Novel potential inhibitors for adenylylsulfate reductase to control souring of water in oil industries

The biogenic production of hydrogen sulfide gas by sulfate-reducing bacteria (SRB) causes serious economic problems for natural gas and oil industry. One of the key enzymes important in this biologic process is adenosine phosphosulfate reductase (APSr). Using virtual screening technique we have discovered 15 compounds that are novel potential APSr inhibitors. Three of them have been selected for molecular docking and microbiological studies which have shown good inhibition of SRB in the produced water from the oil industry.     

Immunofluorescence of sulphate-reducing bacteria

An indirect fluorescent antibody technique was used as a method of rapidly assessing and identifying sulphate-reducing bacteria. Five specific antisera and one polyvalent serum were raised and tested against 44 strains of the genera Desulfovibrio and Desulfotomaculum along with 4 control organisms. Immunofluorescence was found to be mainly strain specific with the sulphate-reducing bacteria although weak fluorescence was seen both within and between recognised groups. A polyvalent antiserum was successfully used to detect sulphate-reducing bacteria. No interference from 4 control organisms was found.     

Souring control in fluid samples of oil industry using a multiple ligand simultaneous docking (MLSD) strategy

We have used docking techniques in order to propose potential inhibitors to the enzymes adenosine phosphosulfate reductase and adenosine triphosphate sulfurylase that are responsible, among other deleterious effects, for causing souring of oil and gas reservoirs. Three candidates selected through molecular docking revealed new and improved polar and hydrophobic interactions with the above-mentioned enzymes. Microbiological laboratory assays performed subsequently corroborated the results of computer modelling that the three compounds can efficiently control the biogenic sulfide production.     

Influence of EPS isolated from thermophilic sulphate-reducing bacteria on carbon steel corrosion

Extracellular polymeric substances (EPS) were isolated by centrifugation of thermophilic sulphate-reducing bacteria (SRB) grown in API-RP38 culture medium. The protein and polysaccharide fractions were quantified and the highest concentrations were extracted from a 14-day old culture. The effect of EPS on carbon steel corrosion was investigated by electrochemical techniques. At 30°C, a small amount of EPS in 3% NaCl solution inhibited corrosion, whilst excessive amounts of EPS facilitated corrosion. In addition, the inhibition efficiency of EPS decreased with temperature due to thermal desorption of the EPS. The results suggest that adsorbed EPS layers could be beneficial to anti-corrosion by hindering the reduction of oxygen. However, the accumulation of an EPS film could stimulate the anodic dissolution of the underlying steel by chelation of Fe²⁺ ions.     

Transfer of broad host-range plasmids to sulphate-reducing bacteria

Abstract The broad-host-range, IncQ, plasmid R300B (Sm, Su) has been stably transferred to two strains of sulphate-reducing bacteria ( Desulfovibrio sp. 8301 and Desulfovibrio desulfuricans 8312), using the IncP1 transfer system of the helper plasmid pRK2013 and cocultivation of sulphate-reducing bacteria with facultative anaerobes in media provided with sulphate and nitrate ions as electron acceptors. R300B was transferred at a frequency of 10⁻² to 1 per acceptor cell. The Sm^R marker was expressed in both sulphate-reducing bacteria strains while the Su^R was expressed only in strain 8301. R300B can also be transferred back to E. coli strains provided with IncP1 plasmids taking advantage of the retrotransfer ability of these plasmids. This occurs at a frequency up to 10⁻⁴ by recipient E. coli cell.     

