Quantitative evaluation of in-situ bioremediation of compound pollution of oil and heavy metal in sediments from the Bohai Sea, China

Bacterial biofilm-mediated environmental remediation: Navigating strategies to attain Sustainable Development Goals

Bacterial biofilm is a structured bacterial community enclosed within a three-dimensional polymeric matrix, governed by complex signaling pathways, including two-component systems, quorum sensing, and c-di-GMP, which regulate its development and resistance in challenging environments. The genetic configurations within biofilm empower bacteria to exhibit significant pollutant remediation abilities, offering a promising strategy to tackle diverse ecological challenges and expedite progress toward Sustainable Development Goals (SDGs). Biofilm-based technologies offer advantages such as high treatment efficiency, cost-effectiveness, and sustainability compared to conventional methods. They significantly contribute to agricultural improvement, soil fertility, nutrient cycling, and carbon sequestration, thereby supporting SDG 1 (No poverty), SDG 2 (Zero hunger), SDG 13 (Climate action), and SDG 15 (Life on land). In addition, biofilm facilitates the degradation of organic-inorganic pollutants from contaminated environments, aligning with SDG 6 (Clean water and sanitation) and SDG 14 (Life below water). Bacterial biofilm also has potential applications in industrial innovation, aligning SDG 7 (Affordable and clean energy), SDG 8 (Decent work and economic growth), and SDG 9 (Industry, innovation, and infrastructure). Besides, bacterial biofilm prevents several diseases, aligning with SDG 3 (Good health and well-being). Thus, bacterial biofilm-mediated remediation provides advanced opportunities for addressing environmental issues and progressing toward achieving the SDGs. This review explores the potential of bacterial biofilms in addressing soil pollution, wastewater, air quality improvement, and biodiversity conservation, emphasizing their critical role in promoting sustainable development.

Current trends in bioremediation and bio-integrated treatment of petroleum hydrocarbons

Petroleum hydrocarbons and their derivatives constitute the leading group of environmental pollutants worldwide. In the present global scenario, petroleum and natural gas production, exploration, petroleum refining, and other anthropogenic activities produce huge amounts of hazardous petroleum wastes that accumulate in the terrestrial and marine environment. Due to their carcinogenic, neurotoxic, and mutagenic characteristics, petroleum pollutants pose severe risks to human health and exert ecotoxicological effects on the ecosystems. To mitigate petroleum hydrocarbons (PHs) contamination, implementing "green technologies" for effective cleanup and restoration of an affected environment is considered as a pragmatic approach. This review provides a comprehensive outline of newly emerging bioremediation technologies, for instance; nanobioremediation, electrokinetic bioremediation, vermiremediation, multifunctional and sustainably implemented on-site applied biotechnologies such as; natural attenuation, biostimulation, bioaugmentation, bioventing, phytoremediation and multi-process hybrid technologies. Additionally, the scope of the effectiveness and limitations of individual technologies in treating the petroleum hydrocarbon polluted sites are also evaluated.

Phenanthrene-Degrading and Nickel-Resistant Neorhizobium Strain Isolated from Hydrocarbon-Contaminated Rhizosphere of Medicago sativa L

Pollutant degradation and heavy-metal resistance may be important features of the rhizobia, making them promising agents for environment cleanup biotechnology. The degradation of phenanthrene, a three-ring polycyclic aromatic hydrocarbon (PAH), by the rhizobial strain Rsf11 isolated from the oil-polluted rhizosphere of alfalfa and the influence of nickel ions on this process were studied. On the basis of whole-genome and polyphasic taxonomy, the bacterium Rsf11 represent a novel species of the genus Neorhizobium, so the name Neorhizobium phenanthreniclasticum sp. nov. was proposed. Analysis of phenanthrene degradation by the Rsf1 strain revealed 1-hydroxy-2-naphthoic acid as the key intermediate and the activity of two enzymes apparently involved in PAH degradation. It was also shown that the nickel resistance of Rsf11 was connected with the extracellular adsorption of metal by EPS. The joint presence of phenanthrene and nickel in the medium reduced the degradation of PAH by the microorganism, apparently due to the inhibition of microbial growth but not due to the inhibition of the activity of the PAH degradation enzymes. Genes potentially involved in PAH catabolism and nickel resistance were discovered in the microorganism studied. N. phenanthreniclasticum strain Rsf11 can be considered as a promising candidate for use in the bioremediation of mixed PAH-heavy-metal contamination.

