Microbial utilization of raw and hydrogenated shale oils.

The biodegradability of raw and hydrogenated shale oils prepared by a retort process were studied under psychrophilic and mesophilic conditions. Changes in bacterial numbers and the chemical composition of the oils were monitored using a plate count and chromatographic techniques respectively. Raw shale oil was found to be relatively resistant to microbial attack whereas hydrogenated shale oil was readily utilized for microbial growth. Populations enriched on raw shale oil had a reduced ability to use hydrogenated shale oil under similar conditions. Gram-negative rods predominated in all enrichment populations. It is recommended that to facilitate clean up of shale oil spills, raw shale oil be reduced at the extraction site before transport.     

Is bioaugmentation a feasible strategy for pollutant removal and site remediation?

Microorganisms can degrade numerous organic pollutants owing to their metabolic machinery and to their capacity to adapt to inhospitable environments. Thus, microorganisms are major players in site remediation. However, their efficiency depends on many factors, including the chemical nature and the concentration of pollutants, their availability to microorganisms, and the physicochemical characteristics of the environment. The capacity of a microbial population to degrade pollutants within an environmental matrix (e.g. soil, sediment, sludge or wastewater) can be enhanced either by stimulation of the indigenous microorganisms by addition of nutrients or electron acceptors (biostimulation) or by the introduction of specific microorganisms to the local population (bioaugmentation). Although it has been practiced in agriculture and in wastewater treatment for years, bioaugmentation is still experimental. Many factors (e.g. predation, competition or sorption) conspire against it. However, several strategies are currently being explored to make bioaugmentation a successful technology in sites that lack significant populations of biodegrading microorganisms. Under optimal local conditions, the rate of pollutant degradation might increase upon addition of an inoculant to remediate a chemical spill; however, the most successful cases of bioaugmentation occur in confined systems, such as bioreactors in which the conditions can be controlled to favour survival and prolonged activity of the exogenous microbial population.     

Perspectives of microbial oils for biodiesel production

Biodiesel has become more attractive recently because of its environmental benefits, and the fact that it is made from renewable resources. Generally speaking, biodiesel is prepared through transesterification of vegetable oils or animal fats with short chain alcohols. However, the lack of oil feedstocks limits the large-scale development of biodiesel to some extent. Recently, much attention has been paid to the development of microbial, oils and it has been found that many microorganisms, such as algae, yeast, bacteria, and fungi, have the ability to accumulate oils under some special cultivation conditions. Compared to other plant oils, microbial oils have many advantages, such as short life cycle, less labor required, less affection by venue, season and climate, and easier to scale up. With the rapid expansion of biodiesel, microbial oils might become one of potential oil feedstocks for biodiesel production in the future, though there are many works associated with microorganisms producing oils need to be carried out further. This review is covering the related research about different oleaginous microorganisms producing oils, and the prospects of such microbial oils used for biodiesel production are also discussed.     

石油污染土壤的生物刺激和生物强化修复

随着工业化的发展,土壤的石油污染问题日益严重,石油污染物的处理已成为各国亟待解决的环境问题。由于生物修复具有高效、安全、成本低、无二次污染等诸多优点而成为近些年来主要的石油污染处理方法。概述了生物刺激和生物强化处理方法的基本原理,以及近年来国内外相关的研究进展。生物刺激和生物强化是生物修复法中最常用的两类方法,而且生物强化通常比生物刺激的效率高,但两者处理效率的高低均与多方面的因素有关,因此在实际应用中应注意考虑多方面的效益,制定出较合理的处理方案。     

STRANgE,integrated physical–biological–mechanical system for recovery in of the “oil spill” in Antarctic environment

Throughout the last century the increasing human activities in Antarctic region, particularly research expeditions, fishing, and tourism amplified the risk of oils spills at these high latitudes of the meridional hemisphere. A number of studies have been focused on chronic hydrocarbon contamination near Antarctic research stations revealing the presence and persistence of these human-derived contaminants. Marine ship-source oil spills in Antarctic region can have significant impacts on the marine environment. The key factors to effectively fight oil spills are a careful selection and proper use of the equipment and materials best suited to the critical local conditions. Despite the significant advances in the field of environmental recovery after an “oil spill” episode, research has recently shown that the usual techniques are often less effective than expected. This issue become much more relevant in the Antarctic case, not only for the incomparable environmental value of the Antarctic region but also for the extreme environmental conditions and the great distances from properly equipped centers, that make unfeasible sending naval vessels. Scope of the STRANgE Project is the preliminary design of a prototype floating platform, parachutable by plane, able to intervene as quickly as possible for the containment, removal and treatment/storage of the oil slick. New sorbent nanostructured materials and specialized Antarctic bacteria applications constitute the main innovations of this Project.     

