The role of sulfate‐reducing bacteria in the deposition of sedimentary uranium ores

The formation of many important sediment‐hosted uranium ore deposits is thought to have resulted from the reduction of relatively soluble uranyl ion—U(VI)—to insoluble uranium (IV) oxides and silicates by aqueous sulfide species. This study focused on the influence that the sulfate‐reducing bacteria Desulfovibrio desulfuricans (ATCC 7757) has on this process. Preliminary studies showed that bacterial growth was not inhibited by concentrations of uranyl ion up to 100 mg U per liter. More detailed studies showed that sulfate‐reducing bacteria have an influence on uranyl ion removal beyond the simple production of the aqueous sulfide reductant. Comparative studies of bacterial cultures containing high densities of the sulfate reducers with bacterial cell‐free but otherwise identical media showed that the bacteria themselves enhance uranium removal from solution. At pH 8.0, no reaction was observed in H₂S‐bearing cell‐free media, whereas at the same H₂S concentration, the uranyl ion decreased markedly in the presence of the bacteria. At pH 7.0, some uranium removal occurred in the absence of bacteria, but it was much more rapid in their presence. We postulate that these effects are due to the ability of bacterial cell walls to adsorb uranium. Adsorption to surfaces is known from independent studies to enhance uranium reduction, and evidently this two‐step adsorption‐reduction mechanism is occurring in our experiments. We conclude that sulfate‐reducing and other bacteria may play a significant role in the geochemical cycling of uranium.     

Role of sulfate‐reducing bacteria in corrosion of mild steel: A review

The influence of sulfate‐reducing bacteria on corrosion of mild steel is reviewed, with special emphasis on the effects of biofilm structure and function, medium composition (dissolved oxygen and ferrous ion concentrations) and the physical and chemical properties of iron sulfides. A summary of different corrosion mechanisms is critically discussed, based on electrochemical and rate process analyses. A mechanism is proposed which explains the high corrosion rates observed in the field.     

Isolation of facultatively anaerobic soil bacteria from Ny-Ålesund, Svalbard

Anaerobic conditions in soil commonly occur even in upland environments. Physiological and biogeochemical properties of individual anaerobic bacteria, however, have been poorly understood due to difficulties in culture. This study aimed to isolate anaerobic bacteria in the Arctic tundra soil and to identify their physiological characteristics. Anaerobic culture and 16S rRNA gene sequence-based phylogenetic analysis showed that total 33 bacterial strains were affiliated with 15 species from the following 8 genera: Bacillus, Carnobacterium, Clostridium, Paenibacillus, and Trichococcus (Firmicutes), Pseudomonas and Rahnella (Gamma-proteobacteria), and Cellulomonas (Actinobacteria). All isolates were identified as facultatively anaerobic bacteria; this finding might be partially attributed to the characteristics of sampling sites, which temporarily developed anaerobic conditions because of the presence of stagnant melting snow. Six of the 33 bacterial strains were revived subsequently from glycerol stocks held ?80 °C, and these were used for the physiological study: four isolates from Firmicutes, one isolate from Gamma-proteobacteria, and one isolate from Actinobacteria. Five isolates except KOPRI 80146 (Bacillus sp.) could grow at either 4 or 10 °C within a week. All six isolates showed cellulase or protease activities at 10 or 15 °C. Endospores were observed from four isolates belonging to Firmicutes. These physiological characteristics may contribute to the survival of these organisms at low temperatures and to their involvement in biogeochemical cycles in the tundra soil. These isolates may be used for further detailed studies for identifying their cold adaptation mechanisms and ecological roles in the Arctic.     