Spatial distribution and source identification of potentially toxic elements in Yellow River Delta soils, China: An interpretable machine-learning approach

Identifying the driving factors and quantifying the sources of potentially toxic elements (PTEs) are essential for protecting the ecological environment of the Yellow River Delta. In this study, data from 201 surface soil samples and 16 environmental variables were collected, and the random forest (RF) and Shapley additive explanations (SHAP) methods were then combined to explore the key factors affecting soil PTEs. An innovative t-distributed random neighbor embedding-RF-SHAP model was then constructed, based on the absolute principal component score and multivariate linear regression model, to quantitatively determine PTE sources. Although average PTE concentrations did not exceed the risk control values, PTE distributions exhibited significant differences. It was found that sodium, soil organic matter, and phosphorus contents were the three most important factors affecting PTEs, and human activities and natural environmental factors both influence PTE contents by altering the soil properties. The proposed model successfully determined PTE sources in the soil, outperforming the original linear regression model with a significantly lower RMSE. Source analysis revealed that the parent material was the main contributor to soil PTEs, accounting for more than half of the total PTE content. Industrial and agricultural activities also contributed to an increase in soil PTEs, with average contributions of 19.91 % and 17.44 %, respectively. Unknown sources accounted for 10.83 % of the total PTE content. Thus, the proposed model provides innovative perspectives on source parsing. These findings provide valuable scientific insights for policymakers seeking to develop effective environmental protection measures and improve the quality of saline-alkali land in the Yellow River Delta.

Sources, bioaccumulation, and toxicity mechanisms of cadmium in Chlamys farreri

The Potentially toxic elements (PTEs) cadmium (Cd) is one of the most serious stressors polluting the marine environment. Marine bivalves have specific high enrichment capacity for Cd. Previous studies have investigated the tissue distribution changes and toxic effects of Cd in bivalves, but the sources of Cd enrichment, migration regulation during growth, and toxicity mechanisms in bivalves have not been fully explained. Here, we used stable-isotope labeling to investigate the contributions of Cd from different sources to scallop tissues. We sampled the entire growth cycle of Chlamys farreri, which is widely cultured in northern China, from juveniles to adult scallops. We found tissue variability in the bioconcentration-metabolism pattern of Cd in different bound states, with Cd in the aqueous accounting for a significant contribution. The accumulation pattern of Cd in all tissues during growth was more significant in the viscera and gills. Additionally, we combined a multi-omics approach to reveal a network of oxidative stress-induced toxicity mechanisms of Cd in scallops, identifying differentially expressed genes and proteins involved in metal ion binding, oxidative stress, energy metabolism, and apoptosis. Our findings have important implications for both ecotoxicology and aquaculture. They also provide new insights into marine environmental assessment and mariculture development.

Water-lifting and aeration system improves water quality of drinking water reservoirs: Biological mechanism and field application

Reservoirs have been served as the major source of drinking water for dozens of years. The water quality safety of large and medium reservoirs increasingly becomes the focus of public concern. Field test has proved that water-lifting and aeration system (WLAS) is a piece of effective equipment for in situ control and improvement of water quality. However, its intrinsic bioremediation mechanism, especially for nitrogen removal, still lacks in-depth investigation. Hence, the dynamic changes in water quality parameters, carbon source metabolism, species compositions and co-occurrence patterns of microbial communities were systematically studied in Jinpen Reservoir within a whole WLAS running cycle. The WLAS operation could efficiently reduce organic carbon (19.77%), nitrogen (21.55%) and phosphorus (65.60%), respectively. Biolog analysis revealed that the microbial metabolic capacities were enhanced via WLAS operation, especially in bottom water. High-throughput sequencing demonstrated that WLAS operation altered the diversity and distributions of microbial communities in the source water. The most dominant genus accountable for aerobic denitrification was identified as Dechloromonas. Furthermore, network analysis revealed that microorganisms interacted more closely through WLAS operation. Oxidation-reduction potential (ORP) and total nitrogen (TN) were regarded as the two main physicochemical parameters influencing microbial community structures, as confirmed by redundancy analysis (RDA) and Mantel test. Overall, the results will provide a scientific basis and an effective way for strengthening the in-situ bioremediation of micro-polluted source water.

