, a gene involved in both aerobic respiration and photosynthesis gene expression in Rhodobacter capsulatus . J. Bacteriol. 177, 6958–6965. Buggy J.J. Sganga M.W. Bauer C.E. (1994) Characterization of a light-responding trans-activator responsible for differentially controlling reaction center and light-harvesting-I gene expression in Rhodobacter capsulatus . J. Bacteriol. 176, 6936–6943. 10.1093/oxfordjournals.pcp.a029384 10.1016/0014-5793(93)80961-S Du S. Kouadio J.-L.K. Bauer C.E. (1999) Regulated expression of a highly conserved gene cluster is necessary for controlling photosynthesis gene expression in response to anaerobiosis in Rhodobacter capsulatus . J. Bacteriol. 181, 4334–4341. 10.1021/bi9923858 10.1093/oxfordjournals.pcp.a029205 Shapleigh J.P. Hill J.J. Alben J.O. Gennis R.B. (1992) Spectroscopic and genetic evidence for two heme-Cu-containing oxidases in Rhodobacter sphaeroides . J. Bacteriol. 174, 2338–2343. Garcia-Horsman J.A. Barquera B. Rumbley J. Ma J. Gennis R.B. (1994) The superfamily of heme-copper respiratory oxidases. J. Bacteriol. 176, 5587–5600. 10.1128/JB.183.6.2013-2024.2001 Mouncey N.J. Kaplan S. (1998) Oxygen regulation of the ccoN gene encoding a component of the cbb 3 oxidase in Rhodobacter sphaeroides 2.4.1T: involvement of the FnrL protein. J. Bacteriol. 1801, 2228–2231. Toledo-Cuevas M. Barquera B. Gennis R.B. Wikstrom M. Garcia-Horsman J.A. (1999) The cbb 3-type cytochrome c oxidase from Rhodobacter sphaeroides, a proton-pumping heme-copper oxidase. Biochim. Biophys. Acta 1365, 421–434. Zeilstra-Ryalls J.H. Kaplan S. (1996) Control of hemA expression in Rhodobacter sphaeroides 2.4.1: regulation through alterations in the cellular redox state. J. Bacteriol. 178, 985–993. O'Gara J.P. Kaplan S. (1997) Evidence for the role of redox carriers in photosynthesis gene expression and carotenoid biosynthesis in Rhodobacter sphaeroides 2.4.1. J. Bacteriol. 179, 1951–1961. O'Gara J.P. Eraso J.M. Kaplan S. (1998) A redox-responsive pathway for aerobic regulation of photosynthesis gene expression in Rhodobacter sphaeroides 2.4.1. J. Bacteriol. 180, 4044–4050. 10.1021/bi9825100 10.1128/JB.184.23.6654-6664.2002 Mouncey N.J. Kaplan S. (1998) Redox-dependent gene regulation in Rhodobacter sphaeroides 2.4.1(T): effects on dimethyl sulfoxide reductase (dor) gene expression. J. Bacteriol. 180, 5612–5618. Kappler U. Huston W.M. McEwan A.G. (2002) Control of dimethylsulfoxide reductase expression in Rhodobacter capsulatus: the role of carbon metabolites and the response regulators DorR and RegA. Microbiology 148, 605–614. 10.1093/emboj/19.16.4237 10.1128/JB.182.10.2831-2837.2000 Dubbs J.M. Tabita F.R. (2003) Interaction of the cbb II promoter operator region with CbbR and RegA (PrrA) regulators indicate distinct mechanisms to control expression of the two cbb operons of Rhodobacter sphaeroides . J. Biol. Chem. 228, 16443–16450. 10.1074/jbc.271.15.9114 Oh J.I. Kaplan S. (2002) Oxygen adaptation: the role of the CcoQ subunit of the cbb 3 cytochrome c oxidase of Rhodobacter sphaeroides 2.4.1. J. Biol. Chem. 277, 16620–16628. 