Cell yield and bioenergetics of Thiomicrospira denitrificans compared with Thiobacillus denitrificans

From cell yields of Thiomicrospira denitrificans grown in the chemostat at different growth rates under anaerobic conditions a value of 1.4mm S₂O _inf3 ^sup= per g dry wt and per h could be calculated for maintenance energy requirements, and of 5.65 g dry wt per mole S₂O _inf3 ^sup= for the true growth yield.Cell yields of Thiomicrospira denitrificans appeared to be almost half of those of Thiobacillus denitrificans. Though in Thiobacillus denitrificans at D=0.03 h^-1 under anaerobic conditions a value was found of 11.60 g dry wt per mole of thiosulphate used for energetic purposes, a value of 5.72 g dry wt per mole of thiosulphate was found under comparable conditions in Thiomicrospira denitrificans. Under aerobic conditions at D=0.03 h^-1 values of 18.54 g dry wt per mole of thiosulphate were found in Thiobacillus denitrificans whereas Thiomicrospira denitrificans yielded only 9.38 g dry wt per mole of thiosulphate.As in Thiobacillus denitrificans anaerobic cell yields on sulphide were comparable to those on thiosulphate.Calculations have been made which indicate that the biosynthetic efficiency of Thiomicrospira denitrificans is lower than that of Thiobacillus denitrificans. This can only partly be explained by the absence of adenosine-phosphosulphate (APS) reductase.     

Development of a genetic system for the chemolithoautotrophic bacterium Thiobacillus denitrificans

Thiobacillus denitrificans is a widespread, chemolithoautotrophic bacterium with an unusual and environmentally relevant metabolic repertoire, which includes its ability to couple denitrification to sulfur compound oxidation; to catalyze anaerobic, nitrate-dependent oxidation of Fe(II) and U(IV); and to oxidize mineral electron donors. Recent analysis of its genome sequence also revealed the presence of genes encoding two [NiFe]hydrogenases, whose role in metabolism is unclear, as the sequenced strain does not appear to be able to grow on hydrogen as a sole electron donor under denitrifying conditions. In this study, we report the development of a genetic system for T. denitrificans, with which insertion mutations can be introduced by homologous recombination and complemented in trans. The antibiotic sensitivity of T. denitrificans was characterized, and a procedure for transformation with foreign DNA by electroporation was established. Insertion mutations were generated by in vitro transposition, the mutated genes were amplified by the PCR, and the amplicons were introduced into T. denitrificans by electroporation. The IncP plasmid pRR10 was found to be a useful vector for complementation. The effectiveness of the genetic system was demonstrated with the hynL gene, which encodes the large subunit of a [NiFe]hydrogenase. Interruption of hynL in a hynL::kan mutant resulted in a 75% decrease in specific hydrogenase activity relative to the wild type, whereas complementation of the hynL mutation resulted in activity that was 50% greater than that of the wild type. The availability of a genetic system in T. denitrificans will facilitate our understanding of the genetics and biochemistry underlying its unusual metabolism.     

The genome sequence of the obligately chemolithoautotrophic, facultatively anaerobic bacterium Thiobacillus denitrificans

The complete genome sequence of Thiobacillus denitrificans ATCC 25259 is the first to become available for an obligately chemolithoautotrophic, sulfur-compound-oxidizing, beta-proteobacterium. Analysis of the 2,909,809-bp genome will facilitate our molecular and biochemical understanding of the unusual metabolic repertoire of this bacterium, including its ability to couple denitrification to sulfur-compound oxidation, to catalyze anaerobic, nitrate-dependent oxidation of Fe(II) and U(IV), and to oxidize mineral electron donors. Notable genomic features include (i) genes encoding c-type cytochromes totaling 1 to 2 percent of the genome, which is a proportion greater than for almost all bacterial and archaeal species sequenced to date, (ii) genes encoding two [NiFe]hydrogenases, which is particularly significant because no information on hydrogenases has previously been reported for T. denitrificans and hydrogen oxidation appears to be critical for anaerobic U(IV) oxidation by this species, (iii) a diverse complement of more than 50 genes associated with sulfur-compound oxidation (including sox genes, dsr genes, and genes associated with the AMP-dependent oxidation of sulfite to sulfate), some of which occur in multiple (up to eight) copies, (iv) a relatively large number of genes associated with inorganic ion transport and heavy metal resistance, and (v) a paucity of genes encoding organic-compound transporters, commensurate with obligate chemolithoautotrophy. Ultimately, the genome sequence of T. denitrificans will enable elucidation of the mechanisms of aerobic and anaerobic sulfur-compound oxidation by beta-proteobacteria and will help reveal the molecular basis of this organism's role in major biogeochemical cycles (i.e., those involving sulfur, nitrogen, and carbon) and groundwater restoration.     

