Immobilization of Microbes for Bioremediation of Crude Oil Polluted Environments: A Mini Review

Phycoremediation of crude oil polluted water from selected water sources in Ogoniland, Rivers State, Nigeria

Crude oil exploitation in the Niger Delta, particularly in Ogoniland, brought environmental devastation occasioned by petroleum pollution, as farmlands and water sources were destroyed. This study was designed to remediate crude oil contaminated water obtained from water sources in Ogoniland using two green algal species. Thirty water samples were collected from eight different water sources. The samples were analysed for total petroleum hydrocarbon (TPH) using gas chromatography/flame ionization detector (GC/FID). Algal samples were collected from Ogba River and at wetland in Military Hospital Benin, Edo State, Nigeria. The algal samples were identified, screened, optimized and grown in Bold basal medium. Results obtained from the determination of TPH showed that the infiltrated pond (Exc) sample site had the highest concentration among all the sites sampled with 198.8329 μg/L, R2 with 134.1296 μg/L, R1 with 108.9394 μg/L, R3 with 105.8011 μg/L, R4 with 98.442 8 μg/L, the hand-dug wells (Wll) had 9.6586 μg/L while the borehole (Bhl) had the lowest with 1.8310 μg/L. It was deduced that pollution of water sources was principally because of pollutants washed from the soil environment into the open surface water sources via run-off rather than through the seepage from the underground aquifers, incriminating illegal oil mining and artisanal refining. Results obtained from the analysis of algal growth medium indicated that the two algal species were able to absorb the hydrocarbon contaminants, albeit at different rates, corresponding with the algal growth rate. Analysis of algal biomass after 4 weeks of remediation showed that from the initial 10.27 μg/20 mL added to the growth medium, the highest TPH mean value of 0.490 μg/20 mL was extracted from Ulothrix zonata (F.Weber & Mohr) Kützing biomass grown in Exc compared to 0.344 μg/20 mL of TPH extracted from Chlorella sorokiniana Shihira & R.W.Krauss grown in the same sample site. Also, Ulothrix zonata had higher TPH yield 0.023 μg/20 mL in Bhl compared to Chlorella sorokiniana 0.021 μg/20 mL of TPH from the same water source. This result indicated Ulothrix zonata had superior TPH phycoremediation ability to Chlorella sorokiniana. While the present study calls for deployment of the algal species for field trial, it is strongly recommended that crude oil pollution should be discouraged.

Synthesis and Design of a Synthetic-Living Material Composed of Chitosan, Calendula officinalis Hydroalcoholic Extract, and Yeast with Applications as a Biocatalyst

Design and development of materials that couple synthetic and living components allow taking advantage of the complexity of biological systems within a controlled environment. However, their design and fabrication represent a challenge for material scientists since it is necessary to synthesize synthetic materials with highly specialized biocompatible and physicochemical properties. The design of synthetic-living materials (vita materials) requires materials capable of hosting cell ingrowth and maintaining cell viability for extended periods. Vita materials offer various advantages, from simplifying product purification steps to controlling cell metabolic activity and improving the resistance of biological systems to external stress factors, translating into reducing bioprocess costs and diversifying their industrial applications. Here, chitosan sponges, functionalized with Calendula officinalis hydroalcoholic extract, were synthesized using the freeze-drying method; they showed small pore sizes (7.58 μm), high porosity (97.95%), high water absorption (1695%), and thermal stability, which allows the material to withstand sterilization conditions. The sponges allowed integration of 58.34% of viable Saccharomyces cerevisiae cells, and the cell viability was conserved 12 h post-process (57.14%) under storage conditions [refrigerating temperature (4 °C) and without a nutrient supply]. In addition, the synthesized vita materials conserved their biocatalytic activity after 7 days of the integration process, which was evaluated through glucose consumption and ethanol production. The results in this paper describe the synthesis of complex vita materials and demonstrate that biochemically modified chitosan sponges can be used as a platform material to host living and metabolically active yeast with diverse applications as biocatalysts.

Immobilized microalgal system: An achievable idea for upgrading current microalgal wastewater treatment

Efficient wastewater treatment accompanied by sustainable "nutrients/pollutants waste-wastewater-resources/energy nexus" management is acting as a prominent and urgent global issue since severe pollution has occurred increasingly. Diverting wastes from wastewater into the value-added microalgal-biomass stream is a promising goal using biological wastewater treatment technologies. This review proposed an idea of upgrading the current microalgal wastewater treatment by using immobilized microalgal system. Firstly, a systematic analysis of microalgal immobilization technology is displayed through an in-depth discussion on why using immobilized microalgae for wastewater treatment. Subsequently, the main technical approaches employed for microalgal immobilization and pollutant removal mechanisms by immobilized microalgae are summarized. Furthermore, from high-tech technologies to promote large-scale production and application potentials in diverse wastewater and bioreactors to downstream applications lead upgradation closer, the feasibility of upgrading existing microalgal wastewater treatment into immobilized microalgal systems is thoroughly discussed. Eventually, several research directions are proposed toward the future immobilized microalgal system for microalgal wastewater treatment upgrading. Together, it appears that using immobilization for further upgrading the microalgae-based wastewater treatment can be recognized as an achievable alternative to make microalgal wastewater treatment more realistic. The information and perspectives provided in this review also offer a feasible reference for upgrading conventional microalgae-based wastewater treatment.

Heavy Metal Contamination in the Aquatic Ecosystem: Toxicity and Its Remediation Using Eco-Friendly Approaches

Urbanization and industrialization are responsible for environmental contamination in the air, water, and soil. These activities also generate large amounts of heavy metal ions in the environment, and these contaminants cause various types of health issues in humans and other animals. Hexavalent chromium, lead, and cadmium are toxic heavy metal ions that come into the environment through several industrial processes, such as tanning, electroplating, coal mining, agricultural activities, the steel industry, and chrome plating. Several physical and chemical methods are generally used for the heavy metal decontamination of wastewater. These methods have some disadvantages, including the generation of secondary toxic sludge and high operational costs. Hence, there is a need to develop a cost-effective and eco-friendly method for the removal of heavy metal ions from polluted areas. Biological methods are generally considered eco-friendly and cost-effective. This review focuses on heavy metal contamination, its toxicity, and eco-friendly approaches for the removal of heavy metals from contaminated sites.

