Structural basis for expanding the application of bioligand in metal bioremediation: A review

Prediction models for bioavailability of Cu and Zn during composting: Insights into machine learning

Bioavailability assessment of heavy metals in compost products is crucial for evaluating associated environmental risks. However, existing experimental methods are time-consuming and inefficient. The machine learning (ML) method has demonstrated excellent performance in predicting heavy metal fractions. In this study, based on the conventional physicochemical properties of 260 compost samples, including compost time, temperature, electrical conductivity (EC), pH, organic matter (OM), total phosphorus (TP), total nitrogen, and total heavy metal contents, back propagation neural network, gradient boosting regression, and random forest (RF) models were used to predict the dynamic changes in bioavailable fractions of Cu and Zn during composting. All three models could be used for effective prediction of the variation trend in bioavailable fractions of Cu and Zn; the RF model showed the best prediction performance, with the prediction level higher than that reported in related studies. Although the key factors affecting changes among fractions were different, OM, EC, and TP were important for the accurate prediction of bioavailable fractions of Cu and Zn. This study provides simple and efficient ML models for predicting bioavailable fractions of Cu and Zn during composting, and offers a rapid evaluation method for the safe application of compost products.

How does phosphorus influence Cd tolerance strategy in arbuscular mycorrhizal - Phragmites australis symbiotic system?

To clarify how phosphorus (P) influences arbuscular mycorrhizal fungi (AMF) interactions with host plants, we measured the effects of variation in environmental P levels and AMF colonization on photosynthesis, element absorption, ultrastructure, antioxidant capacity, and transcription mechanisms in Phragmites australis (P. australis) under cadmium (Cd) stress. AMF maintained photosynthetic stability, element balance, subcellular integrity and enhanced antioxidant capacity by upregulating antioxidant gene expression. Specifically, AMF overcame Cd-induced stomatal limitation, and mycorrhizal dependence peaked in the high Cd-moderate P treatment (156.08%). Antioxidants and compatible solutes responded to P-level changes: the primary driving forces of removing reactive oxygen species (ROS) and maintaining osmotic balance were superoxide dismutase, catalase, and sugars at limited P levels and total polyphenol, flavonoid, peroxidase, and proline at abundant P levels, we refer to this phenomenon as "functional link." AMF and phosphorus enhanced Cd tolerance in P. australis, but the regulation of AMF was P-dependent. Phosphorus prevented increases in total glutathione content and AMF-induced GSH/GSSG ratio (reduced to oxidized glutathione ratio) by inhibiting the expression of assimilatory sulfate reduction and glutathione reductase genes. The AMF-induced flavonoid synthesis pathway was regulated by P, and AMF activated Cd-tolerance mechanisms by inducing P-dependent signaling.

Responses of Rice and Related Cadmium Transporter Genes to the Passivating Microbial Agent MBLHAP

Alkali-producing microorganisms and hydroxyapatite (HAP), a chemical passivation agent, have a certain remediation effect on cadmium (Cd) -contaminated soil. They can decrease the available Cd content in the soil to a certain extent and reduce the overall Cd content of rice planted in the soil. The Cd-contaminated soil was treated with the passivating bacterial agent that had been developed. Changes in the Cd concentration of rice leaves and soil were observed. Real-time PCR was used to analyse the expression levels of Cd transport protein genes in rice. Then, we determined the activities of super-oxide dismutase (SOD), catalase (CAT) and peroxidase (POD) at different stages of rice growth. The results showed that after HAP, alkali-producing microorganisms and passivating microbial agents were applied to the Cd treated soil. The total Cd content in rice leaves was reduced by 66.80%, 80.32% and 81.35%. The expression differences of genes related to Cd transporter proteins were measured, and the results showed that the changes in gene regulation were consistent with the changes in Cd content of rice leaves. The changes in SOD activity, CAT activity and POD activity further indicated that the three enzymes could alleviate the adverse effects of Cd stress by regulating the related enzyme activities in rice. In conclusion, alkali-producing microorganisms, HAP and passivating bacterial agents can effectively reduce the toxicity of Cd to rice, and reduce the absorption and accumulation of Cd in rice leaves.