Emerging studies on oil pollution biomonitoring: A systematic review

In the last decade, several methods were applied to monitor the impact of oil pollution on marine organisms. Recent studies showed an eminent need to standardize these methods to produce comparable results. Here we present the first thorough systematic review of the literature on oil pollution monitoring methods in the last decade. The literature search resulted on 390 selected original articles, categorized according to the analytical method employed. Except for Ecosystem-level analyses, most methods are used on short-term studies. The combination of Biomarker and Bioaccumulation analysis is the most frequently adopted strategy for oil pollution biomonitoring, followed by Omic analyses. This systematic review describes the principles of the most frequently used monitoring tools, presents their advantages, limitations, and main findings and, as such, could be used as a guideline for future researches on the field.

Biodegradation of oil-contaminated aqueous ecosystem using an immobilized fungi biomass and kinetic study

Remediation of environmental oil pollution with the usage of fungal organisms has proven to be a successful cleanup bioremediation method for organic contaminants. To investigate the breakdown of oil pollutants in water environments, biosurfactant-producing fungi have been isolated from oil-polluted soil samples. 16s rRNA sequencing technique was performed to identify the fungal organism and phylogenetic tree has been constructed. A variety of biosurfactant screening tests have demonstrated the better biosurfactant producing ability of fungi. The emulsion's stability, which is essential for the biodegradation process, was indicated by the emulsification index of 68.48% and emulsification activity of 1.3. In the isolated biosurfactant, important functional groups such as amino groups, lipids, and sugars were found according to thin layer chromatography analysis with a maximum retention value of 0.85. A maximum oil degradation of around 64% was observed with immobilized beads within 12 days. The half-life, and degradation removal rate constant of 20.21 days and 0.03 day^-1, respectively, have been determined by the degradation kinetic analysis. GCMS analysis confirmed the highly degraded hydrocarbons such as nonanoic acid and pyrrolidine. The immobilized fungi exhibit better oil biodegradability in aqueous solutions.

Rational Design of High-Flux, Eco-Friendly, and Versatile Superhydrophobic/Superoleophilic PDMS@ZIF-7/Cu3(PO4)2 Mesh with Self-Cleaning Property for Oil-Water Mixture and Emulsion Separation

In recent years, efficient oil-water separation has gradually become an indispensable part of environmental treatment. Superhydrophobic/superoleophilic materials with excellent self-cleaning performance are urgently required and remain challenging in the investigation of practical, rapid, and efficient separation of oil-water mixture and emulsion, especially those with robust surfaces that can be used in harsh conditions. In this work, a novel superhydrophobic/superoleophilic material was first fabricated by in situ constructing PDMS@ZIF-7/Cu₃(PO₄)₂ hierarchical architectures on a copper mesh, which was adopted as a high flux and efficient separation material for gravity-driven separation of oil-water mixture as well as emulsion. The introduction of crucial Cu₃(PO₄)₂ nanosheet interlayers created the ideal hierarchical structures and serve as partial templates for the subsequent in situ growth of hydrophobic ZIF-7 nanosheets. An improved superhydrophobicity (CA = 155°), permeation flux (102,000 L m^-2 h^-1), and preferred self-cleaning property were thus achieved by such manipulation of the copper mesh. The PDMS@ZIF-7/Cu₃(PO₄)₂ mesh exhibited exceptional separation efficiency for diverse oil-water mixtures and emulsions attributed to the superhydrophobicity and the demulsification ability and considerable stability to cope with extreme environments including sunlight resistance, low temperature, and corrosion resistance, which prompted its promising applicability in cleaning emulsified wastewater.