Enhanced biodegradation of oil-contaminated soil oil in shale gas exploitation by biochar immobilization

The enhanced biodegradation of oil-contaminated soil by fixing microorganisms with corn cob biochar was investigated. It was found that the components of oil in the test soil were mainly straight-chain alkanes and branched alkanes. When using corn cob biochar as a carrier to immobilize microorganisms, the best particle size of corn cob biochar as an immobilization carrier was 0.08 mm, and the best immobilization time was 18 h. SEM analysis confirmed that the microorganisms were immobilized on the corn cob biochar. Immobilized microorganisms exhibited high biodegradability under stress to high concentrations of petroleum pollutants, heavy metals, and organic pollutants. Infrared spectroscopy analysis showed that oxygen-containing groups such as hydroxyl, carboxyl, and methoxy on the surface of biochar were involved in the complexation of heavy metals. The mechanism of immobilization promoted microbial degradation of oil contamination was explained by gas chromatography mass. First, alkanes and aromatics were adsorbed by corn cob biochar and passed to immobilized microorganisms to promote their degradation. Their bioavailability increased, especially for aromatics. Second, biochar provided a more suitable environment for microorganisms to degrade. Third, the conversion of ketones to acids was accelerated during the biodegradation of alkanes, and the biodegradation of alkanes was accelerated by immobilization. The biodegradable efficiency of oil by immobilized microorganisms in soil was 70.10% within 60 days, 28.80% higher than that of free microorganisms. The degradation of immobilized microorganisms was highly correlated with the activities of catalase, urease, and polyphenol oxidase.

Interaction between indigenous hydrocarbon-degrading bacteria in reconstituted mixtures for remediation of weathered oil in soil

It has been demonstrated that biostimulation is necessary to investigate the interactions between indigenous bacteria and establish an approach for the bioremediation of soils contaminated with weathered oil. This was achieved by adjusting the carbon (C)/nitrogen (N)/phosphorus (P) ratio to 100/10/1 combined with the application of 0.8 mL/kg Tween-80. In addition, three indigenous bacteria isolated from the same soil were introduced solely or combined concomitantly with stimulation. Removal of n-alkanes and the ratios of n-heptadecane to pristane and n-octadecane to phytane were taken to indicate their biodegradation performance over a period of 16 weeks. One strain of Pseudomonas aeruginosa D7S1 improved the efficiency of the process of stimulation. However, another Pseudomonas aeruginosa, D5D1, inhibited the overall process when combined with other bacteria. One strain of Bacillus licheniformis D1D2 did not affect the process significantly. The Fourier transform infrared analysis of the residual hydrocarbons supported the conclusions pertaining to the biodegradation processes when probing the modifications in densities and stretching. The indigenous bacteria cannot mutually benefit from their metabolisms for bioremediation if augmented artificially. However, the strain Pseudomonas. aeruginosa D7S1 was able to perform better alone than in a consortium of indigenous bacteria.

Study on the Changes in Immobilized Petroleum-Degrading Bacteria Beads in a Continuous Bioreactor Related to Physicochemical Performance, Degradation Ability, and Microbial Community

Continuous bioreactors for petroleum degradation and the effect factors of these bioreactors have rarely been mentioned in studies. In addition, indigenous bacteria living in seawater could influence the performance of continuous bioreactors with respect to petroleum degradation in practice. In this paper, a bioreactor fitted with immobilized petroleum-degrading bacteria beads was designed for further research. The results indicated that the diesel degradation rate of the bioreactor could remain above 50% over 27 days, while degradation performance decreased with bioremediation time. Intriguingly, the diameters of immobilized petroleum-degrading bacteria beads were reduced by 32.49% after 45 days remediation compared with the initial size of the immobilized petroleum-degrading bacteria beads. Change in immobilized petroleum-degrading bacteria beads was considered to correlate remarkably with reduced degradation efficiency. Therefore, this paper will be helpful for further study and improvement of bioreactors in the practical context of oil-spill accident recovery.

Immobilization of Microbes for Biodegradation of Microcystins: A Mini Review

Harmful cyanobacterial blooms (HCBs) frequently occur in eutrophic freshwater ecosystems worldwide. Microcystins (MCs) are considered to be the most prominent and toxic metabolites during HCBs. MCs may be harmful to human and animal health through drinking water and recreational water. Biodegradation is eco-friendly, cost-effective and one of the most effective methods to remove MCs. Many novel MC-degrading bacteria and their potential for MCs degradation have been documented. However, it is a challenge to apply the free MC-degrading bacterial cells in natural environments due to the long-term operational instability and difficult recycling. Immobilization is the process of restricting the mobility of bacteria using carriers, which has several advantages as biocatalysts compared to free bacterial cells. Biological water treatment systems with microbial immobilization technology can potentially be utilized to treat MC-polluted wastewater. In this review article, various types of supporting materials and methods for microbial immobilization and the application of bacterial immobilization technology for the treatment of MCs-contaminated water are discussed. This article may further broaden the application of microbial immobilization technology to the bioremediation of MC-polluted environments.

