Publications

effects of integrated use of organic and inorganic nutrient sources with effective microorganisms (em) on seed cotton yield in pakistan.	a field experiment was conducted to determine the effects of integrated use of organic and inorganic nutrient sources with effective microorganisms on growth and yield of cotton. treatments included: control; organic materials (om); effective microorganisms (em); om+em; mineral npk (170:85:60 kg); 1/2 mineral npk+em; 1/2 mineral npk+om+em and mineral npk+om+em. om and em alone did not increase the yield and yield attributing components significantly but integrated use of both resulted in a 44% i ...	2006	16023343
l: -stereoselective amino acid amidase with broad substrate specificity from brevundimonas diminuta: characterization of a new member of the leucine aminopeptidase family.	brevundimonas diminuta tpu 5720 produces an amidase acting l-stereoselectively on phenylalaninamide. the enzyme (laaa(bd)) was purified to electrophoretic homogeneity by ammonium sulfate fractionation and four steps of column chromatography. the final preparation gave a single band on sds-page with a molecular weight of approximately 53,000. the native molecular weight of the enzyme was about 288,000 based on gel filtration chromatography, suggesting that the enzyme is active as a homohexamer. i ...	2006	16001251
the crystal structure of mismatch-specific uracil-dna glycosylase (mug) from deinococcus radiodurans reveals a novel catalytic residue and broad substrate specificity.	deinococcus radiodurans is extremely resistant to the effects of ionizing radiation. the source of the radiation resistance is not known, but an expansion of specific protein families related to stress response and damage control has been observed. dna repair enzymes are among the expanded protein families in d. radiodurans, and genes encoding five different uracil-dna glycosylases are identified in the genome. here we report the three-dimensional structure of the mismatch-specific uracil-dna gl ...	2006	16223719
relationship between the extracellular polymeric substances and surface characteristics of rhodopseudomonas acidophila.	the relationship between the extracellular polymeric substances (eps) and surface characteristics of rhodopseudomonas acidophila in its different growth phases was established. the equilibrium constant of partition (k par) and the gibbs energies of partition (deltag par) between hexadecane and aqueous phases were also calculated according to the microbial adhesion to hexadecane (math) testing. the eps content decreased with cultivation time at the logarithmic phase, but kept almost unchanged aro ...	2006	16292527
fitness consequences for copepods feeding on a red tide dinoflagellate: deciphering the effects of nutritional value, toxicity, and feeding behavior.	phytoplankton exhibit a diversity of morphologies, nutritional values, and potential chemical defenses that could affect the feeding and fitness of zooplankton consumers. however, how phytoplankton traits shape plant-herbivore interactions in the marine plankton is not as well understood as for terrestrial or marine macrophytes and their grazers. the occurrence of blooms of marine dinoflagellates such as karenia brevis suggests that, for uncertain reasons, grazers are unable to capitalize on, or ...	2006	16261377
determination and comparison of the baseline proteomes of the versatile microbe rhodopseudomonas palustris under its major metabolic states.	rhodopseudomonas palustris is a purple nonsulfur anoxygenic phototrophic bacterium that is ubiquitous in soil and water. r. palustris is metabolically versatile with respect to energy generation and carbon and nitrogen metabolism. we have characterized and compared the baseline proteome of a r. palustris wild-type strain grown under six metabolic conditions. the methodology for proteome analysis involved protein fractionation by centrifugation, subsequent digestion with trypsin, and analysis of ...	2006	16457594
cytochrome p450 enzymes from the metabolically diverse bacterium rhodopseudomonas palustris.	four (cyp195a2, cyp199a2, cyp203a1, and cyp153a5) of the seven p450 enzymes, and palustrisredoxin a, a ferredoxin associated with cyp199a2, from the metabolically diverse bacterium rhodopseudomonas palustris have been expressed and purified. a range of substituted benzenes, phenols, benzaldehydes, and benzoic acids was shown to bind to the four p450 enzymes. monooxygenase activity of cyp199a2 was reconstituted with palustrisredoxin a and putidaredoxin reductase of the p450cam system from pseudom ...	2006	16472768
community structures and activities of nitrifying and denitrifying bacteria in industrial wastewater-treating biofilms.	the bacterial community structure, in situ spatial distributions and activities of nitrifying and denitrifying bacteria in biofilms treating industrial wastewater were investigated by combination of the 16s rrna gene clone analysis, fluorescence in situ hybridization (fish) and microelectrodes. these results were compared with the nitrogen removal capacity of the industrial wastewater treatment plant (iwtp). both nitrification and denitrification occurred in the primary denitrification (pd) tank ...	2006	16477661
genome sequence of the chemolithoautotrophic nitrite-oxidizing bacterium nitrobacter winogradskyi nb-255.	the alphaproteobacterium nitrobacter winogradskyi (atcc 25391) is a gram-negative facultative chemolithoautotroph capable of extracting energy from the oxidation of nitrite to nitrate. sequencing and analysis of its genome revealed a single circular chromosome of 3,402,093 bp encoding 3,143 predicted proteins. there were extensive similarities to genes in two alphaproteobacteria, bradyrhizobium japonicum usda110 (1,300 genes) and rhodopseudomonas palustris cga009 cg (815 genes). genes encoding p ...	2006	16517654
phototrophic growth of a rubisco-deficient mesophilic purple nonsulfur bacterium harboring a type iii rubisco from a hyperthermophilic archaeon.	the hyperthermophilic archaeon, thermococcus kodakaraensis kod1 harbors a structurally novel, type iii rubisco (rbc(tk)). in terms of protein engineering of rubiscos, the enzyme may provide an alternative target to the conventional type i and type ii enzymes. with a future aim to improve the catalytic properties of rbc(tk), here we examined whether or not the enzyme could support growth of a mesophilic organism dependent on co2 fixation. via double-crossover homologous recombination, we first de ...	2006	16530868
the photosynthetic apparatus of rhodopseudomonas palustris: structures and organization.	the structural analysis of the individual components of the photosynthetic apparatus of rhodopseudomonas palustris, or those of related species, is almost complete. to shed light on the assembly and organization of this machinery, we have studied native membranes of rps.palustris grown under different light conditions using atomic force microscopy (afm). the organization of the complexes in the membranes is different from any previously observed: with areas of crystalline core-complexes, crystal ...	2006	16500674
coherence in the b800 ring of purple bacteria lh2.	we study the quantum coherence in the b800 ring and how it affects the dynamics of excitation energy transfer (eet) in photo-synthetic light-harvesting systems. from an analysis of the spectrum, we determine the disorder parameters for the b800 ring and show that the relatively weak electronic coupling between b800 pigments subtly changes the dynamics of eet and improves the uniformity and robustness of b800 --> b850 eet at room temperature, an example of how a multichromophoric assembly can exp ...	2006	16486648
