Diagnosis of soil contamination using microbiological indices: A review on heavy metal pollution

Mechanism for combined application of biochar and Bacillus cereus to reduce antibiotic resistance genes in copper contaminated soil and lettuce

The remediation of agricultural soil contaminated by antibiotic resistance genes (ARGs) is of great significance for protecting food safety and human health. Reducing the availability of copper in soil may control coresistance to ARGs. However, the feasibility of applying nano-biochar and Bacillus cereus to mitigate the spread of ARGs in Cu contaminated soil remains unclear. Therefore, this study investigated the use of biochar with different particle sizes (2 % apple branch biochar and 0.5 % nano-biochar) and 3 g m-2B. cereus in a 60-day pot experiment with growing lettuce. The effects of single and combined application on the abundances of ARGs in Cu-contaminated soil (Cu = 200 mg kg-1) were compared, and the related mechanisms were explored. Studies have shown that the addition of biochar alone is detrimental to mitigating ARGs in soil-lettuce systems. The combined application of 3 g m-2B. cereus and 0.5 % nano-biochar effectively inhibited the proliferation of ARGs in Cu-contaminated soil, and 3 g m-2B. cereus effectively inhibited the proliferation of ARGs in lettuce. Partial least squares-path modeling and network analysis showed that bacterial communities and mobile genetic elements were the key factors that affected the abundances of ARGs in rhizosphere soil, and Cu resistance genes and bioavailable copper (acid extractable state Cu (F1) + reducing state Cu (F2)) had less direct impacts. The bacterial community was the key factor that affected the abundances of ARGs in lettuce. Rhodobacter (Proteobacteria), Corynebacterium (Actinobacteria), and Methylobacterium (Proteobacteria) may have been hosts of ARGs in lettuce plants. B. cereus and nano-biochar affected the abundances of ARGs by improving the soil properties and reducing the soil bioavailability of Cu, as well as directly or indirectly changing the bacterial community composition in soil and lettuce, thereby impeding the transport of ARGs to aboveground plant parts.

Toxic response of antimony in the Comamonas testosteroni and its application in soil antimony bioremediation

Antimony (Sb) is toxic to ecosystems and potentially to public health via its accumulation in the food chain. Bioavailability and toxicity of Sb have been reduced using various methods for the remediation of Sb-contaminated soil in most studies. However, Sb-contaminated soil remediation by microbial agents has been rarely evaluated. In this study, we evaluated the potential for the use of Comamonas testosteroni JL40 in the bioremediation of Sb-contamination. Strain JL40 immobilized more than 30 % of the Sb(III) in solution and oxidized over 18 % to Sb(V) for detoxification. Meanwhile, strain JL40 responds to Sb toxicity through such as Sb efflux, intracellular accumulation, biofilm production, and scavenging of reactive oxygen species (ROS), etc. The results of the pot experiment showed the average Sb content of the brown rice was decreased by 59.1%, 38.8%, and 48.4%, for 1.8, 50, and 100 mg/kg Sb spiked soils, respectively. In addition, the results of plant, soil enzyme activity, and rice agronomic trait observations showed that the application of strain JL40 could maintain the health of plants and soil and improve rice production. The single-step and sequential extraction of Sb from rhizosphere soil showed that strain JL40 also plays a role in Sb immobilization and oxidation in the soil environment. During rice potted cultivation, bacterial community analysis and plate counting showed that the strain JL40 could still maintain 103 CFU/g after 30 days of inoculation. With phenotypic and differential proteomics analysis, strain JL40 conferred Sb(III) tolerance by a combination of immobilization, oxidation, efflux and scavenging of ROS, etc. Our study demonstrates the application of Sb-immobilizing and oxidizing bacteria to lower soil Sb and reduce accumulation of Sb in rice. Our results provide guidance for bacterial remediation of Sb-contaminated soil.

