Characterization of genes encoding dimethyl sulfoxide reductase of Rhodobacter sphaeroides 2.4.1T: an essential metabolic gene function encoded on chromosome II

Rhodobacter sphaeroides 2.4.1T is a purple nonsulfur facultative phototrophic bacterium which exhibits remarkable metabolic diversity as well as genomic complexity. Under anoxic conditions, in the absence of light and the presence of dimethyl sulfoxide (DMSO) or trimethylamine N-oxide (TMAO), R. sphaeroides 2.4.1T utilizes DMSO or TMAO as the terminal electron acceptor for anaerobic respiration, which is mediated by the molybdoenzyme DMSO reductase. Sequencing of a 13-kb region of chromosome II revealed the presence of 10 putative open reading frames, of which 5 possess homology to genes encoding the TMAO reductase (the tor system) of Escherichia coli. The dorS and dorR genes encode a sensor-regulator pair of the two-component sensory transduction protein family, homologous to the torS and torR gene products. The dorC gene was shown to encode a 44-kDa DMSO-inducible c-type cytochrome. The dorB gene encodes a membrane protein of unknown function homologous to the torD gene product. The dorA gene encodes DMSO reductase, containing the molybdopterin active site. Mutations were constructed in each of these dor genes, and the resulting mutants were shown to be impaired for DMSO-dependent anaerobic growth in the dark. The mutant strains exhibited negligible levels of DMSO reductase activity compared to the wild-type strain under similar growth conditions. Further, no DorA protein was detected in DorS and DorR mutant strains with anti-DorA antisera, suggesting that the products of these genes are required for the positive regulation of dor expression in response to DMSO. This characterization of the dor gene cluster is the first evidence that genes of chromosome CII encode metabolic functions which are essential under particular growth conditions.

[1]  M. Ansaldi,et al.  Binding of the TorR regulator to cis‐acting direct repeats activates tor operon expression , 1995, Molecular microbiology.

[2]  R. Huber,et al.  Isolation, cloning, sequence analysis and localization of the operon encoding dimethyl sulfoxide/trimethylamine N-oxide reductase from Rhodobacter capsulatus. , 1996, Journal of molecular biology.

[3]  S Kaplan,et al.  Low-resolution sequencing of Rhodobacter sphaeroides 2.4.1T: chromosome II is a true chromosome. , 1997, Microbiology.

[4]  S. Kaplan,et al.  Analysis of the fnrL gene and its function in Rhodobacter capsulatus , 1997, Journal of bacteriology.

[5]  D. Helinski,et al.  Replication of an origin-containing derivative of plasmid RK2 dependent on a plasmid function provided in trans. , 1979, Proceedings of the National Academy of Sciences of the United States of America.

[6]  A. McEwan,et al.  Anaerobic respiration in the Rhodospirillaceae: characterisation of pathways and evaluation of roles in redox balancing during photosynthesis , 1987 .

[7]  T. Satoh,et al.  Purification and properties of dimethylsulfoxide reductase containing a molybdenum cofactor from a photodenitrifier, Rhodopseudomonas sphaeroides f.s. denitrificans. , 1987, Journal of biochemistry.

[8]  P. Thomas,et al.  An improved staining procedure for the detection of the peroxidase activity of cytochrome P-450 on sodium dodecyl sulfate polyacrylamide gels. , 1976, Analytical biochemistry.

[9]  G. Cohen-bazire,et al.  Kinetic studies of pigment synthesis by non-sulfur purple bacteria. , 1957, Journal of cellular and comparative physiology.

[10]  A. Pühler,et al.  A Broad Host Range Mobilization System for In Vivo Genetic Engineering: Transposon Mutagenesis in Gram Negative Bacteria , 1983, Bio/Technology.

[11]  D. Kobayashi,et al.  Improved broad-host-range plasmids for DNA cloning in gram-negative bacteria. , 1988, Gene.

[12]  J. Devereux,et al.  A comprehensive set of sequence analysis programs for the VAX , 1984, Nucleic Acids Res..

[13]  S Kaplan,et al.  Multiple chromosomes in bacteria: structure and function of chromosome II of Rhodobacter sphaeroides 2.4.1T , 1994, Journal of bacteriology.

[14]  A. McEwan,et al.  Cloning and sequence analysis of the dimethylsulfoxide reductase structural gene from Rhodobacter capsulatus. , 1996, Biochimica et biophysica acta.

[15]  W. Klipp,et al.  Isolation of periplasmic nitrate reductase genes from Rhodobacter sphaeroides DSM 158: structural and functional differences among prokaryotic nitrate reductases , 1996, Molecular microbiology.

[16]  V. Méjean,et al.  The periplasmic TorT protein is required for trimethylamine N-oxide reductase gene induction in Escherichia coli , 1996, Journal of bacteriology.

[17]  J. Sambrook,et al.  Molecular Cloning: A Laboratory Manual , 2001 .

[18]  H. Hirano,et al.  Cloning and nucleotide sequence of the gene encoding dimethyl sulfoxide reductase from Rhodobacter sphaeroides f. sp. denitrificans. , 1995, Bioscience, biotechnology, and biochemistry.

[19]  V. Méjean,et al.  The torR gene of Escherichia coli encodes a response regulator protein involved in the expression of the trimethylamine N-oxide reductase genes , 1994, Journal of bacteriology.

[20]  V. Méjean,et al.  An unorthodox sensor protein (TorS) mediates the induction of the tor structural genes in response to trimethylamine N‐oxide in Escherichia coli , 1996, Molecular Microbiology.