excited-state dynamics of carotenoids in light-harvesting complexes. 1. exploring the relationship between the s1 and s* states.	dispersed transient absorption spectra collected at variable excitation intensities in combination with time-resolved signals were used to explore the underlying connectivity of the electronic excited-state manifold of the carotenoid rhodopin glucoside in the light-harvesting 2 complex isolated from rhodopseudomonas acidophila. we find that the s state, which was recently identified as an excited state in carotenoids bound in bacterial light-harvesting complexes, exhibits a different response to ...	2006	16539518
excited-state dynamics of carotenoids in light-harvesting complexes. 2. dissecting pulse structures from optimal control experiments.	dispersed multipump-probe (ppp) spectroscopy was used to explore the role of saturation, annihilation, and structured pulses in recent coherent control experiments on the light-harvesting 2 complex from rhodopseudomonas acidophila (herek et al. nature 2002, 417, 533). we discuss the complimentary aspects between the ppp technique and coherent control studies, in particular the ability to dissect complicated pulse structures and the utility in exploring incoherent mechanisms. with the aid of a si ...	2006	16539519
biological weighting functions as a tool for evaluating two ways to measure uvb radiation inhibition on photosynthesis.	to estimate the inhibitory effect of the changing uvb radiation (uvbr, 280-315nm) on earth's ecosystems, an understanding of its wavelength dependency is needed. the tool used for these estimations is the biological weighting function (bwf), whereby the inhibition of different wavelengths is calculated. bwfs were determined for three algae species from different classes, phaeodactylum tricornutum (bacillariophyceae), dunaliella tertiolecta (chlorophyceae) and rhodomonas sp. (cryptophyceae), usin ...	2006	16545575
a novel three-protein two-component system provides a regulatory twist on an established circuit to modulate expression of the cbbi region of rhodopseudomonas palustris cga010.	a novel two-component system has been identified in the cbb(i) region of the nonsulfur purple photosynthetic bacterium rhodopseudomonas palustris. genes encoding this system, here designated cbbrrs, are juxtaposed between the divergently transcribed transcription activator gene, cbbr, and the form i ribulose-1,5-bisphosphate carboxylase/oxygenase (rubisco) genes, cbbls. the three genes of the cbbrrs system represent a variation of the well-known two-component signal transduction systems, as ther ...	2006	16585739
cyp201a2, a cytochrome p450 from rhodopseudomonas palustris, plays a key role in the biodegradation of tributyl phosphate.	tributyl phosphate (tbp) is a toxic organophosphorous compound widely used in nuclear fuel processing and chemical industries. rhodopseudomonas palustris, one of the most metabolically versatile photosynthetic bacteria, is shown here to degrade tbp efficiently under photosynthetic conditions. this study shows that this o(2)- and nadph/fmnh(2)-dependent process was also catalyzed when tbp was incubated with membrane-associated proteins extracted from this strain. the effects of several regulators ...	2007	17786430
phenotypic and physiological changes in the phototrophic purple nonsulfur bacterium rhodopseudomonas palustris transformed with the binary vector pga482 carrying the cytokinin biosynthesis gene ipt.		2007	17933332
biosynthesis of 2-methylbacteriohopanepolyols by an anoxygenic phototroph.	sedimentary 2-methyhopanes have been used as biomarker proxies for cyanobacteria, the only known bacterial clade capable of oxygenic photosynthesis and the only group of organisms found thus far to produce abundant 2-methylbacteriohopanepolyols (2-mebhps). here, we report the identification of significant quantities of 2-mebhp in two strains of the anoxygenic phototroph rhodopseudomonas palustris. biosynthesis of 2-mebhp can occur in the absence of o(2), deriving the c-2 methyl group from methio ...	2007	17848515
abundance and diversity of phytoplankton in the paraná river (argentina) 220 km downstream of the yacyretá reservoir.	patterns in the temporal composition, abundance and diversity of the phytoplankton community of the paraná river prior to and after the initial filling phase of the yacyretá reservoir are analyzed. the study site is located 220 km downstream from the yacyretá reservoir and 30 km downstream from the confluence with the paraguay river. because both rivers remain separate and unmixed at the study site, we compared the possible effects of the impoundment on both river banks (left and right banks) in ...	2007	17505750
plastid genome sequence of the cryptophyte alga rhodomonas salina ccmp1319: lateral transfer of putative dna replication machinery and a test of chromist plastid phylogeny.	cryptophytes are a group of unicellular algae with chlorophyll c-containing plastids derived from the uptake of a secondary (i.e., eukaryotic) endosymbiont. biochemical and molecular data indicate that cryptophyte plastids are derived from red algae, yet the question of whether or not cryptophytes acquired their red algal plastids independent of those in heterokont, haptophyte, and dinoflagellate algae is of long-standing debate. to better understand the origin and evolution of the cryptophyte p ...	2007	17522086
cyclic porphyrin arrays as artificial photosynthetic antenna: synthesis and excitation energy transfer.	covalently linked cyclic porphyrin arrays have been explored in recent years as artificial photosynthetic antenna. in this review we present the fundamental aspects of covalently linked cyclic porphyrin arrays by highlighting recent progress. the major emphasis of this tutorial review lies on the synthetic method, the structure, and the excitation energy transfer (eet) of such arrays. the final cyclization steps were often performed with the aid of templates. efficient eet along the wheel is obs ...	2007	17534471
crystallization and preliminary x-ray diffraction studies of a ferredoxin reductase from rhodopseudomonas palustris cga009.	palustrisredoxin reductase from rhodopseudomonas palustris cga009, a member of the oxygenase-coupled nadh-dependent ferredoxin reductase (onfr) family, catalyzes electron transfer from nadh to ferredoxins. it is an essential component of the cytochrome p450 systems in r. palustris cga009, a model organism with diverse metabolic pathways. here, the crystallization of palustrisredoxin reductase is reported. the crystals belong to the trigonal space group p3(2)21, with unit-cell parameters a = 107. ...	2007	17565187
evolution of a bacteriophytochrome from light to redox sensor.	bacteriophytochromes are red/far-red photoreceptors that bacteria use to mediate sensory responses to their light environment. here, we show that the photosynthetic bacterium rhodopseudomonas palustris has two distinct types of bacteriophytochrome-related protein (rpbphp4) depending upon the strain considered. the first type binds the chromophore biliverdin and acts as a light-sensitive kinase, thus behaving as a bona fide bacteriophytochrome. however, in most strains, rpbphp4 does not to bind t ...	2007	17581629
self-assembled monolayer of light-harvesting core complexes from photosynthetic bacteria on a gold electrode modified with alkanethiols.	light-harvesting antenna core (lh1-rc) complexes isolated from rhodoseudomonas palustris were self-assembled on a gold electrode modified with self-assembled monolayers (sams) of the alkanethiols nh2(ch2)nsh, n = 2, 6, 8, 11; hooc(ch2)7sh; and ch3(ch2)7sh, respectively. adsorption of the lh1-rc complexes on the sams depended on the terminating group of the alkanethiols, where the adsoption increased in the following order for the terminating groups: amino groups > carboxylic acid groups > methyl ...	2007	17591750