Application of Carrier Materials in Self-Healing Cement-Based Materials Based on Microbial-Induced Mineralization

Microbially induced calcium carbonate precipitation (MICP) technology has attracted widespread research attention owing to its application in crack healing for cement-based materials in an intelligent and environmentally friendly manner. However, the high internal alkalinity, low nutrient content, and dense structure of cement-based materials have restricted its application in self-healing cement-based materials. Various carrier materials have been widely used for the immobilization of microorganisms in recent years. Carrier materials have significantly increased the ability of microorganisms to withstand extreme conditions (high temperature, high alkali, etc.) and have provided new ideas for the compatibility of microorganisms with cement-based materials. In this study, the basic principles of microbial self-healing technology in cement-based materials and microbial immobilization methods and the influencing factors are introduced, followed by a review of the research progress and application effects of different types of carrier materials, such as aggregate, low-alkali cementitious materials, organic materials, and microcapsules. Finally, the current problems and promising development directions of microbial carrier materials are summarized to provide useful references for the future development of microbial carriers and self-healing cement-based materials.

Gut Metagenomic Profiling of Gossypol Induced Oxycarenus laetus (Hemiptera: Lygaeidae) Reveals Gossypol Tolerating Bacterial Species

Oxycarenus laetus is a cotton pest that primarily feeds on seeds that are rich in gossypol. Though gossypol is toxic to general herbivores, O. laetus does not show such complications and instead grows and reproduces well on cotton plants compared to its other hosts. In this study, we have fed O. laetus with natural and induced gossypol-based diets to explore the difference in its gut microbiota. We performed NGS 16S rRNA amplicon sequencing on the Illumina MiSeq platform and analyzed the data using the QIIME2 pipeline supplemented with Greengenes and EZBioCloud reference databases. We also used culture-based methods to identify a few abundant gut bacteria present in O. laetus. Enterococcus faecalis, Wolbachia bourtzisii, Wolbachia pipientis, Corynebacterium glyciniphilum, Staphylococcus sciuri, and Kocuria rosea were some of the major species that formed the core gut microbiome of O. laetus. We have also observed that some species were present only in the sample with the highest concentration of gossypol, signifying that they might have the potential to degrade gossypol.

SUPPLEMENTARY INFORMATION

The online version contains supplementary material available at 10.1007/s12088-021-00964-0.

Immobilized enzymes and cell systems: an approach to the removal of phenol and the challenges to incorporate nanoparticle-based technology

The presence of phenol in wastewater poses a risk to ecosystems and human health. The traditional processes to remove phenol from wastewater, although effective, have several drawbacks. The best alternative is the application of ecological biotechnology tools since they involve biological systems (enzymes and microorganisms) with moderate economic and environmental impact. However, these systems have a high sensitivity to environmental factors and high substrate concentrations that reduce their effectiveness in phenol removal. This can be overcome by immobilization-based technology to increase the performance of enzymes and bacteria. A key component to ensure successful immobilization is the material (polymeric matrices) used as support for the biological system. In addition, by incorporating magnetic nanoparticles into conventional immobilized systems, a low-cost process is achieved but, most importantly, the magnetically immobilized system can be recovered, recycled, and reused. In this review, we study the existing alternatives for treating wastewater with phenol, from physical and chemical to biological techniques. The latter focus on the immobilization of enzymes and microorganisms. The characteristics of the support materials that ensure the viability of the immobilization are compared. In addition, the challenges and opportunities that arise from incorporating magnetic nanoparticles in immobilized systems are addressed.

Polysaccharides as Support for Microbial Biomass-Based Adsorbents with Applications in Removal of Heavy Metals and Dyes

The use of biosorbents for the decontamination of industrial effluent (e.g., wastewater treatment) by retaining non-biodegradable pollutants (antibiotics, dyes, and heavy metals) has been investigated in order to develop inexpensive and effective techniques. The exacerbated water pollution crisis is a huge threat to the global economy, especially in association with the rapid development of industry; thus, the sustainable reuse of different treated water resources has become a worldwide necessity. This review investigates the use of different natural (living and non-living) microbial biomass types containing polysaccharides, proteins, and lipids (natural polymers) as biosorbents in free and immobilized forms. Microbial biomass immobilization performed by using polymeric support (i.e., polysaccharides) would ensure the production of efficient biosorbents, with good mechanical resistance and easy separation ability, utilized in different effluents' depollution. Biomass-based biosorbents, due to their outstanding biosorption abilities and good efficiency for effluent treatment (concentrated or diluted solutions of residuals/contaminants), need to be used in industrial environmental applications, to improve environmental sustainability of the economic activities. This review presents the most recent advances related the main polymers such as polysaccharides and microbial cells used for biosorbents production; a detailed analysis of the biosorption capability of algal, bacterial and fungal biomass; as well as a series of specific applications for retaining metal ions and organic dyes. Even if biosorption offers many advantages, the complexity of operation increased by the presence of multiple pollutants in real wastewater combined with insufficient knowledge on desorption and regeneration capacity of biosorbents (mostly used in laboratory scale) requires more large-scale biosorption experiments in order to adequately choose a type of biomass but also a polymeric support for an efficient treatment process.

Biodegradation of crude oil by immobilized Exiguobacterium sp. AO-11 and shelf life evaluation

Exiguobacterium sp. AO-11 was immobilized on bio-cord at 10⁹ CFU g⁻¹ carrier for the removal of crude oil from marine environments. To prepare a ready-to-use bioremediation product, the shelf life of the immobilized cells was calculated. Approximately 90% of 0.25% (v/v) crude oil removal was achieved within 9 days when the starved state of immobilized cells was used. The oil removal activity of the immobilized cells was maintained in the presence of oil dispersant (89%) and at pH values of 7–9. Meanwhile, pH, oil concentration and salinity affected the oil removal efficacy. The immobilized cells could be reused for at least 5 cycles. The Arrhenius equation describing the relationship between the rate of reaction and temperature was validated as a useful model of the kinetics of retention of activity by an immobilized biocatalyst. It was estimated that the immobilized cells could be stored in a non-vacuum bag containing phosphate buffer (pH 7.0) at 30 °C for 39 days to retain the cells at 10⁷ CFU g⁻¹ carrier and more than 50% degradation activity. These results indicated the potential of using bio-cord-immobilized crude oil-degrading Exiguobacterium sp. AO-11 as a bioremediation product in a marine environment.