基因强化在难降解污染物生物处理和修复中的应用

基因强化通过强化降解基因在土著菌群中的水平迁移和传播, 促进土著降解菌群的进化, 改善基因工程菌生物强化作用的稳定性, 提高难降解污染物的生物去除效果。介绍了基因强化的原理-微生物群落内水平基因迁移, 讨论了基因载体、细胞接触条件和环境条件等影响基因强化的因素, 综述了目前基因强化在土壤生物修复和废水生物处理中的应用现状, 并提出了基因强化中存在的问题。     

基因强化在难降解污染物生物处理和修复中的应用

基因强化通过强化降解基因在土著菌群中的水平迁移和传播,促进土著降解菌群的进化,改善基因工程菌生物强化作用的稳定性,提高难降解污染物的生物去除效果.介绍了基因强化的原理-微生物群落内水平基因迁移,讨论了基因载体、细胞接触条件和环境条件等影响基因强化的因素,综述了目前基因强化在土壤生物修复和废水生物处理中的应用现状,并提出了基因强化中存在的问题.     

Fatty acid biosynthesis in microorganisms being used for Single Cell Oil production

Single cell oils (SCOs) are now produced by various microorganisms as commercial sources of arachidonic acid (ARA) and docosahexaenoic acid (DHA). These oils are now used extensively as dietary supplements in infant formulas. An understanding of the underlying biochemistry and genetics of oil accumulation in such microorganisms is therefore essential if lipid yields are to be improved. Also an understanding of the biosynthetic pathways involved in the production of these polyunsaturated fatty acids (PUFAs) is also highly desirable as a prerequisite to increasing their content in the oils. An account is provided of the biosynthetic machinery that is necessary to achieve oil accumulation in an oleaginous species where it can account for lipid build up in excess of 70% of the cell biomass. Whilst PUFA production in most microorganisms uses a conventional fatty acid synthase (FAS) system followed by a series of desaturases and elongases, in Schizochytrium sp., and probably related thraustochytrid marine protists, PUFA synthesis now appears to be via a polyketide synthase (PKS) route. This route is discussed. It clearly represents a major departure from conventional fatty acid biosynthesis, possibly as a means of decreasing the amount of NADPH that is needed in the overall process.     

Biodeterioration of crude oil and oil derived products: a review

Biodeterioration of crude oil and oil fuels is a serious economic and an environmental problem all over the world. It is impossible to prevent penetration of microorganisms in oil and fuels both stored in tanks or in oilfields after drilling. Both aerobic and anaerobic microorganisms tend to colonise oil pipelines and oil and fuel storage installations. Complex microbial communities consisting of both hydrocarbon oxidizing microorganisms and bacteria using the metabolites of the former form an ecological niche where they thrive. The accumulation of water at the bottom of storage tanks and in oil pipelines is a primary prerequisite for development of microorganisms in fuels and oil and their subsequent biological fouling. Ability of microorganisms to grow both in a water phase and on inter-phase of water/hydrocarbon as well as the generation of products of their metabolism worsen the physical and chemical properties of oils and fuels. This activity also increases the amount of suspended solids, leads to the formation of slimes and creates a variety of operational problems. Nowadays various test-systems are utilized for microbial monitoring in crude oils and fuels; thus allowing an express determination of both the species and the quantities of microorganisms present. To suppress microbial growth in oils and fuels, both physico-mechanical and chemical methods are applied. Among chemical methods, the preference is given to substances such as biocides, additives, the anti-freezing agents etc that do not deteriorate the quality of oil and fuels and are environmentally friendly. This review is devoted to the analysis of the present knowledge in the field of microbial fouling of crude oils and oil products. The methods utilized for monitoring of microbial contamination and prevention of their undesirable activities are also evaluated. The special focus is given to Russian scientific literature devoted to crude oil and oil products biodeterioration.     