evaluation of colors in green mutants isolated from purple bacteria as a host for colorimetric whole-cell biosensors.	the change in carotenoid-based bacterial color from yellow to red can be applied to whole-cell biosensors. we generated several green mutants to emphasize the color change in such biosensors. the blue-green crti-deleted mutant, rhodopseudomonas palustris no.711, accumulated the colorless carotenoid precursor, phytoene. green rhodovulum sulfidophilum m31 accumulated neurosporene, a downstream product of phytoene. another green mutant, rhodobacter sphaeroides ga, accumulated neurosporene and chlor ...	2007	17609942
the culture collection of algae and protozoa (ccap): a biological resource for protistan genomics.	ccap, the largest european protistan culture collection, is based at the scottish association for marine science near oban, scotland (http://www.ccap.ac.uk). the collection comprises more than 2700 strains in the public domain, of which 1050 are marine algae, 1300 freshwater algae, and 350 protozoa. the primary mission of ccap is to maintain and distribute defined cultures and their associated information to its customers. it also has a support and advisory function on all aspects of protistan s ...	2007	17614217
comparison of digestion protocols for microgram quantities of enriched protein samples.	standard biochemical techniques that are used for protein enrichments, such as affinity isolation and density gradient centrifugation, frequently yield high-nanogram to low-microgram quantities at a significant expenditure of resources and time. the characterization of selected protein enrichments by the "shotgun" mass spectrometry approach is often compromised by the lack of effective and efficient in-solution proteolysis protocols specifically tailored for these small quantities of proteins. t ...	2007	17616116
comparative biochemical and functional studies of family i soluble inorganic pyrophosphatases from photosynthetic bacteria.	soluble inorganic pyrophosphatases (inorganic diphosphatases, ec 3.6.1.1) were isolated and characterized from three phylogenetically diverse cyanobacteria--synechocystis sp. pcc 6803, anabaena sp. pcc 7120, and pseudanabaena sp. pcc 6903--and one anoxygenic photosynthetic bacterium, rhodopseudomonas viridis (purple nonsulfur). these enzymes were found to be family i soluble inorganic pyrophosphatases with c. 20 kda subunits with diverse oligomeric structures. the corresponding ppa genes were cl ...	2007	17635582
crystal structure of the chromophore binding domain of an unusual bacteriophytochrome, rpbphp3, reveals residues that modulate photoconversion.	bacteriophytochromes rpbphp2 and rpbphp3 from the photosynthetic bacterium rhodopseudomonas palustris work in tandem to modulate synthesis of the light-harvesting complex lh4 in response to light. although rpbphp2 and rpbphp3 share the same domain structure with 52% sequence identity, they demonstrate distinct photoconversion behaviors. rpbphp2 exhibits the "classical" phytochrome behavior of reversible photoconversion between red (pr) and far-red (pfr) light-absorbing states, whereas rpbphp3 ex ...	2007	17640891
probing the cytochrome c' folding landscape.	the folding kinetics of r. palustris cytochrome c' (cyt c') have been monitored by heme absorption and native trp72 fluorescence at ph 5. the trp72 fluorescence burst signal suggests early compaction of the polypeptide ensemble. analysis of heme transient absorption spectra reveals deviations from two-state behavior, including a prominent slow phase that is accelerated by the prolyl isomerase cyclophilin. a nonnative proline configuration (pro21) likely interferes with the formation of the helic ...	2007	17673297
engineering of a type iii rubisco from a hyperthermophilic archaeon in order to enhance catalytic performance in mesophilic host cells.	the hyperthermophilic archaeon thermococcus kodakaraensis harbors a type iii ribulose 1,5-bisphosphate carboxylase/oxygenase (rbc(tk)). it has previously been shown that rbc(tk) is capable of supporting photoautotrophic and photoheterotrophic growth in a mesophilic host cell, rhodopseudomonas palustris delta3, whose three native rubisco genes had been disrupted. here, we have examined the enzymatic properties of rbc(tk) at 25 degrees c and have constructed mutant proteins in order to enhance its ...	2007	17675435
statistically inferring protein-protein associations with affinity isolation lc-ms/ms assays.	affinity isolation of protein complexes followed by protein identification by lc-ms/ms is an increasingly popular approach for mapping protein interactions. however, systematic and random assay errors from multiple sources must be considered to confidently infer authentic protein-protein interactions. to address this issue, we developed a general, robust statistical method for inferring authentic interactions from protein prey-by-bait frequency tables using a binomial-based likelihood ratio test ...	2007	17691832
dlvo approach to the flocculability of a photosynthetic h2-producing bacterium, rhodopseudomonas acidophila.	the dlvo theory was used to explore the flocculation characteristics of a h2-producing photosynthetic bacterium, rhodopseudomonas acidophila. the relationship between the surface characteristics of this strain and itsflocculability was evaluated. its flocculability was governed by both electrolyte concentration and ph, and the appropriate electrolyte concentration and ph were found to be 0.1 m nacl solution and ph 7.0, respectively. in addition, the extracellular polymeric substances produced by ...	2007	17695906
community structure analysis of reverse osmosis membrane biofilms and the significance of rhizobiales bacteria in biofouling.	the biofilm community structure of a biofouled reverse osmosis (ro) membrane was examined using a polyphasic approach, and the dominant phylotypes retrieved were related to the order rhizobiales, a group of bacteria that is hitherto not implicated in membrane biofouling. a comparison with two other membrane biofilms using t-rflp fingerprinting also revealed the dominance of rhizobiales organisms. when pure culture ro biofilm isolates were cultivated aerobically in biolog microplates, most rhizob ...	2007	17695921
effect of biotic and abiotic factors on in vitro proliferation, encystment, and excystment of pfiesteria piscicida.	pfiesteria spp. are mixotrophic armored dinoflagellates populating the atlantic coastal waters of the united states. they have been a focus of intense research due to their reported association with several fish mortality events. we have now used a clonal culture of pfiesteria piscicida and several new environmental isolates to describe growth characteristics, feeding, and factors contributing to the encystment and germination of the organism in both laboratory and environmental samples. we also ...	2007	17704277
in vitro assessment of gastrointestinal viability of two photosynthetic bacteria, rhodopseudomonas palustris and rhodobacter sphaeroides.	the objectives of this study were to assess the potential of two photosynthetic bacteria (psb), rhodopseudomonas palustris hz0301 and rhodobacter sphaeroides hz0302, as probiotics in aquaculture. the viability of hz0301 and hz0302 in simulated gastric transit conditions (ph 2.0, ph 3.0 and ph 4.0 gastric juices) and in simulated small intestinal transit conditions (ph 8.0, with or without 0.3% bile salts) was tested. the effects of hz0301 and hz0302 on the viability and permeability of intestina ...	2007	17726751