Enhanced biodegradation of light crude oil by immobilized Bacillus licheniformis in fabricated alginate beads through electrospray technique

Petroleum contamination of marine environments due to exploitation and accidental spills causes serious harm to ecosystems. Bioremediation with immobilized microorganisms is an environmentally friendly and cost-effective emerging technology for treating oil-polluted environments. In this study, Bacillus licheniformis was entrapped in Ca alginate beads using the electrospray technique for light crude oil biodegradation. Three important process variables, including inoculum size (5-15% v/v), initial oil concentration (1500-3500 ppm), and NaCl concentration (0-30 g/L), were optimized to obtain the best response of crude oil removal using response surface methodology (RSM) and Box-Behnken design (BBD). The highest crude oil removal of 79.58% was obtained for 1500 ppm of crude oil after 14 days using immobilized cells, and it was lower for freely suspended cells (64.77%). Our result showed similar trends in the effect of variables on the oil biodegradation rate in both free cell (FC) and immobilized cell (IC) systems. However, according to the analysis of variance (ANOVA) results, the extent of the variables' effectiveness was different in FC and IC systems. In the immobilized cell system, all variables had a greater effect on the rate of light crude oil degradation. Moreover, to evaluate the effectiveness of free and immobilized B. licheniformis in bioremediation of an actual polluted site, the crude oil spill in natural seawater was investigated. The results suggested the stability of beads in the seawater, as well as high degradation of petroleum hydrocarbons by free and immobilized cells in the presence of indigenous microorganisms.

Bacterial extracellular matrix as a natural source of biotechnologically multivalent materials

The extracellular matrix (ECM) is an intricate megastructure made by bacterial cells to form architecturally complex biostructures called biofilms. Protection of cells, modulation of cell-to-cell signalling, cell differentiation and environmental sensing are functions of the ECM that reflect its diverse chemical composition. Proteins, polysaccharides and eDNA have specific functionalities while cooperatively interacting to sustain the architecture and biological relevance of the ECM. The accumulated evidence on the chemical heterogeneity and specific functionalities of ECM components has attracted attention because of their potential biotechnological applications, from agriculture to the water and food industries. This review compiles information on the most relevant bacterial ECM components, the biophysical and chemical features responsible for their biological roles, and their potential to be further translated into biotechnological applications.

Study of bacterial interactions in reconstituted hydrocarbon-degrading bacterial consortia from a local collection, for the bioremediation of weathered oily-soils

•

Reconstituted hydrocarbon-degrading bacteria consortia from the weathered sites interact positively and negatively in bioremediation processes.

•

Bioaugmentation using endogenous bacteria should be based on selection of the appropriate strains, which can co-growth with inhibition.

•

The reconstituted hydrocarbon-degrading bacteria consortia lead to reduction of the lag phases and increase of TPH removal at 10 times soil TPH concentrations.

To enhance the process of bacterial remediation of weathered hydrocarbons, the area of Dukhan, Qatar, was considered as a model for weathering processes. Self-purification by indigenous hydrocarbon-degrading bacteria showed low performance. Biostimulation/seeding using one or another of the indigenous bacteria improved the performance. Symbiosis between three strains dominating the soil; Bacillus sorensis D11, Bacillus cereus D12, and Pseudomonas stutzeri D13, was highly performant for removal of total petroleum hydrocarbons in the weathered soil. D11, the most sensitive, showed the highest performance when mixed with D12 or D13. D12, less performant than D11, was more active on diesel range organics (DRO: C10-C28), similar to D11. D13 showed a metabolic behavior close to commensal and co-metabolic ones. It was more active on hydrocarbons above C29. Combination of the three strains conducted to the removal of at least 80% of C10-C35 organics in the extract at concentrations of 31.1 mg/g TPH-DRO.

Bio-purification of sugar industry wastewater and production of high-value industrial products with a zero-waste concept

In recent years, biorefinery approach with a zero-waste concept has gained a lot research impetus to boost the environment and bioeconomy in a sustainable manner. The wastewater from sugar industries contains miscellaneous compounds and need to be treated chemically or biologically before being discharged into water bodies. Efficient utilization of wastewater produced by sugar industries is a key point to improve its economy. Thus, interest in the sugar industry wastes has grown in both fundamental and applied research fields, over the years. Although, traditional methods being used to process such wastewaters are effective yet are tedious, laborious and time intensive. Considering the diverse nature of wastewaters from various sugar-manufacturing processes, the development of robust, cost-competitive, sustainable and clean technologies has become a challenging task. Under the recent scenario of cleaner production and consumption, the biorefinery and/or close-loop concept, though using different technologies and multi-step processes, namely, bio-reduction, bio-accumulation or biosorption using a variety of microbial strains, has stepped-up as the method of choice for a sustainable exploitation of a wide range of organic waste matter along with the production of high-value products of industrial interests. This review comprehensively describes the use of various microbial strains employed for eliminating the environmental pollutants from sugar industry wastewater. Moreover, the main research gaps are also critically discussed along with the prospects for the efficient purification of sugar industry wastewaters with the concomitant production of high-value products using a biorefinery approach. In this review, we emphasized that the biotransformation/biopurification of sugar industry waste into an array of value-added compounds such as succinic acid, L-arabinose, solvents, and xylitol is a need of hour and is futuristic approach toward achieving cleaner production and consumption.