Recent advances in bioremediation of heavy metals and persistent organic pollutants: A review

Heavy metals and persistent organic pollutants are causing detrimental effects on the environment. The seepage of heavy metals through untreated industrial waste destroys the crops and lands. Moreover, incineration and combustion of several products are responsible for primary and secondary emissions of pollutants. This review has gathered the remediation strategies, current bioremediation technologies, and their primary use in both in situ and ex situ methods, followed by a detailed explanation for bioremediation over other techniques. However, an amalgam of bioremediation techniques and nanotechnology could be a breakthrough in cleaning the environment by degrading heavy metals and persistant organic pollutants.

Superhydrophobic Nanodiamond-Functionalized Melamine Sponge for Oil/Water Separation

Fabrication of absorbent materials foroil/water separation is an important ecological pursuit for oil spill clean-up and organic pollutants' removal. In this study, nanodiamonds (NDs), a promising member of the carbon family, were functionally modified by the covalent linking of octadecylamine (ODA). Subsequently, the superhydrophobic sponge with hierarchical microstructures was fabricated by embedding ND-ODA into a melamine sponge (MS) skeleton via a simple immersion-drying process. The as-prepared sponge (ND-ODA@PDMS@MS) showed superhydrophobic properties with a water contact angle of 155 ± 2°. For various oils and organic solvents, ND-ODA@PDMS@MS possesses excellent absorption capacity (26.65-55.64 g/g) and oil/water separation efficiency (above 98.6%). Furthermore, the adsorption capacity to crude oil remained relatively stable in highly acidic, alkaline, and salty conditions, ensuring the application in the clean-up of industrial oily sewages and marine oil spills. Besides absorbing oil for a single time, ND-ODA@PDMS@MS also exhibited satisfactory performance in continuous oil/water separation. Therefore, this work provides a facile strategy to produce robust and efficient absorbent materials for oil/water separation in large-scale oil and organic solvent clean-ups.

Environmental Assessment of Potentially Toxic Elements Using Pollution Indices and Data-Driven Modeling in Surface Sediment of the Littoral Shelf of the Mediterranean Sea Coast and Gamasa Estuary, Egypt

Coastal environmental assessment techniques have evolved into one of the most important fields for the long-term development and management of coastal zones. So, the overall aim of the present investigation was to provide effective approaches for making informed decisions about the Gamasa coast sediment quality. Over a two-year investigation, sediment samples were meticulously collected from the Gamasa estuary and littoral shelf. The inductively coupled plasma mass spectra (ICP-MS) was used to the total concentrations of Al, Fe, Ti, Mg, Mn, Cu, P, V, Ba, Cr, Sr, Co, Ni, Zn, Pb, Zr, and Ce. Single elements environmental pollution indices including the geoaccumulation index (Igeo), contamination factor (CF), and enrichment factor (EF), as well as multi-elements pollution indices comprising the potential ecological risk index (RI), degree of contamination (Dc), and pollution load index (PLI) were used to assess the sediment and the various geo-environmental variables affecting the Mediterranean coastal system. Furthermore, the Dc, PLI, and RI were estimated using the random forest (RF) and Back-Propagation Neural Network (BPNN) depending on the selected elements. According to the Dc results, all the investigated sediment samples categories were considerably contaminated. Cr, Co, Ni, Cu, Zr, V, Zn, P, and Mn showed remarkable enrichment in sediment samples and were originated from anthropogenic sources based on the CF, EF, and Igeo data. Moreover, the RI findings revealed that all the samples tested pose a low ecologically risk. Meanwhile, based on PLI, 70% of the Gamasa estuary samples were polluted, while 93.75% of littoral shelf sediment was unpolluted. The BPNNs -PCs-CD-17 model performed the best and demonstrated a better association between exceptional qualities and CD. With R2 values of 1.00 for calibration (Cal.) and 1.00 for validation (Val.). The BPNNs -PCs-PLI-17 models performed the best in terms of measuring PLI with respective R2 values of 1.00 and 0.98 for the Cal. and Val. datasets. The findings showed that the RF and BPNN models may be used to precisely quantify the pollution indices (Dc, PLI, and RI) in calibration (Cal.) and validation (Val.) datasets utilizing potentially toxic elements of surface sediment.