characterization of thermotolerant purple nonsulfur bacteria isolated from hot-spring chloroflexus mats and the reclassification of "rhodopseudomonas cryptolactis" stadtwald-demchick et al.1990 as rhodoplanes cryptolactis nom. rev., comb. nov.		2007	18187892
interspecific and nutrient-dependent variations in stable isotope fractionation: experimental studies simulating pelagic multitrophic systems.	stable isotope signatures of primary producers display high inter- and intraspecific variation. this is assigned to species-specific differences in isotope fractionation and variable abiotic conditions, e.g., temperature, and nutrient and light availability. as consumers reflect the isotopic signature of their food source, such variations have direct impacts on the ecological interpretation of stable isotope data. to elucidate the variability of isotope fractionation at the primary producer leve ...	2007	17943319
digital holographic microscopy reveals prey-induced changes in swimming behavior of predatory dinoflagellates.	the shallow depth of field of conventional microscopy hampers analyses of 3d swimming behavior of fast dinoflagellates, whose motility influences macroassemblages of these cells into often-observed dense "blooms." the present analysis of cinematic digital holographic microscopy data enables simultaneous tracking and characterization of swimming of thousands of cells within dense suspensions. we focus on karlodinium veneficum and pfiesteria piscicida, mixotrophic and heterotrophic dinoflagellates ...	2007	17959778
[comparative study of the fatty acid composition of some groups of purple nonsulfur bacteria].	the fatty acid composition (fac) of 43 strains of purple nonsulfur bacteria belonging to six genera--rubrivivax, rhodopseudomonas, rhodoplanes, blastochloris, rhodobium, and rhodomicrobium--was studied by capillary gas chromatography. the cultures were grown on standard medium under standard conditions. automatic identification of the fatty acid methyl esters and statistical processing of the results were performed by the computerized microbial identification system (m.i.s). significant differen ...	2007	18069321
refinement of the x-ray structure of the rc lh1 core complex from rhodopseudomonas palustris by single-molecule spectroscopy.	a unique combination of single-molecule spectroscopy with numerical simulations has allowed us to achieve a refined structural model for the bacteriochlorophyll a (bchl a) pigment arrangement in reaction center-light-harvesting 1 core complexes of rhodopseudomonas palustris. details in the optical spectra, such as spectral separation and mutual polarizations of spectral bands, are compared with results from numerical simulations for various models of the bchl a arrangement that were all well wit ...	2007	18077352
effects of application of rhodopseudomonas sp. on seed germination and growth of tomato under axenic conditions.	purple nonsulfur bacteria were isolated from river sediments and their growth promoting capabilities on tomato were examined. isolated strains kl9 and bl6 were identified as rhodopseudomonas spp. by 16s rdna sequence analysis. rhodopseudomonas strain kl9 maximally produced 5.56 mm/ min/mg protein and 67.2 microm/min/mg protein of indole-3-acetic acid (iaa) and 5-aminolevulinic acid (ala), respectively, which may be one of the mechanisms of plant growth enhancement. the germination percentage of ...	2007	18092464
site-specific collapse dynamics guide the formation of the cytochrome c' four-helix bundle.	the evolution of tryptophan-to-heme (w/heme) distance distributions extracted from analysis of fluorescence energy transfer kinetics during the refolding of rhodopseudomonas palustris cytochrome c' reveals dramatic differences between two variants [w32 (q1a/f32w/w72f) and w72 (q1a)]. both w32/heme and w72/heme distance distributions measured at the earliest time point attainable with a continuous-flow mixer (150 mus) confirm that the polypeptide ensemble is not uniformly collapsed and that nativ ...	2007	17179212
the pio operon is essential for phototrophic fe(ii) oxidation in rhodopseudomonas palustris tie-1.	phototrophic fe(ii)-oxidizing bacteria couple the oxidation of ferrous iron [fe(ii)] to reductive co(2) fixation by using light energy, but until recently, little has been understood about the molecular basis for this process. here we report the discovery, with rhodopseudomonas palustris tie-1 as a model organism, of a three-gene operon, designated the pio operon (for phototrophic iron oxidation), that is necessary for phototrophic fe(ii) oxidation. the first gene in the operon, pioa, encodes a ...	2007	17189359
retrotransposons and tandem repeat sequences in the nuclear genomes of cryptomonad algae.	the cryptomonads are an enigmatic group of unicellular eukaryotic algae that possess two nuclear genomes, having acquired photosynthesis by the uptake and retention of a eukaryotic algal endosymbiont. the endosymbiont nuclear genome, or nucleomorph, of the cryptomonad guillardia theta has been completely sequenced: at only 551 kilobases (kb) and with a gene density of approximately 1 gene/kb, it is a model of compaction. in contrast, very little is known about the structure and composition of th ...	2007	17211547
redirection of metabolism for biological hydrogen production.	a major route for hydrogen production by purple photosynthetic bacteria is biological nitrogen fixation. nitrogenases reduce atmospheric nitrogen to ammonia with the concomitant obligate production of molecular hydrogen. however, hydrogen production in the context of nitrogen fixation is a rather inefficient process because about 75% of the reductant consumed by the nitrogenase is used to generate ammonia. in this study we describe a selection strategy to isolate strains of purple photosynthetic ...	2007	17220249
a novel deaminase involved in chloronitrobenzene and nitrobenzene degradation with comamonas sp. strain cnb-1.	comamonas sp. strain cnb-1 degrades nitrobenzene and chloronitrobenzene via the intermediates 2-aminomuconate and 2-amino-5-chloromuconate, respectively. deamination of these two compounds results in the release of ammonia, which is used as a source of nitrogen for bacterial growth. in this study, a novel deaminase was purified from comamonas strain cnb-1, and the gene (cnbz) encoding this enzyme was cloned. the n-terminal sequence and peptide fingerprints of this deaminase were determined, and ...	2007	17259310
hydrogen production by photoreactive nanoporous latex coatings of nongrowing rhodopseudomonas palustris cga009.	nonuniform light distribution is a fundamental limitation to biological hydrogen production by phototrophic bacteria. numerous light distribution designs and culture conditions have been developed to reduce self-shading and nonuniform reactivity within bioreactors. in this study, highly concentrated (2.0 x 108 cfu/mul formulation) nongrowing rhodopseudomonas palustris cga009 were immobilized in thin, nanoporous, latex coatings. the coatings were used to study hydrogen production in an argon atmo ...	2007	17269679
probing secondary, tertiary, and quaternary structure along with protein-cofactor interactions for a helical transmembrane protein complex through 1h spin diffusion with mas nmr spectroscopy.		2007	17283988
role of cysteine residues in 4-oxalomesaconate hydratase from pseudomonas ochraceae ngj1.	4-oxalomesaconate hydratase from pseudomonas ochraceae ngj1 is unstable in the absence of reducing reagents such as dithiothreitol, and strongly inhibited by 5,5'-dithiobis(2-nitrobenzoic acid) (dtnb). to study the role of cysteine residues in enzyme catalysis, the eight individual cysteine residues of the enzyme were replaced with serine residues by site-directed mutagenesis. the catalytic properties and chemical modification of wild- and mutant type-enzymes by dtnb showed that (i) none of eigh ...	2007	17284837