Crude oil pollution and biodegradation at the Persian Gulf: A comprehensive and review study

The Persian Gulf consider as the fundamental biological marine condition between the seas. There is a different assortment of marine life forms including corals, wipes, and fish in this marine condition. Mangrove timberlands are found all through this sea-going biological system. Sullying of the Persian Gulf to oil-based goods is the principle of danger to this marine condition and this contamination can effectively affect this differing marine condition. Numerous specialists examined the result of oil contamination on Persian Gulf marine creatures including corals sponges, bivalves, and fishes. These analysts affirmed this oil contamination on the Persian Gulf significantly diminished biodiversity. Diverse microorganisms fit to consume oil-based commodities detailed by various scientists from the Persian Gulf and their capacity to the debasement of unrefined petroleum has been examined. There has additionally been little exploration of cyanobacteria, yeast, and unrefined petroleum debasing organisms in this sea-going environment. Biosurfactants are amphipathic molecules that upgrade the disintegration of oil and increment their bioavailability to corrupt microscopic organisms. Additionally, biosurfactant-producing bacteria were discovered from the Persian Gulf, and the capability to degradation of crude oil in microscale was evaluated. The current review article aims to collect the finding of various researches performed in the Persian Gulf on oil pollution and crude-oil biodegradation. It is expected that by applying biological methods in combination with mechanical and chemical methods, the hazard consequences of crude-oil contamination on this important aquatic ecosystem at the world will be mitigated and a step towards preserving this diverse marine environment.

Statistical evaluation of the bioremediation performance of Ochrobactrum thiophenivorans and Sphingomonas melonis bacteria on Imidacloprid insecticide in artificial agricultural field

BACKGROUND

Pesticides are applied directly on the soil or on the vegetation, and thus, they can reach the receiving environment easily. In this way, environmental damage that stems from pesticides also affects public health and the natural habitat. Pesticides are one of the most harmful pollutant groups in terms of human health, fauna and the environment. They penetrate the application field and the applicator right after the application and start to show adverse effects.

METHODS

The bioremediation of the Imidacloprid (C9H₁₀ClN₅O₂) insecticide, which is used commonly in Mediterranean climate, was compared with some soil bacteria in artificially prepared fields. For this purpose, firstly, it was determined whether the soil samples taken from a field where cotton was cultivated in Adana in Turkey was suitable for bioremediation. Then, the bacteria were isolated from these soils with the 16sRNA method. The enhanced microbial consortia of these isolated bacteria were inoculated to the artificial fields, meanwhile, the recommended concentrations of Imidacloprid were added to these agricultural fields. Imidacloprid, Chemical Oxygen Demand (COD), Biochemical Oxygen Demand (BOD₅) and Total Organic Carbon (TOC) measurements were performed every day for two weeks on the filtrate samples taken from the artificial fields.

RESULTS

As a result of the monitoring, it was determined that Ochrobactrum thiophenivorans (Ot) and Sphingomonas melonis (Sm) species and their mixtures could eliminate the Imidacloprid pesticide within two weeks' time. The removal efficiencies were 100% for active ingredient for each bacterium and their mixtures while COD were 97% and 96% for Ot. and Sm., respectively. TOC and BOD₅ removal rates were 97% for both types and their mixtures in one or two-week period. Mixture of Ot and Sm shows 98.5% for COD, BOD₅ parameters and 97.5% for TOC parameter.

CONCLUSIONS

The results that will be obtained will help in the rehabilitation of the receiving environments that are exposed to pesticides in our country and take precautions to avoid the accumulation of pesticides in the body of the humans who are at the top of the food chain.

Immobilization of Bradyrhizobium and Azospirillum in alginate matrix for long time of storage maintains cell viability and interaction with peanut

Immobilizarion of PGPR for agricultural applications aims to provide temporary physical protection from stressful environmental conditions and the gradual release of cells for successful root colonization, release the cells gradually. In this work, we immobilized Bradyrhizobium sp. SEMIA6144 or Azospirillum brasilense Az39 cells in 2% alginate beads prepared by ionic gelation process, and then stored up to 12 months at 4 °C. Alginate matrix showed interaction with the immobilized bacteria (FTIR), allowed a constant release of cells, and improved their viability and capability to interact with Arachis hypogaea. Cell number into beads reached 10⁷ CFU.bead^-1; however, viability decreased from 4 months of storage for Az39, while it was maintained up to 12 months for SEMIA6144, showing a low metabolic activity measured by the MTT assay. Adhesion of SEMIA6144 and Az39 from new beads to peanut root was 11.5% and 16%, respectively, higher than non-immobilized bacteria. Peanut inoculation with 12 months storage SEMIA6144 beads significantly increased root length and biomass at 30 days of growth, and under restrictive water condition (RWC), nodulation and total plant N content increased compared with liquid inoculation. Our results demonstrate that immobilization of SEMIA6144 and Az39 in alginate matrix is a potential alternative to enhance peanut growth even under RWC. KEY POINTS: • Alginate encapsulation enhances viability of SEMIA6144 or Az39 under storage at 4 °C for 1 year. • Alginate beads 2% ensure the gradual release of the microorganisms. • Cells from beads stored for long periods present chemotaxis and adhesion to peanut root. • Peanut inoculation with 1-year-old SEMIA6144 beads improves nodulation and growth in RWC.

Microbial Interaction with Clay Minerals and Its Environmental and Biotechnological Implications

Clay minerals are very common in nature and highly reactive minerals which are typical products of the weathering of the most abundant silicate minerals on the planet. Over recent decades there has been growing appreciation that the prime involvement of clay minerals in the geochemical cycling of elements and pedosphere genesis should take into account the biogeochemical activity of microorganisms. Microbial intimate interaction with clay minerals, that has taken place on Earth’s surface in a geological time-scale, represents a complex co-evolving system which is challenging to comprehend because of fragmented information and requires coordinated efforts from both clay scientists and microbiologists. This review covers some important aspects of the interactions of clay minerals with microorganisms at the different levels of complexity, starting from organic molecules, individual and aggregated microbial cells, fungal and bacterial symbioses with photosynthetic organisms, pedosphere, up to environmental and biotechnological implications. The review attempts to systematize our current general understanding of the processes of biogeochemical transformation of clay minerals by microorganisms. This paper also highlights some microbiological and biotechnological perspectives of the practical application of clay minerals–microbes interactions not only in microbial bioremediation and biodegradation of pollutants but also in areas related to agronomy and human and animal health.