Deep learning model based on urban multi-source data for predicting heavy metals (Cu, Zn, Ni, Cr) in industrial sewer networks

The high concentrations of heavy metals in municipal industrial sewer networks will seriously impact the microorganisms of the activated sludge in the wastewater treatment plant (WWTP), thus deteriorating the effluent quality and destroying the stability of sewage treatment. Therefore, timely prediction and early warning of heavy metal concentrations in industrial sewer networks is crucial. However, due to the complex sources of heavy metals in industrial sewer networks, traditional physical modeling and linear methods cannot establish an accurate prediction model. Herein, we developed a Gated Recurrent Unit (GRU) neural network model based on a deep learning algorithm for predicting the concentrations of heavy metals in industrial sewer networks. To train the GRU model, we used low-cost and easy-to-obtain urban multi-source data, including socio-environmental indicator data, air environmental indicator data, water quantity indicator data, and easily measurable water quality indicator data. The model was applied to predict the concentrations of heavy metals (Cu, Zn, Ni, and Cr) in the sewer networks of an industrial area in southern China. The results are compared with the commonly used Artificial Neural Network (ANN) model. In this study, it was shown that the GRU had better prediction performance for Cu, Zn, Ni, and Cr concentrations, with the average R² significantly increased by 12.35%, 11.94%, 9.21%, and 8.13%, respectively, compared to ANN predictions. The sensitivity analysis based on Shapley (SHAP) values revealed that conductivity (σ), temperature (T), pH, and sewage flow (Flow) contributed significantly to the prediction results of the model. Furthermore, the three input variables including air pressure (AP), land area (A), and population (Pop.) were removed without affecting the prediction performance of the model, which maximized the modeling efficiency and reduced the operational cost. This study provides an economical and feasible technical method for early warning of abnormal heavy metal concentrations in urban industrial sewer networks.

Selenium nanoparticles reduced cadmium uptake, regulated nutritional homeostasis and antioxidative system in Coriandrum sativum grown in cadmium toxic conditions

Nanotechnology has become a valuable novel approach to manage several environmental challenges through providing innovative and effective solutions. Heavy metal stress is an important abiotic limiting factor. Seed priming with selenium (Se) alleviates various kinds of environmental stresses; yet, the potential of seed priming with selenium nanoparticles (SeNPs) under cadmium (Cd) stress for coriander crop has never been evaluated. This research work was designed to explore the effects of seed priming with three levels (0, 5, 10 and 15 mg L^-1) of SeNPs solution on the physio-biochemical characteristics, nutrition, antioxidative defense system and growth of coriander under Cd stress. Cadmium toxicity reduced chlorophyll content, photosynthetic activity and growth of treated plants. Moreover, Cd stressed plants exhibited modulations in proline level, together with decreased water potential, and leaf osmotic potential. However, SeNPs increased growth attributes, chlorophyll content, total soluble sugars, leaf relative water content, and gas exchange parameters in treated plants which were conversely decreased by Cd toxicity. The seeds priming with SeNPs promoted antioxidant response by increasing catalase (CAT), ascorbate peroxidase (APX) and peroxidase (POX) activity and safeguarding cellular structures through scavenging free radicals and reactive oxygen species. Furthermore, Cd stressed plants displayed an upper level of MDA (1.91 fold) while SeNPs improved membranous integrity through detoxification of hydrogen peroxide. Additionally, SeNPs enhanced nutrients contents (P, K, Ca, Mg, Zn), metal tolerance index and diminished Cd content in plants resulting in the improved growth and development of Cd affected coriander plants.

