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Rhodobacter capsulatus is a Gram negative bacterium that exhibits a variety of growth modes, including chemoheterotrophic growth and photoheterotrophic growth. Upon a shift of cultures from high to low oxygen concentrations the photosynthetic apparatus is synthesized and incorporated into the inner membrane. The puf operon contains genes that encode structural proteins found in the light-harvesting and reaction center complexes. In a preliminary attempt to pinpoint the location of the puf promoter R. capsulatus RNA polymerase was purified by standard techniques and used in in vitro runoff transcription assays. It was found that the polymerase was capable of specific transcription with linearized pUC13 DNA but no specific transcription could be obtained with K capsulatus DNA. It was concluded that some factor or condition necessary for specific transcription with R capsulatus DNA was absent from these assays. The location of the puf promoter was subsequently found through a series of deletions and oligonucleotide-directed mutations in the 5' region of the puf operon. Fragments that contained these mutations were placed translationally in-frame with the lacZ gene of Escherichia coli in plasmids that could be conjugated into K capsulatus. Assays of beta-galactosidase activities under low and high oxygen conditions resulted in localization of the promoter to a position approximately 540 basepairs upstream of what was previously believed to be the first gene of the operon, the pufB gene. RNA 5' end-mapping experiments showed that the quantity of RNA transcripts obtained were comparable to the lacZ activities. The existence of multiple low abundance RNA 5' ends prompted the theory that the primary transcript has a short half-life, and is rapidly processed to yield a more stable transcript with a 5' end that maps just upstream of the pufB gene. It was found that only the 5' end nearest to the promoter could be capped by guanylyl transferase, and this could only be detected when the putative processing sites were deleted. The DNA sequence between the promoter and the pufB gene contains a new gene of the puf operon, the pufO gene. Deletion of this gene showed that it plays an essential role in the formation of mature light-harvesting and reaction center complexes. / Science, Faculty of / Microbiology and Immunology, Department of / Graduate

The 2.7 kilobase transcript of the puf operon of the photosynthetic bacterium Rhodobacter capsulatus has five open reading frames. The gene products of four of these open reading frames (pufB, A, L,and M) are well characterized as structural polypeptides of the reaction center (pufL and M) and the B870 light-harvesting antenna complex (pufB and A), The role of the pufX gene product has been unknown. By deleting the pufX gene from a plasmid carrying the puf operon and using this plasmid to reconstitute a strain of R. capsulatus which had the puf operon deleted, it was possible to characterize the pufX gene product. It was found that the pufX⁻ mutant was unable to grow photosynthetically until a secondary suppressor mutation had occurred. It appeared that either more than one type of suppressor mutation could occur or that one suppressor mutation could be accompanied by further mutations. To determine the nature of the lesion caused by the deletion of pufX, the structure of the photosynthetic unit and the ability of the subunits of the photosynthetic unit to accomplish energy and electron transfer of the mutant were compared to a pseudo-wild type. Spectrophotometric techniques, including fluorescence detection, reduced minus oxidized spectra, flash-induced absorbance change spectra, and ground state absorption spectra were used for these comparisons as well as biochemical assays. The biochemical assays measured the ability of chromatophores to transfer electrons from a quinone analog to horse-heart cytochrome c and to pump protons in response to light irradiation. The results of these comparisons indicated that the individual components of the photosynthetic unit functioned normally but that electron transfer between these components, specifically between the reaction center and the cytochrome b⁄c₁ complex, was impaired. It thus seemed likely that there was some structural defect in the photosynthetic unit. The structure of the photosynthetic units of pseudo-wild type and mutant strains was probed using sodium dodecyl sulfate-polyacrylamide gels, absorption spectroscopy, and electron microscopy. It was determined that the mutant had chromatophore vesicles that were about 50% larger than those of the pseudo-wild type and contained higher levels of reaction center and B870 light-harvesting antenna polypeptides. The suppressor mutants also had altered levels of polypeptides and showed differences in the way the expression of their B800-850 polypeptides was regulated. It was concluded that the pufX gene product plays a role in the correct assembly of the photosynthetic unit as a structural component of the unit and/or as a regulator of its assembly. / Science, Faculty of / Microbiology and Immunology, Department of / Graduate

Mémoire numérisé par la Direction des bibliothèques de l'Université de Montréal.

Rhodobacter capsulatus photosynthesis gene was isolated by creating in-frame fusions in a lacZ transcriptional/translational vector, and selecting for those that directed oxygen-regulated levels of β-galactosidase in R. capsulatus. One lacZ fusion isolate was used to identify an open reading frame (ORF) of unknown function and flanking sequences that promoted initiation of transcription. Interposon mutagenesis experiments identified the ORF as the bchC gene, which encodes an enzyme that catalyses the penultimate step in the biosynthesis of bacteriochlorophyll a, and also showed that the bchC gene formed an operon with the bchA gene. The nucleotide sequence of this bchC gene and its 5' regulatory region were determined. The deduced amino acid sequence showed that the bchC gene encodes a 33 kDA protein that has hydrophobic segments that could interact with a lipid membrane, and that this putative BchC protein contains a potential bacteriochlorophyll a binding site. Deletion analysis, S1-nuclease protection, and primer extension experiments showed that promoter activity was associated with sequences to which a 5' end mapped, and that these sequences had significant similarity to the proposed promoter regions of several other R. capsulatus photosynthesis genes. RNA blotting and S1-nuclease protection end-mapping experiments using bipartite probes provided direct evidence that the mRNA transcripts of the bchCA operon overlap those of the two flanking operons, the crtEF and the puf operons, such that the crtEF, bchCA, and puf operons may be cotranscribable, and that RNA polymerase may initiate transcription at one of several promoters. The significance of these overlapping mRNAs was evaluated using two interposon mutant strains, one that prevented crtEF transcripts from overlapping those the bchCA and puf operons, and the other that prevented both crtEF and bchCA transcripts from overlapping those of the puf operon. The results suggested that transcriptional readthrough stimulates promoter activity. Moreover, a pufB::lac'Z fusion could be expressed from the bchCA promoter equally as well as from the puf promoter, suggesting that these overlapping transcripts are functionally significant in the chromosomal context. / Science, Faculty of / Microbiology and Immunology, Department of / Graduate