a comparison of stigmatellin conformations, free and bound to the photosynthetic reaction center and the cytochrome bc1 complex.	we describe in detail the conformations of the inhibitor stigmatellin in its free form and bound to the ubiquinone-reducing (q(b)) site of the reaction center and to the ubiquinol-oxidizing (q(o)) site of the cytochrome bc(1) complex. we present here the first structures of a stereochemically correct stigmatellin in complexes with a bacterial reaction center and the yeast cytochrome bc1 complex. the conformations of the inhibitor bound to the two enzymes are not the same. we focus on the orienta ...	2007	17337272
allelopathic effects of toxic haptophyte prymnesium parvum lead to release of dissolved organic carbon and increase in bacterial biomass.	the haptophyte prymnesium parvum has lytic properties, and it affects coexisting phytoplankton species through allelopathy. we studied the effect of p. parvum allelochemicals on the lysis of the nontoxic and nonaxenic cryptomonad rhodomonas salina and the consequent release of dissolved organic carbon (doc). changes in production, cell density, and biomass of associated bacteria were measured over 12 h. six different combinations of p. parvum and r. salina cultures, their cell- and bacteria-free ...	2007	17345140
purification, crystallization and preliminary crystallographic analysis of cytochrome p450 203a1 from rhodopseudomonas palustris.	cytochrome p450 enzymes constitute a large family of haemoproteins that catalyze the monooxygenation of a great variety of endogenous and exogenous organic compounds. cytochrome p450 203a1 (cyp203a1, rpa1009) from the metabolically versatile organism rhodopseudomonas palustris binds a broad range of substrates, in particular substituted aromatic compounds. crystals of cyp203a1 suitable for x-ray crystallography have been obtained and diffraction data were collected in-house to 2.0 a resolution f ...	2007	17401212
directed evolution of ribosomal protein s1 for enhanced translational efficiency of high gc rhodopseudomonas palustris dna in escherichia coli.	the expression of foreign dna in escherichia coli is important in biotechnological applications. however, the translation of genes from gc-rich organisms is inefficient in e. coli. to overcome this problem, we applied directed evolution to e. coli ribosomal protein s1. two selected mutants enabled 12- and 8-fold higher expression levels from gc-rich dna targets. general improvements in translation efficiency over a range of genes from rhodopseudomonas palustris and e. coli was achieved using an ...	2007	17412688
single-molecule spectroscopic characterization of light-harvesting 2 complexes reconstituted into model membranes.	the spectroscopic properties of the light-harvesting 2 complexes (lh2) from the purple bacterium rhodopseudomonas acidophila (strain 10050) in detergent micelles and reconstituted into lipid membranes have been studied by single-molecule spectroscopy. when lh2 complexes are solubilized from their host biological membranes by nondenaturing detergents, such as ldao, there is a small 2-nm spectral shift of the b850 absorption band in the ensemble spectrum. this is reversed when the lh2 complexes ar ...	2007	17416626
symmetry matters for the electronic structure of core complexes from rhodopseudomonas palustris and rhodobacter sphaeroides pufx-.	low-temperature (1.4 k), single-molecule fluorescence-excitation spectra have been recorded for individual reaction center-light-harvesting 1 complexes from rhodopseudomonas palustris and the pufx(-) strain of rhodobacter sphaeroides. more than 80% of the complexes from rb. sphaeroides show only broad absorption bands, whereas nearly all of the complexes from rps. palustris also have a narrow line at the low-energy end of their spectrum. we describe how the presence of this narrow feature indica ...	2007	17416676
ultrafast dynamics and excited state spectra of open-chain carotenoids at room and low temperatures.	many of the spectroscopic features and photophysical properties of carotenoids are explained using a three-state model in which the strong visible absorption of the molecules is associated with an s0 (1(1)ag-) --> s2 (1(1)bu+) transition, and the lowest lying singlet state, s1 (2(1)ag-), is a state into which absorption from the ground state is forbidden by symmetry. however, semiempirical and ab initio quantum calculations have suggested additional excited singlet states may lie either between ...	2007	17441762
structural characterisation of unsaturated bacterial hopanoids by atmospheric pressure chemical ionisation liquid chromatography/ion trap mass spectrometry.	the production of bacteriohopanepolyols (bhps) is widespread in many different groups of prokaryotes; however, unsaturated components are less common except amongst the acetic acid bacteria. here we describe the characterisation of mono- (delta(6) or delta(11)) and diunsaturated (delta(6,11)) bacteriohopanetetrols isolated from the acetic acid bacterium gluconacetobacter xylinus (formerly acetobacter aceti ssp. xylinum) by atmospheric pressure chemical ionisation ion trap mass spectrometry (apci ...	2007	17443490
screening and purification for novel cytochrome b5 from uncultured environmental micro-organisms.	we describe a sequence-based pcr method suitable for the isolation of a novel soluble heme-binding domain of cytochrome b(5) (cyt b(5)) gene directly from metagenomic dna is described.	2007	17451512
the o2-responsive repressor ppsr2 but not ppsr1 transduces a light signal sensed by the bphp1 phytochrome in rhodopseudomonas palustris cga009.	regulatory properties of bacteriophytochrome bphp1 were evaluated with respect to the photosynthesis gene transcription repressors ppsr1 and ppsr2 of rhodopseudomonas palustris strain cga009 in gene complementation, replacement and deletion experiments. the results indicate that 750 nm wavelength light activates bphp1 to antagonize repression of photosynthesis gene expression by ppsr2, but not ppsr1. it is suggested that an equilibrium exists between bphp1-active and -inactive conformations, wit ...	2007	17456182
phosphotransfer reactions of the cbbrrs three-protein two- component system from rhodopseudomonas palustris cga010 appear to be controlled by an internal molecular switch on the sensor kinase.	the cbbrrs system is an atypical three-protein two-component system that modulates the expression of the cbb(i) co(2) fixation operon of rhodopseudomonas palustris, possibly in response to a redox signal. it consists of a membrane-bound hybrid sensor kinase, cbbsr, with a transmitter and receiver domain, and two response regulator proteins, cbbrr1 and cbbrr2. no detectable helix-turn-helix dna binding domain is associated with either response regulator, but an hpt domain and a second receiver do ...	2007	17071758
a likely role for anoxygenic photosynthetic microbes in the formation of ancient stromatolites.	although cyanobacteria are the dominant primary producers in modern stromatolites and other microbialites, the oldest stromatolites pre-date geochemical evidence for oxygenic photosynthesis and cyanobacteria in the rock record. as a step towards the development of laboratory models of stromatolite growth, we tested the potential of a metabolically ancient anoxygenic photosynthetic bacterium to build stromatolites. this organism, rhodopseudomonas palustris, stimulates the precipitation of calcite ...	2007	20890383