Transcription profiling-guided remodeling of sulfur metabolism in synthetic bacteria for efficiently capturing heavy metals

Heavy metal contamination is becoming a global problem threatening human health. Heavy metal removal by engineered microbes by cellular adsorption and uptake is a promising strategy for treatment of heavy metal contamination. However, this strategy is confronted with limited heavy metal-capturing elements. In this study, we performed a transcription profiling-guided strategy for construction of heavy metal-capturing synthetic bacteria. Transcription profiling of a heavy metal-tolerating Cupriavidus taiwanensis strain revealed up-regulation of sulfur metabolism-related operons (e.g., iscSAU and moaEDAB) by Pb²⁺ and Cd²⁺. A synthetic Escherichia coli strain, EcSSMO, was constructed by design of a synthetic sulfur metabolism operon (SSMO) based on iscSAU/moaEDAB. Biochemical analysis and X-ray photoelectron spectroscopy (XPS) revealed that the synthetic bacteria had remodeled sulfur metabolism and enhanced heavy metal-tolerating capacity, with higher surviving EcSSMO cells than the surviving control cells Ec0 (not containing SSMO) at 50 mg/L of Pb²⁺ and Cd²⁺ (>92 % versus <10 %). Moreover, EcSSMO exhibited much higher heavy metal-capturing capacity than Ec0, removing>90 % of Pb²⁺ and Cd²⁺ at 5 mg/L of Pb²⁺ and Cd²⁺, and >40 % of both heavy metals even at 50 mg/L of Pb²⁺ and Cd²⁺. This study reveals emphasizes feasibility of transcription profiling-guided construction of synthetic organisms by large-scale remodeling metabolic network.

Two-step adsorption model for Pb ion accumulation at the algae-water interface in the presence of fulvic acid

The effects of fulvic acid (FA) on heavy metal bioaccumulation by algae have been extensively studied, but the quantitative description on its adsorption behavior is not elaborately illustrated. In the study, the two-step adsorption model is firstly proposed to describe the adsorption of Pb by algae in the presence of FA (R² > 0.984), which is characterized with two-plateaus in the biosorption curves. The first plateau in the curve represents a monolayer adsorption process of free Pb²⁺; while the second reveals a multilayer adsorption process of Pb-FA binding to those adsorbed Pb by algae, and the bonding material was called as ternary complex of algae-Pb-(FA-Pb). The formation of the ternary complex caused a sharp increase of the amount of adsorbed Pb by algae which was measured by an atomic absorption spectrophotometry, and a decrease of the toxicity of Pb to algae verified with SEM and TEM images. The ternary phase diagram showed FA could participate in the formation of ternary complexes at very low concentration. The study is important for a comprehensive understanding of the metal-microalgae interaction and its biogeochemical cycle in surface waters.

Genetic Engineering-Facilitated Coassembly of Synthetic Bacterial Cells and Magnetic Nanoparticles for Efficient Heavy Metal Removal

Heavy-metal pollution is becoming a worldwide problem severely threatening our health and ecosystem. In this study, we constructed a genetic-engineering-driven coassembly of synthetic bacterial cells and magnetic nanoparticles (MNPs) for capturing heavy metals. The Escherichia coli cells were genetically engineered by introducing a de novo synthetic heavy-metal-capturing gene (encoding a protein SynHMB containing a six-histidine tag, two cystine-rich peptides, and a metallothionein sequence) and a synthetic type VI secretory system (T6SS) cluster of Pseudomonas putida, endowing the synthetic cells (SynEc2) with high ability of displaying the heavy-metal-capturing SynHMB on cell surface. MNPs were synthesized by a coprecipitation method and further modified by polyethylenimine (PEI) and diethylenetriaminepentaacetic acid (DTPA). Owing to the surface exposure of six-histidine tag on the synthetic bacteria and carboxyl groups on the modified MNPs (MNP@SiO₂-PEI-DTPA), the synthetic bacterial cells and MNPs coassembled to form biotic/abiotic complex exhibiting a self-developing characteristic. In the culture medium containing both Cd²⁺ and Pb²⁺, the coassemblies captured these heavy metals with high removal efficiency (>90% even at 50 mg/L of Cd²⁺ and 50 mg/L of Pb²⁺) and were conveniently recycled by artificial magnetic fields. Moreover, the coassemblies realized coremoval of organic carbon pollutants with the removal efficiency of >80%. This study builds a novel biotic/abiotic coassembling platform facilitated by genetic engineering and sheds light on development of artificial magnetic biological systems for efficient treatment of environmental pollution.