The primary amino acid sequences of the L, M, and H photosynthetic reaction center peptide subunits from a number of purple non-sulfur bacteria, including Rhodopseudomonas viridis, Rhodobacter sphaeroides, and Rhodobacter capsulatus have been previously shown to be highly homologous, and detailed X-ray crystallographic analyses of reaction centers from two species of purple non-sulfur bacteria, Rps. viridis and R. sphaeroides have shown that all recognized structural and functional features are conserved. Experiments were undertaken to determine whether genes encoding reaction center and light harvesting peptide subunits from one species could be functionally expressed in other species. Plasmid-borne copies of R sphaeroides and Rps. viridis pigment binding-peptide genes were independently introduced into a photosynthetically incompetent R. capsulatus mutant host strain, deficient in all known pigment-binding peptide genes. The R. sphaeroides puf operon, which encodes the L and M subunits of the reaction center as well as both peptide subunits of light harvesting complex I, was shown to be capable of complementing the mutant R. capsulatus host. Hybrid reaction centers, comprised of R. sphaeroides-encoded L and M subunits and an R. capsulatus-encoded H subunit, were formed in addition to the R. sphaeroides-encoded LHI complexes. These hybrid cells were capable of photosynthetic growth, but their slower growth rates under low light conditions and their higher fluorescence emission levels relative to cells containing native complexes, indicated an impairment in energy transduction. The Rps. viridis puf operon was found to be incapable of functional expression in the R. capsulatus mutant host. Introduction of a plasmid-borne copy of the Rps. viridis puhA gene, which encodes the H subunit of the reaction center, into host cells already containing the Rps. viridis puf operon, such that all structural peptides of the Rps. viridis reaction center were present, still did not permit stable assembly of Rps. viridis photosynthetic complexes. RNA blot analysis demonstrated that the barrier to functional expression was not at the level of transcription. Differences between Rps. viridis and R. sphaeroides that may account for their differing abilities to complement the R. capsulatus mutant host strain are discussed. / Science, Faculty of / Microbiology and Immunology, Department of / Graduate

Photobiological hydrogen production from organic acids occurs in the presence of light and under anaerobic conditions. Stable and optimized operation of the photobioreactors is the most challenging task in the photofermentation process. The main aim of this study was to achieve in long term, a stable and high hydrogen production on acetate, using the photosynthetic bacteria Rhodobacter capsulatus in continuous panel photobioreactors. Rhodobacter capsulatus (DSM 1710), heat adapted Rhodobacter capsulatus (DSM 1710) and Rhodobacter capsulatus YO3 (Hup-), a mutant strain, were tested in outdoor conditions, under natural sunlight between September-December, 2008 in Ankara, Turkey. Defined culture medium containing acetate (40 mM) and glutamate (2 mM) and a dilution rate of 0.8 l/ day were used. Steady hydrogen production (0.4 mmol H2/lc.h) was obtained using the Rhodobacter capsulatus YO3 (Hup-) mutant strain that was continuously operated for 69 days, but the cell concentration could not be kept at a steady value. Further efforts were focused on achieving stable biomass concentration by optimizing the feed composition. Stable biomass (0.40 gdcw/lc) and high hydrogen productivity (0.8 mmol H2/lc.h) were achieved using feed media containing 40 mM acetate and 4 mM glutamate with a 10% (v/v) feed rate. Moreover, the EU project HYVOLUTION aims to combine dark fermentation and photofermentation process for the conversion of biomass to hydrogen. Effluents from the dark fementation contain high amount of ammonium, which inhibits phototrophic hydrogen production. After treatment it has been concluded that G&ouml / rdes clinoptilolite zeolite effectively removes ammonium ion from the dark fermenter effluent of molasses.

Production of hydrogen from biomass through the use of dark and photofermentative bacteria will be applicable in the future and a promising route. The aim of this study is to develop and to scale-up solar panel photobioreactors for the biological hydrogen production by photosynthetic purple non sulfur (PNS) bacteria on artificial substrates and on real dark fermentation effluent of molasses. The parameters studied are light intensity, temperature, feed stock, feed rate, pH, cell density, light and dark cycle and carbon to nitrogen ratio on hydrogen production. Continuous hydrogen production has been achieved on artificial medium and dark fermentor effluent of molasses containing acetate and lactate by Rhodobacter capsulatus wild type and (hup-) mutant strains in panel photobioreactors in indoor and outdoor conditions by fed batch operation. Laboratory (from 4 to 8 liters) and large scale (20 L) panel photobioreactors by using various designs and construction materials were developed. In this photobioreactors continuous hydrogen production was achieved by feeding. Na2CO3 can be used as buffer to keep the pH stable during long term operation on molasses dark fermentor effluent. The adjustment of the feedstock by dilution and buffer addition were found to be essential for the long term stability of pH, biomass and H2 production for both in indoor and outdoor applications.