A diverse deep‐marine Ichnofauna from the Eocene Tarcau sandstone of the Eastern Carpathians,Romania

The Paleocene to Middle Eocene Tarcau Sandstone at Buzau Valley, eastern Carpathians, Romania, records sedimentation in a turbidite system. These strata contain a diverse and abundant pre‐ and postdepositional ichnofauna consisting of 35 ichnogenera and 54 ichnospecies. The predepositional assemblage is rich in graphoglyptids and ornate grazing trails; simple grazing trails, resting traces, and feeding structures also occur. The predepositional assemblage includes Acan‐thorhaphe, Belorhaphe, Cardioichnus, Circulichnus, Coch‐lichnus, Cosmorhaphe, Desmograpton, Fustiglyphus, Gordia, Helicolithus, Helminthopsis, Helminthorhaphe, Lorenzinia, Megagrapton, Paleodictyon, Paleomeandron, Protopaleodictyon, Scolicia (S. strozzii), Spirorhaphe, Spirophycus, Treptichnus, and Urohelminthoida. The ich‐nodiversity, composition, ethology, and morphologic complexity of the predepositional association are indicative of the Nereites ichnofacies. The postdepositional association essentially consists of dwelling, feeding, and grazing traces, and is represented by Chondrites, Glockerichnus, Halopoa, Nereites, Ophiomorpha, Phycodes, Planolites, Polykampton, Scolicia(S. prisca. S. striata), Taenidium, Thalassinoides, and Zoophycos. Palaeophycus occurs in both assemblages. Allochthonous Teredolites is present in wood fragments, The postdepositional association includes elements of the Skolithos ichnofacies and facies‐crossing forms that are commonly present in deep‐marine deposits, Elements of the Skolithos ichnofacies are present not only in the most proximal parts of the turbidite system, but also in distal parts. The number of predepositional forms greatly exceeds postdepositional ones, reflecting a dominance of K‐selected over r‐selected population strategies in a stable environment. High levels of ichnodiversity in the Tarcau Sandstone are comparable with deep‐sea ichnofaunas from the Polish Carpathians and with other flysch trace‐fossil assemblages of similar age. This abundant and diverse Eocene ichnofauna supports the idea of extremely rich deep‐sea ichnofaunas in the Cenozoic.     

Isolation of β-Tocopherol from the Root Bark of the Mulberry Tree

Kluyvera citrophila KY7844 enzymatically catalyzed N-acylation of 7-amino-desacetoxycephalosporanic acid with 1-(1H)-tetrazolylacetate methylester to produce 7-[1-(1H)-tetrazolylacetamido]-desacetoxycephalosporanic acid. The product was purified and characterized.     

Volatile compounds from the symbiotic system Azolla filiculoides‐Anabaena azollae bacteria

Abstract

Azolla filiculoides is an aquatic pteridophyte that may be used as animal food, biofertilizer and phytoremediation. Its volatile composition was never studied although several phytochemical analyses were performed. The volatile composition of A. filiculoides grown outdoors in a pond at the Botanical Garden of Lisbon University (BGLU) or in culture conditions as well as the effect of different harvesting times and the storage type were evaluated. The volatiles isolated by hydrodistillation and distillation‐extraction were analysed by gas chromatography and gas chromatography‐mass spectrometry. The oil of all the A. filiculoides samples studied affords a yellowish colour and an unpleasant odour in a yield of 0.01% (v/fw). Alcohols, aldehydes, alkanes and ketones dominated the culture samples, while aldehydes, alcohols, terpenoids and alkanes represented the main volatiles of the BGLU samples. Some quantitative differences were detected in seasonal and type of storage (fresh, dry or frozen at ?20°C) studies of A. filiculoides from the BGLU. The BGLU and culture volatiles showed qualitative differences: 2‐ethyl‐1‐hexanol was only identified in the fern culture, whereas acetophenone, pentylfuran, acetylpyridine and 2‐octanone were only detected in BGLU samples. The dendrogram showed two distinct clusters (culture and BGLU samples). The possible biological origin and bioactivity of some of the volatile compounds is discussed.

Abbreviations: FID, flame ionization detector; i.d., internal diameter; v/fw, volume by fresh weight; GC, gas chromatography; GC‐MS, gas chromatography‐mass spectrometry; u, unified atomic mass unit     

Isolation and characterization of marine biofilm forming bacteria from a ship’s hull

Background

Diverse aquatic microorganisms are capable of colonizing living and non-living surfaces leading to the formation of biofilms. Commonly visualized as a slimy layer, these biofilms are filled with hundreds of other microorganisms compared to free living planktonic cells. Microbial surface colonization and surface-associated metabolic activities also exert several macroscale deleterious effects, including biofouling, biocorrosion and the persistence and transmission of harmful or pathogenic microorganisms and virulence determinants. The present study deals with the isolation and screening of marine bacteria for biofilm formation. The screened isolates were characterized and identified as Pychrobacter celer, Pychrobacter alimentarius and Kocuria rhizophila by 16S rRNA sequencing.