10.1128/JB.182.12.3475-3481.2000 10.1006/jmbi.2000.3555 10.1007/s002030050330 10.1128/JB.184.19.5330-5338.2002 10.1007/BF00321109 10.1074/jbc.271.34.20531 10.1016/S0014-5793(02)02532-2 Gibson J.L. Falcone D.L. Tabita F.R. (1991) Nucleotide sequence, transcriptional analysis and expression of genes encoded within the form I CO2 fixation operon of Rhodobacter sphaeroides . J. Biol. Chem. 266, 14646–14653. Chen J.H. Gibson J.L. McCue L.A. Tabita F.R. (1991) Identification, expression, and deduced primary structure of transketolase and other enzymes encoded within the form II CO2 fixation operon of Rhodobacter sphaeroides . J. Biol. Chem. 266, 20447–20452. Gibson, J.L. (1995) Genetic analysis of CO2 fixation genes. In: Anoxygenic Photosynthetic Bacteria (Blankenship, R.E., Madigan, M.T., Bauer, C.E., Eds.), pp.1107–1124 Kluwer Academic Publishers, Dordrecht, The Netherlands. 10.1007/s002030050609 Falcone D.A. Tabita F.R. (1991) Expression of endogenous and foreign ribulose-1,5- bisphosphate carboxylase-oxygenase (RubisCO) genes in a RubisCO deletion mutant of Rhodobacter sphaeroides . J. Bacteriol. 173, 2099–2108. Gibson J.L. Tabita F.R. (1977) Different molecular forms of ribulose-1,5-bisphosphate carboxylase from Rhodopseudomonas sphaeroides . J. Biol. Chem. 252, 943–949. Hallenbeck P.L. Lerchen R. Hessler P. Kaplan S. (1990) Roles of CfxA, CfxB, and external electron acceptors in regulation of ribulose 1,5-bisphosphate carboxylase/oxygenase in Rhodobacter sphaeroides . J. Bacteriol. 172, 1736–1748. Hallenbeck P.L. Lerchen R. Hessler P. Kaplan S. (1990) Phosphoribulokinase activity and regulation of CO2 fixation critical for photosynthetic growth of Rhodobacter sphaeroides . J. Bacteriol. 172, 1749–1761. Jouanneau Y. Tabita F.R. (1986) Independent regulation of synthesis of form I and form II ribulose bisphosphate carboxylase-oxygenase in Rhodopseudomonas sphaeroides . J. Bacteriol. 165, 620–624. Gibson J.L. Tabita F.R. (1993) Nucleotide sequence and functional analysis of CbbR, a positive regulator of the Calvin cycle operons of Rhodobacter sphaeroides . J. Bacteriol. 175, 5778–5784. Dubbs J.M. Tabita F.R. (1998) Two functionally distinct regions upstream of the cbb I operon of Rhodobacter sphaeroides regulate gene expression. J. Bacteriol. 180, 4903–4911. Qian Y. Tabita F.R. (1996) A global signal transduction system regulates aerobic and anaerobic CO2 fixation in Rhodobacter sphaeroides . J. Bacteriol. 178, 12–18. Qian, Y. (1997) Coordinate regulation of carbon fixation and nitrogen assimilation in Rhodobacter sphaeroides. Ph.D. Thesis, Ohio State University 10.1074/jbc.M002125200 10.1007/s002030050281 10.1099/00221287-144-1-219 Paoli G.C. Vichivanives P. Tabita F.R. (1998) Physiological control and regulation of the Rhodobacter capsulatus cbb operons. J. Bacteriol. 180, 4258–4269. 10.1006/jmbi.2000.3914 Bauer, C.E. (1995) Regulation of photosynthesis gene expression. In: Anoxygenic Photosynthetic Bacteria (Blankenship, R.E., Madigan, M.T., Bauer, C.E., Eds.), pp.885–914 Kluwer Academic Publishers, Dordrecht, The Netherlands. Dong, C., Elsen, S., Swem, L.R., Bauer, C.E. AerR, a second aerobic repressor of photosynthesis gene expression in Rhodobacter capsulatus. J. Bacteriol. 2002. 184,2805–2814 Ponnampalam S.N. Buggy J.J. Bauer C.E. (1995) Characterization of an aerobic repressor that coordinately regulates bacteriochlorophyll, carotenoid, and light harvesting II expression in Rhodobacter capsulatus . J. Bacteriol. 