Thermal and Bioenergetics of Elasmobranchs: Bridging the Gap

Physiological telemetry is a powerful tool in studying the thermal biology and energetics of elasmobranchs in the laboratory and field. Controlled laboratory studies have increased our understanding of the physiology and behavior of many elasmobranchs, but have focused primarily on small, slow moving species. Extrapolating results from these laboratory studies to free-swimming animals in the field or to other unstudied species may be problematic, due to laboratory constraints or species specific differences. Some elasmobranchs are too large or logistically difficult to maintain in captivity, making them extremely difficult to study in the laboratory, and thus can only be studied in the field. Physiological telemetry offers a bridge between the laboratory and the field providing an opportunity to elucidate similarities and differences. Previous studies have coupled a variety of sensors with ultrasonic transmitters to relay information on epaxial muscle and stomach temperatures of free-swimming lamnid sharks. Even though these studies indicate lamnids exhibit elevated body temperatures, the degree to which these sharks may control body temperature is still not fully understood. Telemetry of heart rate, swimming speed, muscle contraction rate, and tail beat frequency has been used to estimate energy consumption of free-swimming elasmobranchs with varying success. Based on recent advances in technology, several hypotheses regarding thermoregulation, cardiac output, and obligate ram ventilation are discussed. Although many telemetry studies have been restricted by logistical difficulties in conducting long-term tracks, recent developments such as acoustic modems, underwater listening stations and satellite telemetry may significantly increase the amount and types of physiological data that can be collected. These improvements in technology and captive animal husbandry techniques will help to bridge the gap between the laboratory and the field.     

Bioenergetics of alkalophilic bacteria

Summary The central problem for organisms which grow optimally, and in some cases obligately, at pH values of 10 to 11, is the maintenance of a relatively acidified cytoplasm. A key component of the pH homeostatic mechanism is an electrogenic Na⁺/H⁺ antiporter which—by virtue of kinetic properties and/or its concentration in the membrane—catalyzes net proton uptake while the organisms extrude protons during respiration. The antiporter is also capable of maintaining a constant pH_in during profound elevations in pH_out as long as Na⁺ entry is facilitated by the presence of solutes which are taken up with Na⁺. Secondary to the problem of acidifying the interior is the adverse effect of the large pH gradient, acid in, on the total pmf of alkalophile cells. For the purposes of solute uptake and motility, the organisms appear to largely bypass the problem of a low pmf by utilizing a sodium motive force for energization. However, ATP synthesis appears not to resolve the energetics problem by using Na⁺ or by incorporating the proton-translocating ATPase into intracellular organelles. The current data suggest that effective proton pumping carried out by the alkalophile respiratory chain at high pH may deliver at least some portion of the protons to the proton-utilizing catalysts, i. e., theF ₁ F ₀-ATPase and the Na⁺/H⁺ antiporter, by some localized pathway.     

Nitrite reductase activity of sulphate-reducing bacteria prevents their inhibition by nitrate-reducing,sulphide-oxidizing bacteria

Sulphate-reducing bacteria (SRB) can be inhibited by nitrate-reducing, sulphide-oxidizing bacteria (NR-SOB), despite the fact that these two groups are interdependent in many anaerobic environments. Practical applications of this inhibition include the reduction of sulphide concentrations in oil fields by nitrate injection. The NR-SOB Thiomicrospira sp. strain CVO was found to oxidize up to 15 mM sulphide, considerably more than three other NR-SOB strains that were tested. Sulphide oxidation increased the environmental redox potential (Eh) from -400 to +100 mV and gave 0.6 nitrite per nitrate reduced. Within the genus Desulfovibrio, strains Lac3 and Lac6 were inhibited by strain CVO and nitrate for the duration of the experiment, whereas inhibition of strains Lac15 and D. vulgaris Hildenborough was transient. The latter had very high nitrite reductase (Nrf) activity. Southern blotting with D. vulgaris nrf genes as a probe indicated the absence of homologous nrf genes from strains Lac3 and Lac6 and their presence in strain Lac15. With respect to SRB from other genera, inhibition of the known nitrite reducer Desulfobulbus propionicus by strain CVO and nitrate was transient, whereas inhibition of Desulfobacterium autotrophicum and Desulfobacter postgatei was long-lasting. The results indicate that inhibition of SRB by NR-SOB is caused by nitrite production. Nrf-containing SRB can overcome this inhibition by further reducing nitrite to ammonia, preventing a stalling of the favourable metabolic interactions between these two bacterial groups. Nrf, which is widely distributed in SRB, can thus be regarded as a resistance factor that prevents the inhibition of dissimilatory sulphate reduction by nitrite.     

Specific inhibition of sulphate-reducing bacteria in methanogenic co-culture

Various inhibitors of Desulfovibrio desulfuricans were examined for their selectivity in co-cultures with Methanobacterium formicicum . The inhibitors were chlorohexidine diacetate, m -dinitrobenzene, 2,4-dinitrophenol, potassium nitrate and sodium molybdate. Only sodium molybdate was able to inhibit D. desulfuricans selectively in the methanogenic co-culture. Sodium molybdate at all the concentrations used inhibited D. desulfuricans without adversely affecting M. formicicum .     