Methods

Biofilm forming bacteria were isolated by spread plate technique and subjected to screening by microtiter plate assay. The potent biofilm formers were identified by molecular characterization using 16S rRNA gene sequencing.

Results

Twelve bacterial isolates were obtained by pour plate technique and subjected to biofilm assay. Among the 12 isolates three isolates which showed maximum biofilm formation were subjected to molecular characterizationby 16S rRNA gene sequencing method. The isolates were identified as Pychrobacter celer, Pychrobacter alimentarius and Kocuria rhizophila. The EPS produced by the three biofilm forming bacteria was extracted and the protein and carbohydrate content determined.

Conclusion

Among the isolates screened, isolate 8 (Kocuria rhizophila) produced maximum protein and carbohydrate which was also in accordance with the results of microtiter plate assay.

     

The use of biocides to control sulphate‐reducing bacteria in biofilms on mild steel surfaces

Three different types of biocides, viz. formaldehyde (FM), glutaraldehyde (GA) and isothiozolone (ITZ) were used to control planktonic and sessile populations of two marine isolates of sulphate‐reducing bacteria (SRB). The influence of these biocides on the initial attachment of cells to mild steel surfaces, on subsequent biofilm formation and on the activity of hydrogenase enzymes within developed biofilms was evaluated. In the presence of biocides the rate and degree of colonization of mild steel by SRB depended on incubation time, bacterial isolate and the type of biocide used. Although SRB differed in their susceptibility to biocides, for all isolates the biofilm population was more resistant to the treatment than the planktonic population. GA showed highest efficiency in controlling planktonic and sessile SRB compared with the other two biocides. The activity of the enzyme hydrogenase measured in SRB biofilms varied between isolates and with the biocide treatment. No correlation was found between the number of sessile cells and hydrogenase activity.     

Isolation of the sesquiterpene alcohol (−)-pacifigorgiol from valeriana officinalis

A tertiary bicyclic sesquiterpene alcohol has been isolated from Valeriana officinalis, and identified as (−)-pacifigorgiol, the optical antipode of the alcohol isolated from Pacifigorgia adamsii.     

Geographic limitations in the movement of Deep‐Draft tankers between the Indian and pacific oceans

Abstract

The need to move increasing volumes of petroleum over long distances has stimulated the construction of a large fleet of tankers of unprecedented dimensions. The extraordinarily deep drafts of these ships have necessitated a reevaluation of the extent of navigable ocean. Because some major shipping lanes are closed to their movement, alternative routes have developed. For this study, hydrographic charts of the passages between the Indian and Pacific oceans were examined in detail and special purpose maps were constructed. The patterns illustrate the categories of negative ocean, open ocean, and ocean conditional for the movement of deep‐draft ships. Actual and potential routeways for deep‐draft ships past Southeast Asia are identified and the limitations of the Malacca/Singapore straits are described in greater detail.     

Influence of sulfate enrichment on the carbon dioxide and phosphate fluxes across the sediment–water interface

Fluxes of CO2 and o-P across the sediment-water interfacewere measured adding different amounts of sulfatein order to quantify the influence in these processes againsta control, and using chloramphenicol as an inhibitor ofbacterial activity. These experiments were performed underoxic and anoxic conditions. Results show that the additionof sulfate stimulated the fluxes of CO2 and o-P, whilethe use of chloramphenicol decreased these fluxes. Theratio of o-P release to Org-C release ranged from 1 to 5 underoxic conditions and from 18 to 42 under anoxicconditions.     