Assessment of organic contamination along the coast of Laizhou Bay, China: chemical analysis and integrated biomarker responses in the clam Ruditapes philippinarum

An investigative biomonitoring study was conducted along the coastal area of Laizhou Bay (China) to evaluate the impact of organic pollution on the clam Ruditapes philippinarum using bioaccumulation and multi-biomarker measurements. In addition, the polychlorinated biphenyls (PCBs), total petroleum hydrocarbons (TPHs) and nonylphenol (NP) content in surface sediment at the study sites were also analyzed. Concentrations of PCBs, TPHs and NP in the sediments of the study area were 1.90 ± 0.10 μg kg-1, 39.55 ± 2.42 mg kg-1, 9.23 ± 0.41 μg kg-1 dry weight, respectively, while the organic contaminants in the soft tissues of R. philippinarum were 14.81 ± 0.96 μg kg-1 for PCBs, 165.87 ± 5.03 mg kg-1 for TPHs and 86.16 ± 5.29 μg kg-1 for NP. Linear regression analysis on the levels of organic pollutants accumulated in R. philippinarum and in sediments showed no significant correlation. Multi-biomarkers including superoxide dismutase, catalase, glutathione peroxidase, glutathione S-transferase, total glutathione and lipid peroxidation were assayed in gills and digestive glands of R. philippinarum. Finally, the biomarkers in gills were selected to calculate the Integrated Biomarker Response (IBR) index and to evaluate the impact of the three organic contaminants on R. philippinarum collected from different sites. According to IBR results, the western coast and eastern coast exhibited higher environmental stress than the sampling sites along the southern coast of Laizhou Bay. Significant correlation was found between the level of organic contaminants in the sediments and IBR whereas no dependence was found between pollutants' concentrations in sediments and separate biomarker responses. The results showed that PCBs and NP were the main organic pollutants among the three studied which have caused pollution pressure on R. philippinarum in Laizhou Bay coastal area.

Bioremediation of PAHs and heavy metals co-contaminated soils: Challenges and enhancement strategies

Systemic studies on the bioremediation of co-contaminated PAHs and heavy metals are lacking, and this paper provides an in-depth review on the topic. The released sources and transport of co-contaminated PAHs and heavy metals, including their co-occurrence through formation of cation-π interactions and their adsorption in soil are examined. Moreover, it is investigated that co-contamination of PAHs and heavy metals can drive a synergistic positive influence on bioremediation through enhanced secretion of extracellular polymeric substances (EPSs), production of biosynthetic genes, organic acid and enzymatic proliferation. However, PAHs molecular structure, PAHs-heavy metals bioavailability and their interactive cytotoxic effects on microorganisms can exert a challenging influence on the bioremediation under co-contaminated conditions. The fluctuations in bioavailability for microorganisms are associated with soil properties, chemical coordinative interactions, and biological activities under the co-contaminated PAHs-heavy metals conditions. The interactive cytotoxicity caused by the emergence of co-contaminants includes microbial cell disruption, denaturation of DNA and protein structure, and deregulation of antioxidant biological molecules. Finally, this paper presents the emerging strategies to overcome the bioavailability problems and recommends the use of biostimulation and bioaugmentation along with the microbial immobilization for enhanced bioremediation of PAHs-heavy metals co-contaminated sites. Better knowledge of the bioremediation potential is imperative to improve the use of these approaches for the sustainable and cost-effective remediation of PAHs and heavy metals co-contamination in the near future.