渤海湾大型底栖动物调查及与环境因子的相关性

对渤海湾大型底栖动物和环境因子进行调查,利用多元分析技术对大型底栖动物与环境因子之间的关系进行研究。调查期间共发现大型底栖动物45种,平均密度为406个/m2。大型底栖动物数量空间变化明显,呈现从近岸到外海降低的变化特征。运用典范对应分析(CCA)探讨大型底栖动物与环境因子之间的关系,并采用向前引入法对环境因子进行逐步筛选,Monte Carlo置换检验结果显示,水深、无机氮和溶解氧是影响渤海湾大型底栖动物空间分布的关键环境因子。     

寡营养细菌及其在环境科学中的应用

寡营养细菌是生存在寡营养环境中的一类细菌,其多样性与生物量在整个生物圈组成中都具有较大的优势,因而在生物地球化学循环中发挥着重要作用.从20世纪80年代开始,寡营养细菌在自然或人为环境中的寡营养机制、对饥饿的生理反应以及在生态系统中的作用一直是微生物生态学研究的前沿领域之一,其理论价值与应用前景已受到各国微生物生态学家与环境科学家们的广泛重视.本文综述了寡营养细菌的基本概念、营养类型、生理生态特性、可能的寡营养机制、主要研究方法以及在医学细菌检测和环境重金属监测中的应用等,并指出了寡营养细菌在环境科学中的应用前景.     

Evidence for the intrinsic toxicity of H2S to sulphate-reducing bacteria

Summary A sulphate-reducing culture of the genus Desulfovibrio was directly inhibited by the hydrogen sulphide (H₂S) produced. Batch experiments carried out at pH 6.2 and 6.6 show that complete inhibition is achieved for almost the same H₂S concentration of approximately 550 mg/l. Offsprint requests to: M. J. T. Carrondo     

Effect of growth temperature on cellular fatty acids in sulphate-reducing bacteria

The effect of growth temperature on the cellular fatty acid composition of sulphate-reducing bacteria (SRB) was studied in 12 species belonging to eight genera including psychrophiles and mesophiles. Most of these species were of marine origin. The investigated SRB with the exception of four Desulfobacter species exhibited only a minor increase in the proportion of cis-unsaturated fatty acids (by < or = 5% per 10 degrees C) when the growth temperature was decreased; psychrophiles maintained their typically high content of cis-unsaturated fatty acids (around 75% of total fatty acids) nearly constant. The four Desulfobacter species, however, increased the proportion of cis-unsaturated among total fatty acids significantly (by > or =14% per 10 degrees C; measured in late growth phase) with decreasing growth temperature. The ratio between unsaturated and saturated fatty acids in Desulfobacter species changed not only with the growth temperature, but also with the growth state in batch cultures at constant temperature. Changes of cellular fatty acids were studied in detail with D. hydrogenophilus, the most psychrotolerant (growth range 0-35 degrees C) among the mesophilic SRB examined. Desulfobacter hydrogenophilus also formed cis-9,10-methylenehexadecanoic acid (a cyclopropane fatty acid) and 10-methylhexadecanoic acid. At low growth temperature (12 degrees C), the relative amount of these fatty acids was at least threefold lower; this questions the usefulness of 10-methylhexadecanoic acid as a reliable biomarker of Desulfobacter in cold sediments.     

Influence of environmental factors on reductive bioprecipitation of uranium by sulfate reducing bacteria