Spatial and seasonal distribution of the tuna catch on floating objects in the eastern pacific ocean during 1992–1993

An analysis of the catch associated with floating objects by the Mexican tuna purse‐seine fleet in the eastern Pacific Ocean during 1992–1993 was made to determine the spatial and seasonal distribution. The information used was generated by observers of the Programa Nacional de Aprovechamiento del Atun y Protección a los Delfines (PNAAPD). There was no clear seasonal and spatial distribution of floating objects examined in this study, however there were areas where floating objects were more common; the mouth of the Gulf of California, waters offshore Peru, and in oceanic waters. The largest catch of yellowfin tuna was offshore of Peru in winter. Two areas with largest (length) yellowfin tuna were the mouth of the Gulf of California and offshore Peru. For skipjack tuna, the largest catch was offshore Peru in winter, but the largest skipjack were caught between 120° and 130°W along 10°N in spring. The largest yellowfin tuna were captured by sets on bamboo, fish aggregating devices (FADs), planks and boards, and logs (trees or parts). The largest skipjack were captured by sets on dead whales, kelp paddies, planks and boards, and pallets and crates. Most of the sets were made during the early hours of the day but an important number of log sets were made in the early afternoon. For the period analyzed, floating objects were more frequent during fall and winter with the area offshore of Peru the most important.     

Isolation and characterization of β-glucosidase from the cytosol of rat kidney cortex

A procedure is described for the preparation of extensively purified β-d-glucosidase (EC 3.2.1.21) from the cytosol fraction of rat kidney. The specific activity of the β-glucosidase in the high speed supernatant (100 000 × g, 90 min) fraction of rat kidney homogenate is 700-fold greater than that in the same fraction from heart, skeletal muscle, lung, spleen, brain or liver. β-Glucosidase activity co-chromatographs with β-d-galactosidase, β-d-fucosidase, α-l-arabinosidase and β-d-xylosidase activities through the last four column steps of the purification and their specific activities are 0.26, 0.39, 0.028 and 0.017 relative to that of β-glucosidase, respectively. The specific activity of the apparently homogeneous β-glucosidase is 115 000 nmol of glucose released from 4-methylumbelliferyl-β-d-glucopyranoside per mg protein per h. All five glycosidase activities possess similar pH dependency (pH optimum, 6–7) and heat lability, and co-migrate on polyacrylamide disc gels at ph 8.9 (R_F, 0.67). β-Glucosidase activity is inhibited competitively by glucono-(1 → 5)-lactone (K_I, 0.61 mM) and non-competitively by a variety of sulfhydryl reagents including N-ethylmaleimide, p-chloromercuribenzoate, 5,5′-dithio-bis(2-nitrobenzoic acid), and iodoacetic acid. Although the enzyme will release glucose from p-nitrophenyl and 4-methylumbelliferyl derivatives of β-d-glucose, it will not hydrolyze xylosyl-O-serine, β-d-glucocerebroside, lactose, galactosylovalbumin or trehalose. The enzyme consists of a single polypeptide chain with a molecular weight of 50 000–58 000, has a sedimentation coefficient of 4.41 S and contains a relatively large number of acidic amino acids. A study of the distribution of β-glucosidase activity in various regions of the dissected rat kidney indicates that the enzyme is probably contained in cells of the proximal convulated tubule. The enzyme is also present in relatively large ammounts in the villus cells, but not crypt cells, of the intestine. the physiological subtrates and function of the enzyme are unknown.     

Acetylene reduction and hydrogen metabolism by a cyanobacterial/sulfate‐reducing bacterial mat ecosystem

We report a study of nitrogenase activity (acetylene reduction) and hydrogen gas metabolism in intact smooth cyanobacterial mats from Hamelin Pool, Shark Bay, Western Australia. The predominant cyanobacterial population in these mats is Microcoleus chthonoplastes. The mats had a significant capacity for nitrogen fixation, predominantly attributable to the photosyn‐thetic component. By physical and chemical perturbation we revealed an active hydrogen metabolism within the mats. Most of the H₂ formation was attributed to fermentative processes, whereas hydrogen was consumed in light‐dependent, together with oxygen‐ and sulfate‐dependent respiratory processes. It was concluded that H₂ formed by fermentative bacteria in the dark drives a significant proportion of sulfate reduction in the mats, but there was little H₂ transfer from the cyanobacteria to the sulfate‐reducing bacteria. Thus photosynthetically produced H₂ gas is unlikely to significantly alter the previously measured carbon: sulfur ratio relating photosynthesis to sulfate reduction.     