Anaerobic, nitrate-dependent oxidation of U(IV) oxide minerals by the chemolithoautotrophic bacterium Thiobacillus denitrificans

Under anaerobic conditions and at circumneutral pH, cells of the widely distributed, obligate chemolithoautotrophic bacterium Thiobacillus denitrificans oxidatively dissolved synthetic and biogenic U(IV) oxides (uraninite) in nitrate-dependent fashion: U(IV) oxidation required the presence of nitrate and was strongly correlated with nitrate consumption. This is the first report of anaerobic U(IV) oxidation by an autotrophic bacterium.     

脱氮硫杆菌特异引物/探针的设计和评价

自脱氮硫杆菌(Thiobacillus denitrificans)16S rRNA基因V3可变区中发现一条27 bp的特异序列, 以该序列为反向引物, 对高效同步脱硫反硝化系统污泥DNA进行了温度梯度PCR扩增和基因文库构建, 结果证实了该引物的高度专一性。应用该探针在去离子甲酰胺和NaCl的浓度分别为35%和100 mmol/L, 杂交/洗脱温度为48°C条件下对污泥样品杂交得到较好的阳性结果, 软件分析表明脱氮硫杆菌在污泥中约占15%。脱氮硫杆菌专一性引物/探针的提出, 将为不同生态环境中该种微生物的时空分布、结构动态以及实时定量等研究提供分子生物学工具。     

Intermediates of denitrification in the chemoautotroph Thiobacillus denitrificans

Summary Intact cells obtained from Thiobacillus denitrificans grown autotrophically with thiosulfate as the oxidizable substrate and nitrate as the final electron acceptor catalyzed the reduction of nitrate, nitrite and nitric oxide stoichiometrically to nitrogen gas with the concomitant oxidation of thiosulfate. In addition, nitrous oxide was also capable of acting as the terminal oxidant of the respiratory chain with thiosulfate as the reductant. The anaerobic oxidation of thiosulfate by NO₃ ^-, NO, and N₂O was sensitive to the flavoprotein inhibitors, antimycin A or NHQNO, and cyanide or azide thus, implicating the participation of flavins, and cytochromes of b-, c-, and a-types in the denitrification process. The nitrite reductase system, however, was not markedly affected by the electron transport chain inhibitors. The experimental observations suggest that the dissimilatory nitrate reduction in the chemoautotroph T. denitrificans involves nitrite, nitric oxide, and nitrous oxide as theintermediates with nitrogen gas as the final reduction product.Non-Standard Abbreviations TTFA Thenoyltrifluoroacetone - NHQNO 2-n-nonyl-4-hydroxyquinoline N-oxide     

脱氮硫杆菌对硫酸盐还原菌生长的抑制作用

为了研究脱氮硫杆菌(Thiobacillus denitrificans,TDN)对硫酸盐还原菌(sulfate-reducing bacteria,SRB)生长的影响,将从污水中分离到的硫酸盐还原菌和从pH为2~3的酸性土壤中分离到的脱氮硫杆菌(TDN)用于含适当浓度硫酸盐和硝酸盐的模拟污水的处理,并测定单菌或混菌培养后系统中硫酸盐、硝酸盐浓度的变化以及硫化氢的产量。结果表明,在仅接种硫酸盐还原菌的培养系统中,硫酸盐和硝酸盐的含量分别降低4.8%和1.0%;而在同时接种脱氮硫杆菌和硫酸盐还原菌的系统中硫酸盐的含量升高了4.7%,但硝酸盐氮含量降低了25%,这一作用随着培养基中硝酸盐起始浓度的提高而得到加强。另外,混菌培养系统的硫化氢浓度比单一硫酸盐还原菌培养系统降低了65.93%。由此推断,在混菌培养系统中,脱氮硫杆菌通过其反硝化过程产生的代谢产物使硫酸盐还原菌的生长环境条件发生改变,从而抑制其生长并减少了硫化氢的产生。这对预防硫酸盐还原菌带来的不利影响提供了有效的措施。     

Thermotolerance of adenylylsulfate reductase from Thiobacillus denitrificans

Abstract Adenylylsulfate (APS) and APS reductase are important in the energy-generating processes of sulfate-reducing bacteria and sulfur lithotrophs (phototrophs and nonphototrophs). APS reductase from an extremely thermophilic archaebacterial sulfate-reducer was recently shown to be thermophilic with optimal activity at 85°C (Speich and Truper (1988) J. Gen. Microbiol. 134, 1419–1425). APS reductase of Thiobacillus denitrificans , a mesophilic eubacterium, has biochemical and physical properties in common with the thermophilic enzyme and is also thermotolerant (up to 75°C). APS reductase and other enzymes of dissimilative inorganic sulfur metabolism may commonly be thermotolerant is mesophilic eubacteria; perhaps a vestige of their primordial significance.     