177, 2990–2997. 10.1007/s004380050734 Penfold R.J. Pemberton J.M. (1994) Sequencing, chromosomal inactivation, and functional expression in Escherichia coli of ppsR a gene which represses carotenoid and bacteriochlorophyll synthesis in Rhodobacter sphaeroides . J. Bacteriol. 176, 2869–2876. 10.1099/mic.0.25972-0 Zeilstra-Ryalls, J.H., Kaplan, S. Role of the fnrL gene in photosystem gene expression and photosynthetic growth of Rhodobacter sphaeroides 2.4.1. J. Bacteriol. 1998. 180,2801–2809 10.1093/oxfordjournals.pcp.a028974 10.1046/j.1365-2958.1999.01490.x 10.1074/jbc.273.46.30757 10.1074/jbc.272.29.18391 10.1074/jbc.273.46.30762 Gomelsky M. Kaplan S. (1995) Genetic evidence that PpsR from Rhodobacter sphaeroides 2.4.1 functions as a repressor of puc and bchF expression. J. Bacteriol. 177, 1634–1637. 10.1073/pnas.102013099 Gomelsky M. Kaplan S. (1997) Molecular genetic analysis suggesting interactions between AppA and PpsR in regulation of photosynthesis gene expression in Rhodobacter sphaeroides 2.4.1. J. Bacteriol. 179, 128–134. 10.1016/S0092-8674(02)00876-0 10.1046/j.1365-2958.2002.03058.x Lee J.K. Wang S. Eraso J.M. Gardner J. Kaplan S. (1993) Transcriptional regulation of puc operon expression in Rhodobacter sphaeroides. Involvement of an integration host factor-binding sequence. J. Biol. Chem. 268, 24491–24497. Lee J.K. Kaplan S. (1992) Isolation and characterization of trans-acting mutations involved in oxygen regulation of puc operon transcription in Rhodobacter sphaeroides . J. Bacteriol. 174, 1158–1171. Schilke B.A. Donohue T.J. (1995) ChrR positively regulates transcription of the Rhodobacter sphaeroides cytochrome c 2 gene. J. Bacteriol. 177, 1929–1937. 10.1046/j.1365-2958.1999.01649.x 10.1006/jmbi.2001.4652 Swem D.L. Bauer C.E. (2002) Coordination of ubiquinol oxidase and cytochrome cbb 3 oxidase expression by multiple regulators in Rhodobacter capsulatus . J. Bacteriol. 185, 2815–2820. Koch H.-G. Hwuang O. Daldal F. (1998) Isolation and characterization of Rhodobacter capsulatus mutants affected in cytochrome cbb 3 oxidase activity. J. Bacteriol. 180, 969–978. Kranz, R.G., Cullen, P.J. (1995) Regulation of nitrogen fixation genes. In: Anoxygenic Photosynthetic Bacteria (Blankenship, R.E., Madigan, M.T., Bauer, C.E., Eds.), pp.885–914 Kluwer Academic Publishers, Dordrecht, The Netherlands. Masepohl B. Drepper T. Paschen A. Gross S. Pawlowski A. Raabe K. Riedel K.U. Klipp W. (2002) Regulation of nitrogen fixation in the phototrophic purple bacterium Rhodobacter capsulatus . J. Mol. Microbiol. Biotechnol. 4, 243–248. 10.1093/nar/16.5.2207 10.1073/pnas.93.25.14515 Foster-Hartnett D. Cullen P.J. Monika E.M. Kranz R.G. (1994) A new type of NtrC transcriptional activator. J. Bacteriol. 176, 6175–6187. 10.1128/JB.184.13.3521-3529.2002 10.1006/jmbi.1998.1900 10.1128/JB.184.20.5590-5598.2002 10.1046/j.1365-2958.1999.01660.x Toussaint B. Delic-Attree I. De Sury D'Aspremont R. David L. Vincon M. Vignais P.M. (1993) Purification of the integration host factor homolog of Rhodobacter capsulatus: cloning and sequencing of the hip gene, which encodes the beta subunit. J. Bacteriol. 