Microbial oxidation of arsenite and occurrence of arsenite‐oxidizing bacteria in acid mine water from a sulfur‐pyrite mine

The acid mine waters (pH 2.0–2.4) discharged from the Matsuo sul‐fur‐pyrite mine contained high concentrations of dissolved inorganic arsenic (2–13 ppm). Arsenic in the superficial acid mine waters was predominantly in the (V) state (arsenate); however, the element in the water from a deep mine drift was almost in the (III) state (arsenite). Microbial arsenite oxidation occurred in the acid mine waters and along the stream of the river, which was contaminated with a large volume of the mine drift water. Arsenite (500 ppm As)‐resistant bacteria (0–27 colonies/ml) were detected in the water samples and 208 slant cultures were obtained. Arsenite‐oxidizing activities of all the cultures were determined and six strains with strong arsenite‐oxidizing activity were isolated. These bacteria were acidophilic (optimum growth pH, 3—4), gram‐negative, aerobic, and rod‐shaped. They could not oxidize ferrous iron and elemental sulfur as a sole energy source and not derive the energy for chemoautotrophic growth from arsenite oxidation.     

Isolation and characterization of rat intestinal bacteria involved in biotransformation of (−)-epigallocatechin

Two intestinal bacterial strains MT4s-5 and MT42 involved in the degradation of (?)-epigallocatechin (EGC) were isolated from rat feces. Strain MT4s-5 was tentatively identified as Adlercreutzia equolifaciens. This strain converted EGC into not only 1-(3, 4, 5-trihydroxyphenyl)-3-(2, 4, 6-trihydroxyphenyl)propan-2-ol (1), but also 1-(3, 5-dihydroxyphenyl)-3-(2, 4, 6-trihydroxyphenyl)propan-2-ol (2), and 4′-dehydroxylated EGC (7). Type strain (JCM 9979) of Eggerthella lenta was also found to convert EGC into 1. Strain MT42 was identified as Flavonifractor plautii and converted 1 into 4-hydroxy-5-(3, 4, 5-trihydroxyphenyl)valeric acid (3) and 5-(3, 4, 5-trihydroxyphenyl)-γ-valerolactone (4) simultaneously. Strain MT42 also converted 2 into 4-hydroxy-5-(3, 5-dihydroxyphenyl)valeric acid (5), and 5-(3, 5-dihydroxyphenyl)-γ-valerolactone (6). Furthermore, F. plautii strains ATCC 29863 and ATCC 49531 were found to catalyze the same reactions as strain MT42. Interestingly, formation of 2 from EGC by strain MT4s-5 occurred rapidly in the presence of hydrogen supplied by syntrophic bacteria. Strain JCM 9979 also formed 2 in the presence of the hydrogen or formate. Strain MT4s-5 converted 1, 3, and 4 to 2, 5, and 6, respectively, and the conversion was stimulated by hydrogen, whereas strain JCM 9979 could catalyze the conversion only in the presence of hydrogen or formate. On the basis of the above results together with previous reports, the principal metabolic pathway of EGC and EGCg by catechin-degrading bacteria in gut tract is proposed.     

Isolation and Structural Determination of a Glucan from the Spores of Ganoderma lucidum

A water soluble, (1→6)-branched, (1→4)linked D-glucan (LB-B1),［α］21D=+174.2° (c 0.87, H2O), was obtained from a hot-water extract of the sporoderm-broken spores of Ganoderma lucidum (Fr.) Karst by HPSEC, with 0.001 mol/L sodium hydroxide as the eluant, the molecular weight ( Mw ) of LB-B1 was estimated to be 9.3×103. From the results of total hydrolysis, methylation analysis, acetolysis and 1D, 2D NMR experimentation, it was concluded that LB-B1 was composed of repeating units with the following structure:α-D-Glcp-(1→6)-α-D -Glcp-(1→6)-α-D-Glcp １↓6→4)-α- D -Glcp-(1→4)-α- D -Glcp-(1→4)-α- D -Glcp-(1→4)-α-D-Glcp-(1→4-)-α-D-Glcp-(1→)n