组学技术在产油微生物中的应用

微生物油脂是未来燃料和食品用油的重要潜在资源。近年来,随着系统生物学技术的快速发展,从全局角度理解产油微生物生理代谢及脂质积累的特征成为研究热点。组学技术作为系统生物学研究的重要工具被广泛用于揭示产油微生物脂质高效生产的机制研究中,这为产油微生物理性遗传改造和发酵过程控制提供了基础。文中对组学技术在产油微生物中的应用概况进行了综述,介绍了产油微生物组学分析常用的样品前处理及数据分析方法,综述了包括基因组、转录组、蛋白(修饰)组及代谢(脂质)组等在内的多种组学技术,以及组学数据基础上的数学模型在揭示产油微生物脂质高效生产机制中的研究,并对未来发展和应用进行了展望。     

Beyond oil degradation: enzymatic potential of Alcanivorax to degrade natural and synthetic polyesters

Pristine marine environments are highly oligotrophic ecosystems populated by well-established specialized microbial communities. Nevertheless, during oil spills, low-abundant hydrocarbonoclastic bacteria bloom and rapidly prevail over the marine microbiota. The genus Alcanivorax is one of the most abundant and well-studied organisms for oil degradation. While highly successful under polluted conditions due to its specialized oil-degrading metabolism, it is unknown how they persist in these environments during pristine conditions. Here, we show that part of the Alcanivorax genus, as well as oils, has an enormous potential for biodegrading aliphatic polyesters thanks to a unique and abundantly secreted alpha/beta hydrolase. The heterologous overexpression of this esterase proved a remarkable ability to hydrolyse both natural and synthetic polyesters. Our findings contribute to (i) better understand the ecology of Alcanivorax in its natural environment, where natural polyesters such as polyhydroxyalkanoates (PHA) are produced by a large fraction of the community and, hence, an accessible source of carbon and energy used by the organism in order to persist, (ii) highlight the potential of Alcanivorax to clear marine environments from polyester materials of anthropogenic origin as well as oils, and (iii) the discovery of a new versatile esterase with a high biotechnological potential.     

Oil pollution and climate have wide-scale impacts on seabird demographics

Oil spills often spell disaster for marine birds caught in slicks. However, the impact of oil pollution on seabird population parameters is poorly known because oil spills usually occur in wintering areas remote from breeding colonies where birds may be distributed over a wide area, and because it is difficult to separate the effects of oil pollution from the effect of natural environmental variation on seabird populations. Using a long-term data set we show that over-winter survival of adult common guillemots (Uria aalge) is negatively affected by both the incidence of four major oil-spills in their wintering grounds and high values of the North Atlantic Oscillation (NAO) index. After controlling for the effect of the NAO index, we show that winter mortality of adult guillemots is doubled by major oil pollution incidents. Our results demonstrate that oil pollution can have wide-scale impacts on marine ecosystems that can be quantified using populations of marked individuals to estimate survival.     

Les relations entre l’Extrême-Orient eurasien et le nord de l’archipel du Japon au Paléolithique

The aim of this paper is to present a review of current knowledge concerning the Paleolithic records and the related natural environmental setting in the Eurasian Far East and Hokkaido, located at the northern tip of the Japanese islands. At present, it is quite difficult to answer whether the archaic humans dispersed from Siberia and northern China across the Amur River basin and Sakhalin into Hokkaido or not, because there is no reliable evidence indicating the Lower and Middle Paleolithic in Hokkaido. We demonstrate that the Upper Paleolithic assemblages in Hokkaido can be divided into at least three phases such as the early Upper Paleolithic (EUP), the middle Upper Paleolithic (MUP), and the late Upper Paleolithic (LUP), based on a synthesis of available radiocarbon dates and the techno-typological characteristics of lithic assemblages. It is reasonable to suggest that the lithic assemblage from the Rubenosawa site, located in northern Hokkaido, and some of lithic assemblages at the transition from the Middle to Upper Paleolithic or the initial Upper Paleolithic (IUP) in Siberia share the relative similarities of techno-typological attributes in the reduction sequences, although the reliable radiocarbon dates have not been obtained from the Rubenosawa site unfortunately. Also, the emergence of microblade technology at the MUP in Hokkaido, such as represented by the microblade assemblage recovered from the Kashiwadai-1 site, central Hokkaido, indicates a close interaction between the Eurasian Far East and Hokkaido. As a result, the comparison of archaeological evidence in these regions provides us with a suggestion that the appearance and development of the Upper Paleolithic assemblages in Hokkaido were sometimes associated with the human dispersions and the mutual contacts crossing between the Eurasian Far East and Hokkaido.     