a structural study of cadmium interaction with aquatic microorganisms.	the molecular mechanisms of cadmium toxicity for aquatic phototrophic microorganisms, reversible adsorption on the surface, and cellular uptake during growth were investigated by combining batch macroscopic experiments with atomic-level in situ cd k-edge x-ray absorption fine structure spectroscopy. the following species were examined: marine planktonic (skeletonema costatum, thalassiossira weissflogil) and freshwater periphytic (navicula minima, achnanthidium minutissum) diatoms, cyanobacteria ...	2008	18754471
crystal structure of cyp199a2, a para-substituted benzoic acid oxidizing cytochrome p450 from rhodopseudomonas palustris.	cyp199a2, a cytochrome p450 enzyme from rhodopseudomonas palustris, oxidatively demethylates 4-methoxybenzoic acid to 4-hydroxybenzoic acid. 4-ethylbenzoic acid is converted to a mixture of predominantly 4-(1-hydroxyethyl)-benzoic acid and 4-vinylbenzoic acid, the latter being a rare example of cc bond dehydrogenation of an unbranched alkyl group. the crystal structure of cyp199a2 has been determined at 2.0-a resolution. the enzyme has the common p450 fold, but the b' helix is missing and the g ...	2008	18762195
solution structure of a cyanobacterial phytochrome gaf domain in the red-light-absorbing ground state.	the unique photochromic absorption behavior of phytochromes (phys) depends on numerous reversible interactions between the bilin chromophore and the associated polypeptide. to help define these dynamic interactions, we determined by nmr spectroscopy the first solution structure of the chromophore-binding cgmp phosphodiesterase/adenylcyclase/fhla (gaf) domain from a cyanobacterial phy assembled with phycocyanobilin (pcb). the three-dimensional nmr structure of synechococcus os-b' cyanobacterial p ...	2008	18762196
autocatalysis in reactive black 5 biodecolorization by rhodopseudomonas palustris w1.	autocatalysis in biological decolorization of reactive black 5 (rb5) by rhodopseudomonas palustris w1 was investigated in batch assays. an improvement of 1.5-fold in decolorization rate of rb5 was obtained by supplementing decolorization metabolites from 200 mg l(-1) rb5. liquid chromatography-mass spectrometry and cyclic voltammetric analysis revealed that the constituent of dye precursors, from azo bonds breakage, with quinone-like structure and reversible oxidation-reduction activity can be u ...	2008	18762937
reclassification of rhodobium marinum and rhodobium pfennigii as afifella marina gen. nov. comb. nov. and afifella pfennigii comb. nov., a new genus of photoheterotrophic alphaproteobacteria and emended descriptions of rhodobium, rhodobium orientis and rhodobium gokarnense.	the isolation of photoheterotrophic organism c3 from a saline microbial mat led to its taxonomic characterization. strain c3 could be identified as a member of the species rhodobium marinum due to the genetic and phenotypic similarities to the type strain of the species (dsm 2698(t)). as a result of a taxonomic study, it was observed that the currently classified species of the genus formed two separate clades, each of them deserving genus status. rhodobium orientis and rhodobium gokarnense may ...	2008	18774253
novel carotenoid-based biosensor for simple visual detection of arsenite: characterization and preliminary evaluation for environmental application.	a novel whole-cell arsenite biosensor was developed using the photosynthetic bacterium rhodopseudomonas palustris no. 7 and characterized. a sensor plasmid containing the operator-promoter region of the ars operon and arsr gene from escherichia coli and the crti gene from r. palustris no. 7 was introduced into a blue-green mutant with crti deleted, r. palustris no. 711. the biosensor changed color in response to arsenite, and the change was obvious to the naked eye after 24 h without further man ...	2008	18776022
a new class of homoserine lactone quorum-sensing signals.	quorum sensing is a term used to describe cell-to-cell communication that allows cell-density-dependent gene expression. many bacteria use acyl-homoserine lactone (acyl-hsl) synthases to generate fatty acyl-hsl quorum-sensing signals, which function with signal receptors to control expression of specific genes. the fatty acyl group is derived from fatty acid biosynthesis and provides signal specificity, but the variety of signals is limited. here we show that the photosynthetic bacterium rhodops ...	2008	18563084
characterisation of uniformly 13c, 15n labelled bacteriochlorophyll a and bacteriopheophytin a in solution and in solid state: complete assignment of the 13c, 1h and 15n chemical shifts.	in this investigation we report a complete assignment of (13)c, (1)h and (15)n solution and solid state chemical shifts of two bacterial photosynthetic pigments, bacteriochlorophyll (bchl) a and bacteriopheophytin (bpheo) a. uniform stable-isotope labelling strategies were developed and applied to biosynthetic preparation of photosynthetic pigments, namely uniformly (13)c, (15)n labelled bchl a and bpheo a. uniform stable-isotope labelling with (13)c, (15)n allowed performing the assignment of t ...	2008	18802970
[selective distribution and physiological function of heterogeneous carotenoids in purple photosynthetic bacterium rhodopseudomonas palustris].	purple photosynthetic bacterium rhodopseudomonas (rps.) palustris is unique in the heterogeneous carotenoid compositions in peripheral light-harvesting complex (lh2) and core complex (lh1-rc). it is of great significance to investigate selective distribution and the physiological function of various carotenoids occurring in the pigment-protein complexes mentioned above. in the present paper, high performance liquid chromatogram (hplc) was applied to analyze the carotenoid composition in lh2 and ...	2008	18844139
theoretical investigation of the electronic asymmetry of the special pair cation radical in the photosynthetic type-ii reaction center.	the electronic asymmetry of the special pair cation radical in the photosynthetic reaction center was studied, using density functional calculations with a polarizable continuum model and a point charge model as the protein environment. the calculated spin density distribution between the halves of the special pair from rhodobacter sphaeroides agreed well with the experimental value due to the protein polarity effect. the differences in the specific orientations of the ester carbonyl groups of t ...	2008	18847236
bioremediation of trace cobalt from simulated spent decontamination solutions of nuclear power reactors using e. coli expressing nicot genes.	removal of radioactive cobalt at trace levels (approximately nm) in the presence of large excess (10(6)-fold) of corrosion product ions of complexed fe, cr, and ni in spent chemical decontamination formulations (simulated effluent) of nuclear reactors is currently done by using synthetic organic ion exchangers. a large volume of solid waste is generated due to the nonspecific nature of ion sorption. our earlier work using various fungi and bacteria, with the aim of nuclear waste volume reduction ...	2008	18949474
[distribution of bacteriochlorophyll between the pigment-protein complexes of the sulfur photosynthesizing bacterium allochromatium minutissimum depending on light intensity at different temperatures].	variation of the distribution of bacteriochlorophyll a (bchl a) between external antenna (lh2) and core complexes (lhl + rc) of the photosynthetic membrane of the sulfur bacterium allochromatium minutissimum was studied at light intensities of 5 and 90 wt/m2 in the temperature range of 12-43 degrees c. the increase of light intensity was shown to result in a 1.5- to 2-times increase of a photosynthetic unit (psu). psu sizes pass through a maximum depending on growth temperature, and the increase ...	2008	19004340