175, 6499–6504. Mouncey N.J. Choudhary M. Kaplan S. (1997) Characterization of genes encoding dimethyl sulfide reductase of Rhodobacter sphaeroides 2.4.1: an essential metabolic gene function encoded on chromosome II. J. Bacteriol. 179, 7617–7624. 10.1099/13500872-145-6-1409 Mouncey N.J. Kaplan S. (1998) Cascade regulation of dimethyl sulfoxide reductase (dor) gene expression in the facultative phototroph Rhodobacter sphaeroides 2.4.1. J. Bacteriol. 180, 2924–2930. Tosques I.E. Shi J. Shapleigh J.P. (1996) Cloning and characterization of nnrR whose product is required for the expression of proteins involved in nitric oxide metabolism in Rhodobacter sphaeroides 2.4.3. J. Bacteriol. 178, 4958–4964. Tosques I.E. Kwiatkowski A.V. Shi J. Shapleigh J.P. (1997) Characterization and regulation of the gene encoding nitrite reductase in Rhodobacter sphaeroides 2.4.3. J. Bacteriol. 179, 1090–1095. Jain R. Shapleigh J.P. (2001) Characterization of nirV and a gene encoding a novel pseudoazurin in Rhodobacter sphaeroides 2.4.3. Microbiology 147, 2505–2515. Barber R.D. Donohue T.J. (1996) Characterization of a glutathione-dependent formaldehyde dehydrogenase from Rhodobacter sphaeroides . J. Bacteriol. 178, 1386–1393. 10.1007/s002030000207 10.1093/nar/28.21.4166 Bauer E. Kaspar T. Fischer H.M Hennecke H. (1998) Expression of the fixR-nifA operon in Bradyrhizobium japonicum depends on a new response regulator, RegR. J. Bacteriol. 180, 3853–3863. Fenner, B.J., Tiwari, R.P., Reeve, W.G., Dilworth, M.J., Glenn, A.R. (2000) ActR is a global genetic regulator in Sinorhizobium meliloti. In: Nitrogen Fixation: From Molecules to Crop Productivity (Pedrosa, F.O., Hungria, M., Yates, G., Newton, W.E., Eds.), pp.89–90 Kluwer Academic Publishers, London UK. 10.1099/13500872-142-7-1693 10.1111/j.1365-2958.2001.02299.x Vichivanives, P. (2000) Transcriptional regulation of the Rhodobacter capsulatus CO2 fixation operons. Ph.D. Thesis, Ohio State University Kern M. Kamp P.B. Paschen A. Masepohl B. Klipp W. (1998) Evidence for a regulatory link of nitrogen fixation and photosynthesis in Rhodobacter capsulatus via HvrA. J. Bacteriol. 180, 1965–1969. 10.1111/j.1574-6968.2002.tb11429.x 10.1046/j.1365-2958.1999.01176.x 10.1007/BF00273600 10.1111/j.1365-2958.1991.tb01974.x 10.1016/S0092-8674(00)81074-0 Xu H.H. Tabita F.R. (1994) Positive and negative regulation of sequences upstream of the form II cbb CO2 fixation operon of Rhodobacter sphaeroides . J. Bacteriol. 176, 7299–7308. 10.1111/j.1574-6976.1997.tb00348.x 10.1146/annurev.micro.52.1.191 Schell, M.A. (1993) Molecular feiology of the LysR family of transcriptional regulators. Annu. Rev. Microbiol 10.1007/BF00402127 10.1128/JB.184.7.1905-1915.2002 10.1128/JB.183.21.6344-6354.2001 10.1128/JB.184.23.6721-6724.2002 Van Keulen G. Girbal L. Van den Bergh E.R.E. Dijkhuizen L. Meijer W.G. (1998) The LysR-type transcriptional regulator CbbR controlling autotrophic CO2 fixation by Xanthobacter flavis is an NADPH-sensor. J. Bacteriol. 180, 1411–1417. 10.1159/000171753 Wang X. Falcone D.L. Tabita F.R. (1993) Reductive pentose phosphate-independent CO2 fixation in Rhodobacter sphaeroides and evidence that ribulose bisphosphate carboxylase/oxygenase activity serves to maintain the redox balance of the cell. J. Bacteriol. 175, 3372–3379.