Diversity of Soil Filamentous Fungi Influenced by Marine Environment in São Luís, Maranhão, Brazil

Introduction

In recent decades, there has been an intensification of environmental problems, which are becoming increasingly critical and frequent due to population growth. Microorganisms, including soilborne fungi, play an essential role in maintaining and balancing the environment. One of the most impacted ecosystems in São Luís, Maranhão, Brazil, is the Jansen Lagoon State Park, an important tourist spot, which has suffered anthropogenic actions such as the dumping of household waste (sewage) in its body of water. As a consequence, these pollutants can accumulate in the adjacent soil, since the body of water is near this substrate. The objectives were to isolate and identify filamentous fungi from the soil of the Jansen Lagoon State Park.

Methods

Monthly soil samples were collected and later processed using the modified suspension technique according to Clark (1965).

Results

The isolated genera were Aspergillus, Penicillium, Trichoderma, Absidia, and Fusarium. Aspergillus is the fungal genus of greater dominance in the soil of the Jansen Lagoon State Park. Aspergillus niger was the dominant species (37%), followed by A. tamarii (21.6%).

Conclusion

The main isolated fungi from the Jansen Lagoon State Park were Aspergillus niger and Aspergillus tamrii. These fungi can be used as biological markers of pollution and as biodegraders and/or bioremediators to improve the area studied.

Enhanced Degradation of Naproxen by Immobilization of Bacillus thuringiensis B1(2015b) on Loofah Sponge

The naproxen-degrading bacterium Bacillus thuringiensis B1(2015b) was immobilised onto loofah sponge and introduced into lab-scale trickling filters. The trickling filters constructed for this study additionally contained stabilised microflora from a functioning wastewater treatment plant to assess the behavior of introduced immobilized biocatalyst in a fully functioning bioremediation system. The immobilised cells degraded naproxen (1 mg/L) faster in the presence of autochthonous microflora than in a monoculture trickling filter. There was also abundant colonization of the loofah sponges by the microorganisms from the system. Analysis of the influence of an acute, short-term naproxen exposure on the indigenous community revealed a significant drop in its diversity and qualitative composition. Bioaugmentation was also not neutral to the microflora. Introducing a new microorganism and increasing the removal of the pollutant caused changes in the microbial community structure and species composition. The incorporation of the immobilised B1(2015b) was successful and the introduced strain colonized the basic carrier in the trickling filter after the complete biodegradation of the naproxen. As a result, the bioremediation system could potentially be used to biodegrade naproxen in the future.

Functional Genomics Insights Into the Pathogenicity, Habitat Fitness, and Mechanisms Modifying Plant Development of Rhodococcus sp. PBTS1 and PBTS2

Pistachio Bushy Top Syndrome (PBTS) is a recently emerged disease that has strongly impacted the pistachio industry in California, Arizona, and New Mexico. The disease is caused by two bacteria, designated PBTS1 that is related to Rhodococcus corynebacterioides and PBTS2 that belongs to the species R. fascians. Here, we assessed the pathogenic character of the causative agents and examined their chromosomal sequences to predict the presence of particular functions that might contribute to the observed co-occurrence and their effect on plant hosts. In diverse assays, we confirmed the pathogenicity of the strains on "UCB-1" pistachio rootstock and showed that they can also impact the development of tobacco species, but concurrently inconsistencies in the ability to induce symptoms were revealed. We additionally evidence that fas genes are present only in a subpopulation of pure PBTS1 and PBTS2 cultures after growth on synthetic media, that these genes are easily lost upon cultivation in rich media, and that they are enriched for in an in planta environment. Analysis of the chromosomal sequences indicated that PBTS1 and PBTS2 might have complementary activities that would support niche partitioning. Growth experiments showed that the nutrient utilization pattern of both PBTS bacteria was not identical, thus avoiding co-inhabitant competition. PBTS2 appeared to have the potential to positively affect the habitat fitness of PBTS1 by improving its resistance against increased concentrations of copper and penicillins. Finally, mining the chromosomes of PBTS1 and PBTS2 suggested that the bacteria could produce cytokinins, auxins, and plant growth-stimulating volatiles and that PBTS2 might interfere with ethylene levels, in support of their impact on plant development. Subsequent experimentation supported these in silico predictions. Altogether, our data provide an explanation for the observed pathogenic behavior and unveil part of the strategies used by PBTS1 and PBTS2 to interact with plants.

Interaction Analysis of Commercial Graphene Oxide Nanoparticles with Unicellular Systems and Biomolecules

The ability of commercial monolayer graphene oxide (GO) and graphene oxide nanocolloids (GOC) to interact with different unicellular systems and biomolecules was studied by analyzing the response of human alveolar carcinoma epithelial cells, the yeast Saccharomyces cerevisiae and the bacteria Vibrio fischeri to the presence of different nanoparticle concentrations, and by studying the binding affinity of different microbial enzymes, like the α-l-rhamnosidase enzyme RhaB1 from the bacteria Lactobacillus plantarum and the AbG β-d-glucosidase from Agrobacterium sp. (strain ATCC 21400). An analysis of cytotoxicity on human epithelial cell line A549, S. cerevisiae (colony forming units, ROS induction, genotoxicity) and V. fischeri (luminescence inhibition) cells determined the potential of both nanoparticle types to damage the selected unicellular systems. Also, the protein binding affinity of the graphene derivatives at different oxidation levels was analyzed. The reported results highlight the variability that can exist in terms of toxicological potential and binding affinity depending on the target organism or protein and the selected nanomaterial.