Heavy metal pollution in coastal wetlands: A systematic review of studies globally over the past three decades

Coastal wetlands are ecosystems lying between land and ocean and are subject to inputs of heavy metals (HMs) from terrestrial, oceanic and atmospheric sources. Although the study on HM pollution in coastal wetlands has been rapidly developing over the past three decades, systematic reviews are still unavailable. Here, by analyzing 3343 articles published between 1990 and 2019, we provided the first holistic systematic review of studies on HM pollution in coastal wetlands globally. The results showed a trend of rapid increases in publications in this field globally, especially over the past ten years. Trends varied greatly among coastal countries, and global trends were primarily driven by the US before 2000, and in China after 2010. We also found that mercury (Hg), cadmium (Cd), and copper (Cu) were the most widely studied HM elements globally, but patterns differed geographically, with Hg being most widely examined in the Americas, Cd in China and India, and lead (Pb) in the western Europe and Australia, respectively. Among different types of coastal wetlands, salt marshes, mangrove forests, and estuaries were the most widely studied, in contrast to seagrass beds and tidal flats. As for ecosystem components, soils/sediments and plants were most extensively investigated, while algae, microbes, and animals were much less examined. Our analysis further revealed rapid emergence of topics on anthropogenic sources, interactions with other anthropogenic environmental changes (climate change in particular), and control and remediation methodology in the literature in the recent ten years. Moving forward, we highlight that future studies are needed to i) better understand the impacts of HM pollution in less studied coastal wetland systems and species, ii) deepen current understanding of the biogeochemical behaviors of HMs under anthropogenic activities, iii) examine interactions with other anthropogenic environmental changes, iv) conceive ecological remediation (i.e., "ecoremediation" as compared to traditional physiochemical remediation and bioremediation) strategies, and v) develop advanced analysis instruments and methods. The perspectives we brought forward can help stimulate many new advances in this field.

Study on metal binding capacity of the freshwater crab Sinopotamon henanense's recombinant copper specific binding metallothionein expressed in Escherichia coli

The copper specific binding metallothionein (CuMT) is a type of cysteine-rich, metal-binding, small protein which plays an important role in Cu²⁺ metabolism in vertebrates. In this study, we investigated the metal tolerance and removing ability of recombinant strains harboring CuMT obtained in vivo from the freshwater crab Sinopotamon henanense (ShCuMT) in order to study its physiological functions and metal binding capacity. We performed a 3D modeling of ShCuMT and created its structural and functional models using the I-TASSER program. The shCumt gene was inserted into a pGEX-4t-1 vector and recombinant soluble ShCuMT was expressed in Escherichia coli. In addition, in order to characterize the tolerance and removing ability of heavy metals in E. coli with ShCuMT expression, the recombinant strains harboring ShCuMT were exposed to various concentrations of Cd²⁺, Cu²⁺ and Zn²⁺, respectively. The results showed that ShCuMT contains transition metal binding sites. In addition, E. coli cells expressing ShCuMT exhibited enhanced metal tolerance and higher removing ability of metal ions than control cells. However, compared with Cd²⁺ and Zn²⁺, E. coli cells expressing ShCuMT have stronger tolerance and higher removing ability of Cu²⁺. In general, ShCuMT contains multiple transition metal binding sites, and it could enhance tolerance and removing ability of metal ions. Therefore, ShCuMT can provide potential candidates for heavy metal bioremediation. This research on the metal binding properties of ShCuMT provides a scientific basis for bioremediation of heavy metal pollution by the recombinant strains.

Port Sediments: Problem or Resource? A Review Concerning the Treatment and Decontamination of Port Sediments by Fungi and Bacteria

Contamination of marine sediments by organic and/or inorganic compounds represents one of the most critical problems in marine environments. This issue affects not only biodiversity but also ecosystems, with negative impacts on sea water quality. The scientific community and the European Commission have recently discussed marine environment and ecosystem protection and restoration by sustainable green technologies among the main objectives of their scientific programmes. One of the primary goals of sustainable restoration and remediation of contaminated marine sediments is research regarding new biotechnologies employable in the decontamination of marine sediments, to consider sediments as a resource in many fields such as industry. In this context, microorganisms—in particular, fungi and bacteria—play a central and crucial role as the best tools of sustainable and green remediation processes. This review, carried out in the framework of the Interreg IT-FR Maritime GEREMIA Project, collects and shows the bioremediation and mycoremediation studies carried out on marine sediments contaminated with ecotoxic metals and organic pollutants. This work evidences the potentialities and limiting factors of these biotechnologies and outlines the possible future scenarios of the bioremediation of marine sediments, and also highlights the opportunities of an integrated approach that involves fungi and bacteria together.