Microbial reduction of soluble uranyl [U (VI)] to insoluble uraninite by sulfate reducing bacteria (SRB) is a promising remediation strategy for uranium-contaminated groundwater. Effects of environmental factors, including pH and coexisting ions, on U (VI) bioreduction processes (UBP) remain unknown. Anaerobic batch experiments were performed to evaluate impact on UBP. Kinetic investigations with varied pH demonstrated that U (VI) was reduced mostly within 48 h. The bioprecipitation yields depended strongly on pH, increasing from 12.9% to 99.4% at pH 2.0 and 6.0, respectively. Sulfate concentration 4000 mg l⁻¹ did not affect UBP; however, sulfate concentration 5000 mg l⁻¹ significantly slowed UBP. Biogenic H₂S produced during sulfate reduction was not directly involved in UBP. At 20 mg l⁻¹ Zn or 10 mg l⁻¹ Cu, no UBP inhibition was observed and uraninite was detected in metal sulfide precipitate. However, 25 mg l⁻¹ Zn or 15 mg l⁻¹ Cu stopped UBP completely. Cu toxicity mechanism probably differed from Zn. The ability to reduce U (VI) was lost permanently with exposure to 15 mg l⁻¹ Cu, but not for Zn 25 mg l⁻¹. No uraninite could be detected before nitrate removal, suggesting nitrate strongly inhibited UBP, which may possibly be related to denitrification intermediates controlling the solution redox potential.     

Transformations of ammonia and the environmental impact of nitrifying bacteria

In the sequence of events leading from ammonia to N₂ during the process of biotransformation of inorganic nitrogen compounds, the weakest link, with respect to our knowledge and understanding of the organisms involved, is nitrification. In particular, this is true for the oxidation of ammonia to nitrite. The enzymes have not been thoroughly studied, and the enzymatic mechanisms have not been identified. Almost any biochemical and physiological aspect studied proved to be controversial, and major ecological questions still remain unanswered. Unless the structure and function of the various components of the process are worked out, progress in developing means for controlling nitrification will depend mainly on laborious trial and error and not on knowledgeable manipulation of this group of bacteria.Abbreviations AMO ammonia monooxygenase - HAO hydroxylamine oxidoreductase - MPN most probable number - TCE trichloroethylene     

A highly selective direct method of detecting sulphate-reducing bacteria in crude oil

AIMS: The aim of this work was to develop a highly selective method of detecting sulphate-reducing bacteria (SRB) in crude oil. METHODS: A pair of PCR primers was designed based on an alignment of the nucleotide sequence of the 16S rRNA genes from the Desulfovibrionaceae family. DNA extraction from crude oil was performed by the method using zirconia beads and a stool kit. RESULTS: The PCR specifically detected Desulfovibrio and Desulfomicrobium in a sediment sample. When nucleic acids extracted directly from crude oil were used for the PCR, 16S rRNA genes of Desulfovibrio and Thermodesulforhabdus norvegicus were detected. IMPACT OF STUDY: A simple direct method for detection of the SRB in crude oil using PCR was established.     

象山港海域细菌的分布特征及其环境影响因素

本文于2007年的7月(夏季)、11月(秋季) 与2008年的1月(冬季)、4月(春季)用高保真、无扰动重力柱状取样器替代常规抓斗式采样,首次系统研究了象山港海域的水样(表层海水和上覆水)及沉积物中细菌丰度的时空分布特征,并采用主成分分析及多元逐步回归分析方法研究了影响细菌丰度时空分布的主要环境因素,结果表明：调查期间象山港海域的细菌的丰度较高,象山港海域的富营养化较严重。调查期间象山港海域水样及沉积物样品中细菌丰度实测值的变化范围为1.50105 ― 9.781010cells/ml (cells/g),总均值为2.76109cells/ml(cells/g);季节分布特征为夏季(7月)极显著高于其他季节,赤潮的暴发导致春季(4月)的调查结果最低。浮游细菌丰度表现为底层均大于表层的垂直分布特征;平面分布特征均为从港顶到港口递减、养殖区高于非养殖区、电厂附近海域出现较高值的趋势,近岸人类的工农业活动造成的陆源污染及海水增养殖活动造成的养殖污染是造成此分布特征的主要原因。多元统计结果表明：溶解氧、水温、营养盐(N、P)、pH以及有机质污染等是影响该海域细菌丰度的最主要因素。     

A rapid method for determination of viable sulphate-reducing bacteria in human faeces

Adenosine phosphosulphate reductase (APS reductase) (E.C.1.8.99.2), viable counts of sulphate-reducing bacteria and rates of sulphate reduction were determined in 20 human samples of faeces. The activity of APS reductase, in contrast to sulphate reduction rates, correlated well with viable counts ( r = 0.987) and may therefore be used rapidly to quantify sulphate-reducing bacteria in human gut contents.