Novel Bacteria-Immobilized Cellulose Acetate/Poly(ethylene oxide) Nanofibrous Membrane for Wastewater Treatment

In this study, electrospun cellulose acetate - poly(ethylene oxide) nanofibrous membrane was found to be unique in immobilizing bacterial cells. Here, removal of methylene blue in aqueous media was achieved by using isolated species of bacteria (Bacillus paramycoides) from industrial wastewater and immobilized on cellulose acetate- poly(ethylene oxide) nanofibers using DMSO as a solvent. The decolorization time was varied from 0 to 72 h, different dye concentrations from 20 to 200 mg/L and bacterial cells count was investigated to achieve the maximum MB removal by bacteria-immobilized CA/PEO nanofibrous membrane. The effective dye decolorization was achieved within 48 h and MB removal % was around 93%. Furthermore, reusability of the bacteria-immobilized CA/PEO nanofibrous membrane was tested. It was found that after the 4^th usage, 44% of the dye decolorization capacity still could be achieved. These results are promising and suggest that bacteria-immobilized CA/PEO nanofibrous membrane could be economically feasible and eco-friendly when used in MB removal from industrial wastewater. Combination of both adsorption and biodegradation methods was found to be effective in MB removal from aqueous media.

Immobilized cells of a novel bacterium increased the degradation of N-methylated carbamates under low temperature conditions

Carbamates are synthetic pesticides, extensively used throughout the world due to their broad specificity against various insect pests. However, their enormous and inadequate use have made them a potential threat to the environment. At low temperature, degradation of carbamates becomes difficult mainly because of low biological activity. In the present study, we isolated a bacterial strain from a low temperature climate where the N-methylated carbamates are used for crop protection. The bacterium, was identified as Pseudomonas plecoglossicida strain (TA3) by 16S rRNA analysis. Degradation experiments with both free and immobilized cells in minimal salt medium indicated that the strain TA3 utilized carbaryl, carbofuran and aldicarb as both carbon and nitrogen source. TA3 can grow well at 4 °C and demonstrated the ability to degrade three carbamates (50 μgml^-1) at low temperature. The immobilized cells were found more efficient than their free cells counter parts. Immobilized cells has ability to degrade 100% of carbamates at 30 °C while 80% at 4 °C but incase of their free cells counter parts the efficiency to degrade carbamates was less which was 60% at 4 °C and 80% at 30 °C. TA3 free cellsextract also depicted high activity against all the three carbamates even at 4 °C indicating a possible enzymatic mechanism of degradation.

Organic acids as antimicrobial food agents: applications and microbial productions

Food safety is a global health and socioeconomic concern since many people still suffer from various acute and life-long diseases, which are caused by consumption of unsafe food. Therefore, ensuring safety of the food is one of the most essential issues in the food industry, which needs to be considered during not only food composition formulation but also handling and storage. For safety purpose, various chemical preservatives have been used so far in the foods. Recently, there has been renewed interest in replacing chemically originated food safety compounds with natural ones in the industry, which can also serve as antimicrobial agents. Among these natural compounds, organic acids possess the major portion. Therefore, in this paper, it is aimed to review and compile the applications, effectiveness, and microbial productions of various widely used organic acids as antimicrobial agents in the food industry.

Flavobacterium petrolei sp. nov., a novel psychrophilic, diesel-degrading bacterium isolated from oil-contaminated Arctic soil

This study presents taxonomic description of two novel diesel-degrading, psychrophilic strains: Kopri-42^T and Kopri-43, isolated during screening of oil-degrading psychrotrophs from oil-contaminated Arctic soil. A preliminary 16S rRNA gene sequence and phylogenetic tree analysis indicated that these Arctic strains belonged to the genus Flavobacterium, with the nearest relative being Flavobacterium psychrolimnae LMG 22018^T (98.9% sequence similarity). The pairwise 16S rRNA gene sequence identity between strains Kopri-42^T and Kopri-43 was 99.7%. The DNA-DNA hybridization value between strain Kopri-42^T and Kopri-43 was 88.6 ± 2.1% indicating that Kopri-42^T and Kopri-43 represents two strains of the same genomospecies. The average nucleotide identity and in silico DNA-DNA hybridization values between strain Kopri-42^T and nearest relative F. psychrolimnae LMG 22018^T were 92.4% and 47.9%, respectively. These values support the authenticity of the novel species and confirmed the strain Kopri-42^T belonged to the genus Flavobacterium as a new member. The morphological, physiological, biochemical and chemotaxonomic data also distinguished strain Kopri-42^T from its closest phylogenetic neighbors. Based on the polyphasic data, strains Kopri-42^T and Kopri-43 represents a single novel species of the genus Flavobacterium, for which the name Flavobacterium petrolei sp. nov. is proposed. The type strain is Kopri-42^T (=KEMB 9005-710^T = KACC 19625^T = NBRC 113374^T).

Living at the Frontiers of Life: Extremophiles in Chile and Their Potential for Bioremediation

Extremophiles are organisms capable of adjust, survive or thrive in hostile habitats that were previously thought to be adverse or lethal for life. Chile gathers a wide range of extreme environments: salars, geothermal springs, and geysers located at Altiplano and Atacama Desert, salars and cold mountains in Central Chile, and ice fields, cold lakes and fjords, and geothermal sites in Patagonia and Antarctica. The aims of this review are to describe extremophiles that inhabit main extreme biotopes in Chile, and their molecular and physiological capabilities that may be advantageous for bioremediation processes. After briefly describing the main ecological niches of extremophiles along Chilean territory, this review is focused on the microbial diversity and composition of these biotopes microbiomes. Extremophiles have been isolated in diverse zones in Chile that possess extreme conditions such as Altiplano, Atacama Desert, Central Chile, Patagonia, and Antarctica. Interesting extremophiles from Chile with potential biotechnological applications include thermophiles (e.g., Methanofollis tationis from Tatio Geyser), acidophiles (e.g., Acidithiobacillus ferrooxidans, Leptospirillum ferriphilum from Atacama Desert and Central Chile copper ores), halophiles (e.g., Shewanella sp. Asc-3 from Altiplano, Streptomyces sp. HKF-8 from Patagonia), alkaliphiles (Exiguobacterium sp. SH31 from Altiplano), xerotolerant bacteria (S. atacamensis from Atacama Desert), UV- and Gamma-resistant bacteria (Deinococcus peraridilitoris from Atacama Desert) and psychrophiles (e.g., Pseudomonas putida ATH-43 from Antarctica). The molecular and physiological properties of diverse extremophiles from Chile and their application in bioremediation or waste treatments are further discussed. Interestingly, the remarkable adaptative capabilities of extremophiles convert them into an attractive source of catalysts for bioremediation and industrial processes.