Ecological response of nitrification to oil spills and its impact on the nitrogen cycle

Marine oil spills are catastrophic events that cause massive damage to ecosystems at all trophic levels. While most of the research has focused on carbon-degrading microorganisms, the potential impacts of hydrocarbons on microbes responsible for nitrification have received far less attention. Nitrifiers are sensitive to hydrocarbon toxicity: ammonia-oxidizing bacteria and archaea being 100 and 1000 times more sensitive than typical heterotrophs respectively. Field studies have demonstrated the response of nitrifiers to hydrocarbons is highly variable and the loss of nitrification activity in coastal ecosystems can be restored within 1–2 years, which is much shorter than the typical recovery time of whole ecosystems (e.g., up to 20 years). Since the denitrification process is mainly driven by heterotrophs, which are more resistant to hydrocarbon toxicity than nitrifiers, the inhibition of nitrification may slow down the nitrogen turnover and increase ammonia availability, which supports the growth of oil-degrading heterotrophs and possibly various phototrophs. A better understanding of the ecological response of nitrification is paramount in predicting impacts of oil spills on the nitrogen cycle under oil spill conditions, and in improving current bioremediation practices.     

Bioaugmentation and biostimulation strategies to improve the effectiveness of bioremediation processes

Bioremediation, involving bioaugmentation and/or biostimulation, being an economical and eco-friendly approach, has emerged as the most advantageous soil and water clean-up technique for contaminated sites containing heavy metals and/or organic pollutants. Addition of pre-grown microbial cultures to enhance the degradation of unwanted compounds (bioaugmentation) and/or injection of nutrients and other supplementary components to the native microbial population to induce propagation at a hastened rate (biostimulation), are the most common approaches for in situ bioremediation of accidental spills and chronically contaminated sites worldwide. However, many factors like strain selection, microbial ecology, type of contaminant, environmental constraints, as well as procedures of culture introduction, may lead to their failure. These drawbacks, along with fragmented literature, have opened a gap between laboratory trials and on-field application. The present review discusses the effectiveness as well as the limitations of bioaugmentation and biostimulation processes. A summary of experimental studies both in confined systems under controlled conditions and of real case studies in the field is presented. A comparative account between the two techniques and also the current scenario worldwide for in situ biotreatment using bioaugmentation and biostimulation, are addressed.     

Petroleum biodegradation in marine environments

Petroleum-based products are the major source of energy for industry and daily life. Petroleum is also the raw material for many chemical products such as plastics, paints, and cosmetics. The transport of petroleum across the world is frequent, and the amounts of petroleum stocks in developed countries are enormous. Consequently, the potential for oil spills is significant, and research on the fate of petroleum in a marine environment is important to evaluate the environmental threat of oil spills, and to develop biotechnology to cope with them. Crude oil is constituted from thousands of components which are separated into saturates, aromatics, resins and asphaltenes. Upon discharge into the sea, crude oil is subjected to weathering, the process caused by the combined effects of physical, chemical and biological modification. Saturates, especially those of smaller molecular weight, are readily biodegraded in marine environments. Aromatics with one, two or three aromatic rings are also efficiently biodegraded; however, those with four or more aromatic ring are quite resistant to biodegradation. The asphaltene and resin fractions contain higher molecular weight compounds whose chemical structures have not yet been resolved. The biodegradability of these compounds is not yet known. It is known that the concentrations of available nitrogen and phosphorus in seawater limit the growth and activities of hydrocarbon-degrading microorganisms in a marine environment. In other words, the addition of nitrogen and phosphorus fertilizers to an oil-contaminated marine environment can stimulate the biodegradation of spilled oil. This notion was confirmed in the large-scale operation for bioremediation after the oil spill from the Exxon Valdez in Alaska. Many microorganisms capable of degrading petroleum components have been isolated. However, few of them seem to be important for petroleum biodegradation in natural environments. One group of bacteria belonging to the genus Alcanivorax does become predominant in an oil-contaminated marine environment, especially when nitrogen and phosphorus fertilizers are added to stimulate the growth of endogenous microorganisms.     