multiple genome sequences reveal adaptations of a phototrophic bacterium to sediment microenvironments.	the bacterial genus rhodopseudomonas is comprised of photosynthetic bacteria found widely distributed in aquatic sediments. members of the genus catalyze hydrogen gas production, carbon dioxide sequestration, and biomass turnover. the genome sequence of rhodopseudomonas palustris cga009 revealed a surprising richness of metabolic versatility that would seem to explain its ability to live in a heterogeneous environment like sediment. however, there is considerable genotypic diversity among rhodop ...	2008	19020098
[production of 5-aminolevulinic acid from organic industrial wastewater by photosynthetic bacteria].	we used rhodopseudomonas strains with high-yield of 5-aminolevulinic acid (ala) to produce ala from wastewater of producing monosodium glutamate, citric acid, beer, and soybean product.	2008	19062648
the 2008 lindau nobel laureate meeting: robert huber, chemistry 1988. interview by klaus j. korak.	robert huber and his colleagues, johann deisenhofer and hartmut michel, elucidated the three-dimensional structure of the rhodopseudomonas viridis photosynthetic reaction center. this membrane protein complex is a basic component of photosynthesis - a process fundamental to life on earth - and for their work, huber and his colleagues received the 1988 nobel prize in chemistry. because structural information is central to understanding virtually any biological process, huber likens their discover ...	2008	19066525
experimental approach for deep proteome measurements from small-scale microbial biomass samples.	many methods of microbial proteome characterizations require large quantities of cellular biomass (>1-2 g) for sample preparation and protein identification. our experimental approach differs from traditional techniques by providing the ability to identify the proteomic state of a microbe from a few milligrams of starting cellular material. the small-scale, guanidine lysis method minimizes sample loss by achieving cellular lysis and protein digestion in a single-tube experiment. for this experim ...	2008	19072265
enhancement of growth and yield of tomato by rhodopseudomonas sp. under greenhouse conditions.	a greenhouse test was carried out to examine the effects on tomato growth of application of purple non-sulfur bacterium rhodopseudomonas sp. which had enhanced germination and growth of tomato seed under axenic conditions. the shoot length of tomato plant inoculated by rhodopseudomonas sp. kl9 increased by 34.6% compared to that of control in 8 weeks of cultivation. during the same period, this strain increased 120.6 and 78.6% of dry weight of shoot and root of tomato plants, respectively. the f ...	2008	19107392
dynamic changes of microbial community diversity in a photohydrogen producing reactor monitored by pcr-dgge.	a pcr-dgge (denaturing gradient gel electrophoresis of polymerase chain reaction) protocol was used for monitoring the dynamic changes in the microbial population during photohydrogen production. total dna was extracted directly from the mixed bacterial community in the reactor and subjected to pcr with v3-16s rdna and pufm gene primers, and the amplifications were then analyzed by dgge. the dgge patterns demonstrated the dynamics of community structure and the shift of microbial diversity, whic ...	2008	19143320
biodecolorization and partial mineralization of reactive black 5 by a strain of rhodopseudomonas palustris.	a strain of photosynthetic bacterium, rhodopseudomonas palustris w1, isolated from a lab-scale anaerobic moving bed biofilm reactor (mbbr) treating textile effluent was demonstrated to decolorize reactive black 5 (rb5) efficiently under anaerobic condition. by a series of batch tests, the suitable conditions for rb5 decolorization were obtained, namely, ph < 10, light presence, glutamine or lactate as carbon source with concentration more than 500 mg/l when lactate is selected, nh4cl as a nitrog ...	2008	19143346
[stimulation of biodecolorization of direct yellow 11 by decolorization products of reactive black 5].	this study focused on the effects of decolorization products of reactive black 5 (rb5) on anaerobic decolorization of direct yellow 11 (dy11) by rhodopseudomonas palustris w1 and its reaction mechanisms. the results showed that the decolorization products of rb5 could obviously accelerate biological decolorization rate of dy11. for initial concentration of 200 mg/l of dy11, the addition of decolorization products of rb5 resulted in that the decolorization kinetic constant k was increased from 17 ...	2008	19186827
[isolation and purification of malate dehydrogenase isoforms from phototrophic purple bacteria rhodobacter sphaeroides and rhodopseudomonas palustris].	a five-step procedure was used to obtain electrophoretically pure preparations of malate dehydrogenase (ec 1.1.1.37) from rhodobacter sphaeroides and rhodopseudomonas palustris. the procedure included extraction, ammonium sulfate fractionation, gel filtration, and ion exchange and gel permeation chromatography. the enzyme was found to exist in two isoforms, dimeric and tetrameric, formed by the oligomerization of identical subunits. the isoforms are assumed to be involved in different metabolic ...	2008	19198073
intrinsic curvature properties of photosynthetic proteins in chromatophores.	in purple bacteria, photosynthesis is carried out on large indentations of the bacterial plasma membrane termed chromatophores. acting as primitive organelles, chromatophores are densely packed with the membrane proteins necessary for photosynthesis, including light harvesting complexes lh1 and lh2, reaction center (rc), and cytochrome bc(1). the shape of chromatophores is primarily dependent on species, and is typically spherical or flat. how these shapes arise from the protein-protein and prot ...	2008	18515401
[regulation of carbon flows in the tricarboxylic acid cycle-glyoxylate bypass system in rhodopseudomonas palustris under different growth conditions].	the functional roles of the malate dehydrogenase (mdh) tetrameric and dimeric isoforms in the metabolism of the purple nonsulfur phototrophic bacterium rhodopseudomonas palustris, strain f-8pt, was studied with the use of specific inhibitors. it was shown that the enzyme tetrameric form allows the functioning of the glyoxylate cycle and the dimeric form provides for the operation of the tricarboxylic acid cycle.	2008	18522315
stability of integral membrane proteins under high hydrostatic pressure: the lh2 and lh3 antenna pigment-protein complexes from photosynthetic bacteria.	the bacteriochlorophyll a-containing lh2 and lh3 antenna complexes are the integral membrane proteins that catalyze the photosynthetic process in purple photosynthetic bacteria. the lh2 complex from rhodobacter sphaeroides shows characteristic strong absorbance at 800 and 850 nm due to the pigment molecules confined in two separate areas of the protein. in the lh3 complex from rhodopesudomonas acidophila the corresponding bands peak at 800 and 820 nm. using the bacteriochlorophyll a cofactors as ...	2008	18537288
[trna-dependent editing of errors by prolyl-trna synthetase from bacteria enterococcus faecalis].	maintenance of amino acid specificity by aminoacyl-trna synthetases, particularly prolyl-trna synthetase, requires for not only specific recognition of homologic amino acid, but also missynthesized products hydrolysis, known as editing. the speeding-up of the enzymatic hydrolysis of missynthesized alanyl adenylate by bacteria enterococcus faecalis prolyl-trna synthetase in the presence of trnapro, and also importance for this function of 2'- and 3'-hydroxyle groups of trna 3'-terminal adenosine ...	2008	19351057