Some properties of the rhodanese system of Thiobacillus denitrificans

1. Rhodanese has been extracted from Thiobacillus denitrificans by ultrasonic disintegration of the cells. 2. Studies with Sephadex columns have shown that the enzyme aggregates, forming a tetramer. 3. The molecular weights of the monomer and of an enzymically active sub-unit one-quarter this size have been determined by gel filtration. 4. Higher-molecular-weight forms of rhodanese are broken down by mercaptoethanol to enzymically active fragments of mol.wt. 7000 and 2000 respectively. 5. It is suggested that these fragments are linked in vivo via disulphide bridges to form the monomer, which can then aggregate via further disulphide links. 6. The fragment of mol.wt. 7000 has been obtained in a substantially pure state. 7. Both disulphide and thiol groups are necessary for enzyme activity. 8. Similarities and differences existing between bacterial rhodanese, mammalian rhodanese and beta-mercaptopyruvate sulphurtransferase are discussed.     

Anaerobic Production of Thiobacillus denitrificans for the Enzyme Rhodanese

A method for the anaerobic growth of Thiobacillus denitrificans in a 140-liter (total capacity) stainless-steel culture vessel is described. As a result of controlling the pH value of cultures, and of ensuring that certain essential nutrients were in excess, cell yields approaching 700 mg (dry weight) per liter were obtained. These were over threefold higher than the best yields hitherto reported. The average rhodanese content of the cells from four cultures was 176,000 units per gram (dry weight). Adenosine-5′-phosphosulfate reductase (average content, 238 units per gram dry weight) and adenylate kinase (average content, 15,300 units per gram, dry weight) were also present.     

Effects of organic compounds on growth of chemostat cultures of Thiomicrospira pelophila,Thiobacillus thioparus and Thiobacillus neapolitanus

Summary Cultures of Thiomicrospira pelophila, Thiobacillus thioparus and Thiobacillus neapolitanus were grown in thiosulfate-limited chemostats in a mineralsthiosulfate medium with and without organic supplements. Acetate, succinate and mixtures of amino acids increased the dry weight by 12–24% and the protein by 11–38%. Addition of both acetate and succinate had a cumulative effect. Saccharose, glucose, fructose, ribose, glycerol, glycerate, pyruvate, lactate or malate were without effect. The increase in dry weight of T. neapolitanus by ¹⁴C-acetate was directly related to the relative contribution of this compound to the total cell carbon.In CO₂-limited cultures of T. neapolitanus the effects of acetate on dry weight and protein were similar to those found in thiosulfate-limited cultures. In CO₂-limited cultures of T. pelophila a combination of acetate and succinate caused an increase in dry weight of 27% and of 50% in protein, the increase in protein being twice as high as in thiosulfate-limited cultures.There were no measurable differences in the activities of ribulosediphosphate carboxylase (RudPcase) in cell free extracts obtained from thiosulfate- or CO₂-limited cultures of T. pelophila or T. neapolitanus grown in the presence or absence of organic compounds. In T. pelophila the RudPcase activity was almost constant at all growth rates tested, and independent of the type of growth-limitation. For T. neapolitanus the specific RudPcase activity varied slightly with the growth rate. In CO₂-limited cultures the activity was three times that found in thiosulfate-limited cultures, thus showing that the RudPcase activity can be influenced by nutritional conditions.     

Energy coupling to nitrate uptake into the denitrifying cells of Paracoccus denitrificans

This study deals with the effects of the agents that dissipate the individual components of the proton motive force (short-chain fatty acids, nigericin, and valinomycin) upon the methyl viologen-coupled nitrate reductase activity in intact cells. Substitution of butyrate or acetate for chloride in Tris-buffered assay media resulted in a marked inhibition at pH 7. In a Tris--chloride buffer of neutral pH, the reaction was almost fully inhibitable by nigericin. Alkalinisation increased the IC(50) value for nigericin and decreased the maximal inhibition attained. Both types of inhibitions could be reversed by the permeabilisation of cells or by the addition of nitrite, and that caused by nigericin disappeared at high extracellular concentrations of potassium. These data indicate that nitrate transport step relies heavily on the pH gradient at neutral pH. Since the affinity of cells for nitrate was strongly diminished by imposing an inside-positive potassium (or lithium) diffusion potential at alkaline external pH, a potential dependent step may be of significance in the transporter cycle under these conditions. Experiments with sodium-depleted media provided no hints for Na(+) as a possible H(+) substitute.     