Diesel oil removal by Serratia sp. W4-01 immobilized in chitosan-activated carbon beads

Serratia sp. W4-01 was immobilized in chitosan-activated carbon beads and used for diesel oil removal. The type and concentration of chitosan, activated carbon content, and bead diameter were investigated as factors affecting diesel oil removal. The results showed that 2% (w/v) squid pen chitosan beads modified with 1% activated carbon (w/v) and with a 3-mm diameter had a good spherical shape and strength as well as diesel oil removal capability. The immobilized W4-01 cells removed more than 40% of diesel oil after 7 days when the initial diesel oil concentration was 100 to 400 mg L^-1, whereas 29-36% of diesel oil was removed after 14 days when the initial concentration was 800 to 1000 mg L^-1. Additionally, the immobilized cells maintained the ability to remove diesel oil over a pH range of 5-11. The addition of a biosurfactant increased the diesel oil removal from 62 to 75%. The reusability tests revealed that the ability of immobilized cells to remove diesel oil was enhanced after reuse, and 50-90% of diesel oil was removed during 2 to 12 reuse cycles. The stability and survival of W4-01 cells was confirmed by scanning electron microscopy and confocal laser scanning microscopy. The results of this study showed the potential use of W4-01 cells immobilized in chitosan-activated carbon beads for future applications in remediating diesel contamination.

Silica immobilization of Geobacter sulfurreducens for constructing ready-to-use artificial bioelectrodes

Microbial electrochemical technologies (METs) rely on the control of interactions between microorganisms and electronic devices, enabling to transform chemical energy into electricity. We report a new approach to construct ready-to-use artificial bioelectrodes by immobilizing Geobacter sulfurreducens cells in composite materials associating silica gel and carbon felt fibres. Viability test confirmed that the majority of bacteria (ca. 70 ± 5%) survived the encapsulation process in silica and that cell density did not increase in 96 h. The double entrapment within the silica-carbon composite prevented bacterial release from the electrode but allowed a suitable mass transport (ca. 5 min after electron donor pulse), making the electrochemical characterization of the system possible. The artificial bioelectrodes were evaluated in three-electrode reactors and the maximum current displayed was ca. 220 and 150 μA cm-3 using acetate and lactate as electron donors respectively. Cyclic voltammetry of acetate-fed bioelectrodes revealed a sigmoidal catalytic oxidation wave, typical of more advanced-stage biofilms. The presence of G. sulfurreducens within composites was ascertained by SEM analysis, suggesting that only part of the bacterial population was in direct contact with the carbon fibres. Preliminary analyses of the transcriptomic response of immobilized G. sulfurreducens enlightened that encapsulation mainly induces an osmotic stress to the cells. Therefore, ready-to-use artificial bioelectrodes represent a versatile time- and cost-saving strategy for microbial electrochemical systems.

Synthetic extreme environments: overlooked sources of potential biotechnologically relevant microorganisms

Synthetic extreme environments like carwash effluent tanks and drains are potential sources of biotechnologically important microorganisms and molecules which have, however, remained unexplored. Using culture‐ and molecular‐based methods, a total of 17 bacterial isolates belonging to the genera Shewanella, Proteus, Paenibacillus, Enterobacter and Citrobacter, Aeromonas, Pseudomonas and Pantoea were identified. Hydrocarbon utilization and enzyme production screening assays showed that Aeromonas sp. CAC11, Paenibacillus sp. CAC12 and Paenibacillus sp. CAC13 and Citrobacter sp. PCW7 were able to degrade benzanthracene, naphthalene and diesel oil, Paenibacillus sp. CAC12 and Paenibacillus sp. CAC13 could produce cellulase enzyme, while Proteus sp. BPS2, Pseudomonas sp. SAS8 and Proteus sp. CAL3 could produce lipase. GC‐MS analysis of bacterial secondary metabolites resulted in identification of 107 different compounds produced by Proteus sp. BPS2, Paenibacillus sp. CAC12, Pseudomonas sp. SAS8, Proteus sp. CAL3 and Paenibacillus sp. CAC13. Most of the compounds identified by both GC‐MS and LC‐MS have previously been determined to have antibacterial, antifungal and/or anticancer properties. Further, microbial metabolites which have previously been known to be produced only by plants or microorganisms found in natural extreme environments were also identified in this study. This research has revealed the immense bioresource potential of microorganisms inhabiting synthetic extreme environments.

Metabolic Responses of Bacterial Cells to Immobilization

In recent years immobilized cells have commonly been used for various biotechnological applications, e.g., antibiotic production, soil bioremediation, biodegradation and biotransformation of xenobiotics in wastewater treatment plants. Although the literature data on the physiological changes and behaviour of cells in the immobilized state remain fragmentary, it is well documented that in natural settings microorganisms are mainly found in association with surfaces, which results in biofilm formation. Biofilms are characterized by genetic and physiological heterogeneity and the occurrence of altered microenvironments within the matrix. Microbial cells in communities display a variety of metabolic differences as compared to their free-living counterparts. Immobilization of bacteria can occur either as a natural phenomenon or as an artificial process. The majority of changes observed in immobilized cells result from protection provided by the supports. Knowledge about the main physiological responses occurring in immobilized cells may contribute to improving the efficiency of immobilization techniques. This paper reviews the main metabolic changes exhibited by immobilized bacterial cells, including growth rate, biodegradation capabilities, biocatalytic efficiency and plasmid stability.