Bioaugmentation for bioremediation: the challenge of strain selection

Despite its long-term use in bioremediation, bioaugmentation of contaminated sites with microbial cells continues to be a source of controversy within environmental microbiology. This largely results from its notoriously unreliable performance record. In this article, we argue that the unpredictable nature of the approach comes from the initial strain selection step. Up until now, this has been dictated by the search for catabolically competent microorganisms, with little or no consideration given to other essential features that are required to be functionally active and persistent in target habitats. We describe how technical advances in molecular biology and analytical chemistry, now enable assessments of the functional diversity and spatial distribution of microbial communities to be made in situ. These advances now enable microbial populations, targeted for exploitation, to be differentiated to the cell level, an advance that is bound to improve microbial selection and exploitation. We argue that this information-based approach is already proving to be more effective than the traditional 'black-box' approach of strain selection. The future perspectives and opportunities for improving selection of effective microbial strains for bioaugmentation are also discussed.     

Application of bioremediation technology in the environment contaminated with petroleum hydrocarbon

The demand for petroleum and petroleum products is increasing day by day, while oil spills and improper discharge of industrial wastes contributes to the rising contamination of the environment with petroleum hydrocarbon. Petroleum hydrocarbon spills cause various carcinogenic and neurotoxic effects, and thus effective treatment strategies are required. The various physical and chemical methods currently in use are costly and leave toxic residues in the environment. In contrast, bioremediation is a promising technology in the treatment of petroleum hydrocarbon contamination because of its high effectiveness, lower cost and environmental synergy. Here, we review the biodegradation of petroleum hydrocarbon and various factors influencing this process.     

Comparative bioremediation of soils contaminated with diesel oil by natural attenuation, biostimulation and bioaugmentation

Bioremediation of diesel oil in soil can occur by natural attenuation, or treated by biostimulation or bioaugmentation. In this study we evaluated all three technologies on the degradation of total petroleum hydrocarbons (TPH) in soil. In addition, the number of diesel-degrading microorganisms present and microbial activity as indexed by the dehydrogenase assay were monitored. Soils contaminated with diesel oil in the field were collected from Long Beach, California, USA and Hong Kong, China. After 12 weeks of incubation, all three treatments showed differing effects on the degradation of light (C12-C23) and heavy (C23-C40) fractions of TPH in the soil samples. Bioaugmentation of the Long Beach soil showed the greatest degradation in the light (72.7%) and heavy (75.2%) fractions of TPH. Natural attenuation was more effective than biostimulation (addition of nutrients), most notably in the Hong Kong soil. The greatest microbial activity (dehydrogenase activity) was observed with bioaugmentation of the Long Beach soil (3.3-fold) and upon natural attenuation of the Hong Kong sample (4.0-fold). The number of diesel-degrading microorganisms and heterotrophic population was not influenced by the bioremediation treatments. Soil properties and the indigenous soil microbial population affect the degree of biodegradation; hence detailed site specific characterization studies are needed prior to deciding on the proper bioremediation method.     

Method for measuring substrate preferences by individual members of microbial consortia proposed for bioaugmentation

In this study we used the assimilation of isotope labeled CO(2) to measure the substrate preferences by two different bioaugmentation mixtures proposed for bioremediation of diesel oil contamination. All active microorganisms assimilate CO(2) in various carboxylation processes involved in growth. The CO(2) assimilation by the two mixtures was measured upon addition of glucose, diesel oil or specific compounds present in diesel oil (naphthalene, toluene, hexadecane, and octane). It was shown that within short term incubations with diesel oil (<5 h), one bioaugmentation mixture was superior to the other regarding the assimilation of CO(2). This observation was confirmed in a labor-intensive long term microcosm study (60 days). The applied method open various possibilities for fast pre-testing of substrate-preferences by microbial-bioaugmentation mixtures without microcosm experiments, onsite tests, and complicated chemical analysis. This study also demonstrates the possibility to obtain further information on the substrate preferences at a single cell level of phylogenetically defined microbial subgroups in bioaugmentation mixtures, based on combined analyses of microautoradiography and fluorescence in situ hybridization.