Genomic organization of the acidophilic chemolithoautotrophic bacterium Thiobacillus ferrooxidans ATCC 21834.

The genomic organization of the acidophilic chemolithoautotrophic bacterium Thiobacillus ferrooxidans ATCC 21834 has been studied by pulsed-field gel electrophoresis (PFGE). Analysis of its intact DNA, as well as the restriction patterns obtained with several endonucleases, allowed the characterization of one circular chromosome of 2.9 Mb and one plasmid of 8.6 kb. The first complete and highly resolved physical map (86 restriction sites) of the chromosome of an acidophilic obligate chemolithoautotrophic bacterium has been constructed by using endonucleases PmeI, SwaI, XbaI, and SpeI. The rRNA and str operons have been located on the chromosomal physical map.     

Physiology and kinetics of autotrophic denitrification by Thiobacillus denitrificans

Summary A strain of Thiobacillus denitrificans was isolated after enrichment under anaerobic conditions by the continuous culture technique using thiosulfate as energy source and nitrate as electron acceptor and nitrogen source. The isolate was an active denitrifyer, the optimal conditions being 30°C and pH 7.5–8.0. Denitrification was inhibited by sulfate (the reaction product) above 5 g SO ₄ ⁼ /l, whereas high concentrations of the substrates nitrate and thiosulfate were less harmful; nitrite affected denitrification above 0.2 g NO ₂ ^– /l. During the time course of denitrification in a batch culture growth and substrate consumption slowed down already after only half the substrate was utilized due to product inhibition. The following parameters were determined in continuous culture under nitrate limitation: _max=0.11 h^–1, K _S=0.2 mg NO ₃ ^– /l, maximum denitrification rate=0.78 g NO ₃ ^– /g cells·h, g cells/g NO ₃ ^– , g cells/g S₂O ₃ ⁼ . Nitrite did not accumulate during steady state denitrification; the denitrification gas was almost pure N₂. The concentrations of N₂O and NO were below 1 ppm.     

Phylogenetic analysis of the genera Thiobacillus and Thiomicrospira by 5S rRNA sequences.

5S rRNA nucleotide sequences from Thiobacillus neapolitanus, Thiobacillus ferrooxidans, Thiobacillus thiooxidans, Thiobacillus intermedius, Thiobacillus perometabolis, Thiobacillus thioparus, Thiobacillus versutus, Thiobacillus novellus, Thiobacillus acidophilus, Thiomicrospira pelophila, Thiomicrospira sp. strain L-12, and Acidiphilium cryptum were determined. A phylogenetic tree, based upon comparison of these and other related 5S rRNA sequences, is presented. The results place the thiobacilli, Thiomicrospira spp., and Acidiphilium spp. in the "purple photosynthetic" bacterial grouping which also includes the enteric, vibrio, pseudomonad, and other familiar eubacterial groups in addition to the purple photosynthetic bacteria. The genus Thiobacillus is not an evolutionarily coherent grouping but rather spans the full breadth of the purple photosynthetic bacteria.     

Denitrification with Thiobacillus denitrificans in the ANANOX® process

Summary Thiobacillus denitrificans is a chemoautotrophic microorganism which is able to denitrify utilizing sulphides as electron donors. It has been found in the anoxic chamber of a ANANOX pilot plant, where the effluent from an anaerobic step is mixed with a clarified nitrified stream. Its presence resulted in a high denitrification rate, oxidizing sulphide to sulphate, and reducing nitrate to nitrogen gas.     

Aerobic oxidation of hydrogen sulfide by Thiobacillus denitrificans

It has been demonstrated that Thiobacillus denitrificans may be readily cultured aerobically in batch and continuous flow reactors on H(2)S(g) under sulfide limiting conditions. Under these conditions sulfide concentrations in the culture medium were less than 1muM resulting in very low concentrations of H(2)S in the reactor outlet gas. Biomass yield under aerobic conditions was much lower than previously reported for anaerobic conditions, presumably because of oxygen inhibition of growth. However, biomass yield was not affected by steady state oxygen concentration in the range of 45muM-150muM. Biomass yield was also observed to be essentially independent of specific growth rate in the range of 0.030-0.053 h(-1). Indicators of reactor upset were determined and recovery from upset conditions demonstrated. Maximum loading of the biomass for H(2)S oxidation under aerobic conditions was observed to be 15.1-20.9 mmol/h/g biomass which is much higher than previously reported for aerobic conditions. Other aspects of the stoichiometry of aerobic H(2)S oxidation are also reported.