increasing coq10 production by rhodopseudomonas palustris j001 using a two-stage fermentation process.	coq10 is used not only as a medicine but also as a food supplement due to its various physiological activities. the production of coq10 by microbes is a successful approach for generating large amounts of this natural product. the effects of dissolved oxygen (do) contents and the two-stage fermentation process on cell growth and coq10 production by rhodopseudomonas palustris j001 were investigated. the optimal do contents for cell growth and coq10 production were 45% and 15%, respectively. a two ...	2008	19227839
characterization of anaerobic catabolism of p-coumarate in rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics.	in this study, the pathway for anaerobic catabolism of p-coumarate by a model bacterium, rhodopseudomonas palustris, was characterized by comparing the gene expression profiles of cultures grown in the presence of p-coumarate, benzoate, or succinate as the sole carbon sources. gene expression was quantified at the mrna level with transcriptomics and at the protein level with quantitative proteomics using (15)n metabolic labeling. protein relative abundances, along with their confidence intervals ...	2008	18156135
comments on the through-space singlet energy transfers and energy migration (exciton) in the light harvesting systems.	recent findings on the photophysical investigations of several cofacial bisporphyrin dyads for through space singlet and triplet energy transfers raised several serious questions about the mechanism of the energy transfers and energy migration in the light harvesting devices, notably lh ii, in the heavily studied purple photosynthetic bacteria. the key issue is that for simple cofacial or slipped dyads with controlled geometry using rigid spacers or spacers with limited flexibilities, the fastes ...	2008	18160130
proton transfer in the photosynthetic reaction center of blastochloris viridis.	photosynthetic reaction centers of blastochloris viridis require two quanta of light to catalyse a two-step reduction of their secondary ubiquinone q(b) to ubiquinol. we employed capacitive potentiometry to follow the voltage changes that were caused by the accompanying transmembrane proton displacements. at ph 7.5 and 20 degrees c, the q(b)-related voltage generation after the first flash was contributed by a fast, temperature-independent component with a time constant of approximately 30 micro ...	2008	18083123
structural analysis of photosynthetic membranes by cryo-electron tomography of intact rhodopseudomonas viridis cells.	during the photosynthetic process, highly organized membranal assemblies convert light into biochemical energy with high efficiency. we have used whole-mount cryo-electron tomography to study the intracellular architecture of the photosynthetic membranes of the anaerobic purple photosynthetic bacterium rhodopseudomonas viridis, as well as the organization of the photosynthetic units within the membranes. three-dimensional reconstruction demonstrates a continuity of the plasma membrane with the p ...	2008	17977019
dual role for a bacteriophytochrome in the bioenergetic control of rhodopseudomonas palustris: enhancement of photosystem synthesis and limitation of respiration.	in the purple photosynthetic bacterium rhodopseudomonas palustris, far-red illumination induces photosystem synthesis via the action of the bacteriophytochrome rpbphp1. this bacteriophytochrome antagonizes the repressive effect of the transcriptional regulator ppsr2 under aerobic condition. we show here that, in addition to photosystem synthesis, far-red light induces a significant growth rate limitation, compared to cells grown in the dark, linked to a decrease in the respiratory activity. the ...	2008	17988648
phycocyanin sensitizes both photosystem i and photosystem ii in cryptophyte chroomonas ccmp270 cells.	this article presents an investigation of the energy migration dynamics in intact cells of the unicellular photosynthetic cryptophyte chroomonas ccmp270 by steady-state and time-resolved fluorescence measurements. by kinetic modeling of the fluorescence data on chlorophyll and phycocyanin 645 excitation (at 400 and 582 nm respectively), it has been possible to show the excited state energy distribution in the photosynthetic antenna of this alga. excitation energy from phycocyanin 645 is distribu ...	2008	18024506
electricity generation by rhodopseudomonas palustris dx-1.	bacteria able to generate electricity in microbial fuel cells (mfcs) are of great interest, but there are few strains capable of high power production in these systems. here we report that the phototrophic purple nonsulfur bacterium rhodopseudomonas palustris dx-1, isolated from an mfc, produced electricity at higher power densities (2720 +/- 60 mw/m2) than mixed cultures in the same device. while rhodopseudomonas species are known for their ability to generate hydrogen, they have not previously ...	2008	18589979
a general system for studying protein-protein interactions in gram-negative bacteria.	one of the most promising methods for large-scale studies of protein interactions is isolation of an affinity-tagged protein with its in vivo interaction partners, followed by mass spectrometric identification of the copurified proteins. previous studies have generated affinity-tagged proteins using genetic tools or cloning systems that are specific to a particular organism. to enable protein-protein interaction studies across a wider range of gram-negative bacteria, we have developed a methodol ...	2008	18590317
extracellular 5-aminolevulinic acid production by escherichia coli containing the rhodopseudomonas palustris kugb306 hema gene.	the rhodopseudomonas palustris kugb306 hema gene codes for 5-aminolevulinic acid (ala) synthase. this enzyme catalyzes the condensation of glycine and succinyl-coa to yield ala in the presence of the cofactor pyridoxal 5'- phosphate. the r. palustris kugb306 hema gene in the pgex-kg vector system was transformed into escherichia coli bl21. the effects of physiological factors on the extracellular production of ala by the recombinant e. coli were studied. terrific broth (tb) medium resulted in si ...	2008	18600059
control of peripheral light-harvesting complex synthesis by a bacteriophytochrome in the aerobic photosynthetic bacterium bradyrhizobium strain btai1.	the recent sequence analysis of the photosynthetic and plant-symbiotic bradyrhizobium sp. strain btai1 revealed the unexpected presence of a pucba operon encoding the apoproteins of peripheral light-harvesting (lh) complexes. this pucba operon is found close to a bacteriophytochrome gene (bphp3(b btai1)) and a two-component transcriptional regulator gene (tf(btai1) gene). in this study, we show that bphp3(b btai1) acts as a bona fide bacteriophytochrome and controls, according to light condition ...	2008	18606738
probing the effect of the binding site on the electrostatic behavior of a series of carotenoids reconstituted into the light-harvesting 1 complex from purple photosynthetic bacterium rhodospirillum rubrum detected by stark spectroscopy.	reconstitutions of the lh1 complexes from the purple photosynthetic bacterium rhodospirillum rubrum s1 were performed with a range of carotenoid molecules having different numbers of c=c conjugated double bonds. since, as we showed previously, some of the added carotenoids tended to aggregate and then to remain with the reconstituted lh1 complexes (nakagawa, k.; suzuki, s.; fujii, r.; gardiner, a.t.; cogdell, r.j.; nango, m.; hashimoto, h. photosynth. res. 2008, 95, 339-344), a further purificat ...	2008	18613723