[21]  S. Kaplan,et al.  Localization and structural analysis of the ribosomal RNA operons of Rhodobacter sphaeroides. , 1990, Nucleic acids research.

[22]  T Platt,et al.  Transcription termination and the regulation of gene expression. , 1986, Annual review of biochemistry.

[23]  A. Ninfa,et al.  Protein phosphorylation and regulation of adaptive responses in bacteria. , 1989, Microbiological reviews.

[24]  J. Weiner,et al.  Molecular analysis of dimethylsulfoxide reductase: a complex iron-sulfur molybdoenzyme of Escherichia coli. , 1992, Biochimica et biophysica acta.

[25]  P. Garland,et al.  Sites and specificity of the reaction of bipyridylium compounds with anaerobic respiratory enzymes of Escherichia coli. Effects of permeability barriers imposed by the cytoplasmic membrane. , 1977, The Biochemical journal.

[26]  S Kaplan,et al.  Physical and genetic mapping of the Rhodobacter sphaeroides 2.4.1 genome: presence of two unique circular chromosomes , 1989, Journal of bacteriology.

[27]  S. Kaplan,et al.  prrA, a putative response regulator involved in oxygen regulation of photosynthesis gene expression in Rhodobacter sphaeroides , 1994, Journal of bacteriology.

[28]  G. Giordano,et al.  Molecular genetic analysis of the moa operon of Escherichia coli K‐12 required for molybdenum cofactor biosynthesis , 1993, Molecular microbiology.

[29]  C R Woese,et al.  The phylogeny of purple bacteria: the alpha subdivision. , 1984, Systematic and applied microbiology.

[30]  S Kaplan,et al.  Chromosome transfer in Rhodobacter sphaeroides: Hfr formation and genetic evidence for two unique circular chromosomes , 1992, Journal of bacteriology.

[31]  M. O. Andreae Dimethylsulfoxide in marine and freshwaters , 1980 .

[32]  A. Okubo,et al.  Nucleotide sequence of the genes, encoding the pentaheme cytochrome (dmsC) and the transmembrane protein (dmsB), involved in dimethyl sulfoxide respiration from Rhodobacter sphaeroides f. sp. denitrificans. , 1996, Biochimica et biophysica acta.

[33]  C. B. van Niel THE CULTURE, GENERAL PHYSIOLOGY, MORPHOLOGY, AND CLASSIFICATION OF THE NON-SULFUR PURPLE AND BROWN BACTERIA , 1944, Bacteriological reviews.

[34]  A. McEwan,et al.  Periplasmic location of the terminal reductase in trimethylamine N-oxide and dimethylsulphoxide respiration in the photosynthetic bacterium Rhodopseudomonas capsulata , 1985 .

[35]  T. Donohue,et al.  Construction, characterization, and complementation of a Puf- mutant of Rhodobacter sphaeroides , 1988, Journal of bacteriology.

[36]  A. McEwan,et al.  The 44-kDa c-type cytochrome induced in Rhodobacter capsulatus during growth with dimethylsulphoxide as an electron acceptor is a cytochrome c peroxidase , 1992 .

[37]  A. McEwan,et al.  Phenotypic characterisation and genetic complementation of dimethylsulfoxide respiratory mutants of Rhodobacter sphaeroides and Rhodobacter capsulatus. , 1995, FEMS microbiology letters.

[38]  S. Kaplan,et al.  Regulation of 5-aminolevulinic acid synthesis in Rhodobacter sphaeroides 2.4.1: the genetic basis of mutant H-5 auxotrophy , 1995, Journal of bacteriology.

[39]  J. Wootton,et al.  Enzymes depending on the pterin molybdenum cofactor: sequence families, spectroscopic properties of molybdenum and possible cofactor-binding domains. , 1991, Biochimica et biophysica acta.

[40]  W. Dowhan,et al.  Isolation and expression of the Rhodobacter sphaeroides gene (pgsA) encoding phosphatidylglycerophosphate synthase , 1996, Journal of bacteriology.

[41]  A. McEwan,et al.  Identification of cytochromes involved in electron transport to trimethylamine N-oxide/dimethylsulphoxide reductase in Rhodobacter capsulatus , 1989 .

[42]  G. Giordano,et al.  TMAO anaerobic respiration in Escherichia coli: involvement of the tor operon , 1994, Molecular microbiology.

[43]  A. Campbell,et al.  Cloning and nucleotide sequence of bisC, the structural gene for biotin sulfoxide reductase in Escherichia coli , 1990, Journal of bacteriology.

[44]  H. Boyer,et al.  A complementation analysis of the restriction and modification of DNA in Escherichia coli. , 1969, Journal of molecular biology.

[45]  C. Hunter,et al.  Changes in the cytochrome composition of Rhodopseudomonas sphaeroides grown aerobically, photosynthetically and on dimethyl sulphoxide. , 1983, The Biochemical journal.

[46]  T. Mizuno,et al.  A novel device of bacterial signal transducers. , 1994, The EMBO journal.

[47]  K. Rajagopalan,et al.  The pterin molybdenum cofactors. , 1992, The Journal of biological chemistry.

[48]  C. B. V. Niel,et al.  THE CULTURE, GENERAL PHYSIOLOGY, MORPHOLOGY, AND CLASSIFICATION OF THE NON-SULFUR PURPLE AND BROWN BACTERIA , 1944 .

[49]  H. Krisch,et al.  In vitro insertional mutagenesis with a selectable DNA fragment. , 1984, Gene.