Functional Analysis of a Polluted River Microbiome Reveals a Metabolic Potential for Bioremediation

The objective of this study is to understand the functional and metabolic potential of the microbial communities along the Apatlaco River and highlight activities related to bioremediation and its relationship with the Apatlaco’s pollutants, to enhance future design of more accurate bioremediation processes. Water samples were collected at four sampling sites along the Apatlaco River (S1–S4) and a whole metagenome shotgun sequencing was performed to survey and understand the microbial metabolic functions with potential for bioremediation. A HMMER search was used to detect sequence homologs related to polyethylene terephthalate (PET) and polystyrene biodegradation, along with bacterial metal tolerance in Apatlaco River metagenomes. Our results suggest that pollution is a selective pressure which enriches microorganisms at polluted sites, displaying metabolic capacities to tolerate and transform the contamination. According to KEGG annotation, all sites along the river have bacteria with genes related to xenobiotic biodegradation. In particular, functions such as environmental processing, xenobiotic biodegradation and glycan biosynthesis are over-represented in polluted samples, in comparison to those in the clean water site. This suggests a functional specialization in the communities that inhabit each perturbated point. Our results can contribute to the determination of the partition in a metabolic niche among different Apatlaco River prokaryotic communities, that help to contend with and understand the effect of anthropogenic contamination.

Reducing Cadmium Accumulation in Plants: Structure-Function Relations and Tissue-Specific Operation of Transporters in the Spotlight

Cadmium (Cd) is present in many soils and, when entering the food chain, represents a major health threat to humans. Reducing Cd accumulation in plants is complicated by the fact that most known Cd transporters also operate in the transport of essential nutrients such as Zn, Fe, Mn, or Cu. This work summarizes the current knowledge of mechanisms mediating Cd uptake, radial transport, and translocation within the plant. It is concluded that real progress in the field may be only achieved if the transport of Cd and the above beneficial micronutrients is uncoupled, and we discuss the possible ways of achieving this goal. Accordingly, we suggest that the major focus of research in the field should be on the structure-function relations of various transporter isoforms and the functional assessment of their tissue-specific operation. Of specific importance are two tissues. The first one is a xylem parenchyma in plant roots; a major "controller" of Cd loading into the xylem and its transport to the shoot. The second one is a phloem tissue that operates in the last step of a metal transport. Another promising and currently underexplored avenue is to understand the role of non-selective cation channels in Cd uptake and reveal mechanisms of their regulation.

Biocompatible metal decontamination from soil using Ageratum conyzoides

Metal pollution in soil is a serious problem among waste landfill sites and associated environment all over the globe. Amelioration of contaminated soil by plant bioaccumulation is an important strategy to protect the soil environment. Ageratum conyzoides is a common weed species that can grow easily in any contaminating site and bioaccumulate heavy metals present in the e-waste dumping/recycling sites as a natural scavenger. Soil selected for the study was contaminated with waste cathode ray tube (CRT) and printed circuit board (PCB) powder in the concentration range of 1-10 g/kg. Soil decontamination was achieved by using weed plants with ethylene diamine tetraacetic acid (EDTA, 0.1 g/kg) and kinetin (100 μM) combination in pot experiments. Fe, Mn, Zn, and Cu accumulation was found to be highest in leaves (6.51-38.58; 0.14-73.12; 5.24-269.07; 9.38-116.59%); Pb and Cr in stem (22.83-113.41; 21.05-500%), respectively, as compared with blank. Ion chromatography was used as a tool for the measurement of essential ions present in plant under different conditions. Plants showed better growth in terms of shoot, root length, biomass weight, and chlorophyll content with the proposed combination. EDTA allows the metals available for the accumulation through possible complexation. Also, the compatibility of kinetin to manage stress in plant is found to be enhanced in the presence of EDTA due to possible π-π interaction. Metal stress condition causes the deficiency of essential ions in the plants thereby disturbing its biochemistry and results in its eventual death. EDTA-kinetin hybrid treatment was found to be compatible for metal decontamination from soil, its detoxification in plants by changing its environment and restoring the essential ions for the survival of plant.