Rhizospheric bacteria: the key to sustainable heavy metal detoxification strategies

The increasing rate of industrialization, anthropogenic, and geological activities have expedited the release of heavy metals (HMs) at higher concentration in environment. HM contamination resulting due to its persistent nature, injudicious use poses a potential threat by causing metal toxicities in humans and animals as well as severe damage to aquatic organisms. Bioremediation is an emerging and reliable solution for mitigation of these contaminants using rhizospheric microorganisms in an environmentally safe manner. The strategies are based on exploiting microbial metabolism and various approaches developed by plant growth promoting bacteria (PGPB) to minimize the toxicity concentration of HM at optimum levels for the environmental clean-up. Rhizospheric bacteria are employed for significant growth of plants in soil contaminated with HM. Exploitation of bacteria possessing plant-beneficial traits as well as metal detoxifying property is an economical and promising approach for bioremediation of HM. Microbial cells exhibit different mechanisms of HM resistance such as active transport, extra cellular barrier, extracellular and intracellular sequestration, and reduction of HM. Tolerance of HM in microorganisms may be chromosomal or plasmid originated. Proteins such as MerT and MerA of mer operon and czcCBA, ArsR, ArsA, ArsD, ArsB, and ArsC genes are responsible for metal detoxification in bacterial cell. This review gives insights about the potential of rhizospheric bacteria in HM removal from various polluted areas. In addition, it also gives deep insights about different mechanism of action expressed by microorganisms for HM detoxification. The dual-purpose use of biological agent as plant growth enhancement and remediation of HM contaminated site is the most significant future prospect of this article.

Effects of Arbuscular Mycorrhizal Fungi on Robinia pseudoacacia L. Growing on Soils Contaminated with Heavy Metals

Arbuscular mycorrhizal fungi (AMF) have been shown to assist plants in increasing metal tolerance and accumulation in heavy metal (HM)-contaminated soils. Herein, a greenhouse pot experiment was conducted to assess the interactions of growth substrates (S1, S2, and S3, respectively) with various HM contamination and nutrient status sampling from a typical contaminated soil and tailings in Shuikoushan lead/zinc mining in Hunan province, China, and AMF inoculation obtained from plants in uncontaminated areas (Glomus mosseae, Glomus intraradices, and uninoculated, respectively) on the biomass and uptake of HMs and phosphorus (P) by the black locust plant (Robinia pseudoacacia L.). The results indicated that the inoculation with AMF significantly enhanced the mycorrhizal colonization of plant roots compared with the uninoculated treatments, and the colonization rates were found to be higher in S1 and S2 compared with S3, which were characterized with a higher nutrient availability and lead concentration. The biomass and heights of R. pseudoacacia were significantly increased by AMF inoculation in S1 and S2. Furthermore, AMF significantly increased the HM concentrations of the roots in S1 and S2 but decreased the HM concentrations in S3. Shoot HM concentrations varied in response to different AMF species and substrate types. Mycorrhizal colonization was found to be highly correlated with plant P concentrations and biomass in S1 and S2, but not in S3. Moreover, plant biomass was also significantly correlated with plant P concentrations in S1 and S2. Overall, these findings demonstrate the interactions of AMF inoculation and growth substrates on the phytoremediation potential of R. pseudoacacia and highlights the need to select optimal AMF isolates for their use in specific substrates for the remediation of HM-contaminated soil.

Microbial community composition and degradation potential of petroleum-contaminated sites under heavy metal stress

Total petroleum hydrocarbons (n-alkanes), semi-volatile organic compounds, and heavy metals pose major ecological risks at petrochemical-contaminated sites. The efficiency of natural remediation in situ is often unsatisfactory, particularly under heavy metal pollution stress. This study aimed to verify the hypothesis that after long-term contamination and restoration, microbial communities in situ exhibit significantly different biodegradation efficiencies under different concentrations of heavy metals. Moreover, they determine the appropriate microbial community to restore the contaminated soil. Therefore, we investigated the heavy metals in petroleum-contaminated soils and observed that heavy metals effects on distinct ecological clusters varied significantly. Finally, alterations in the native microbial community degradation ability were demonstrated through the occurrence of petroleum pollutant degradation function genes in different communities at the tested sites. Furthermore, structural equation modeling (SEM) was used to explain the influence of all factors on the degradation function of petroleum pollution. These results suggest that heavy metal contamination from petroleum-contaminated sites reduces the efficiency of natural remediation. In addition, it infers that MOD1 microorganisms have greater degradation potential under heavy metal stress. Utilizing appropriate microorganisms in situ may effectively help resist the stress of heavy metals and continuously degrade petroleum pollutants.

Soil properties drive the bacterial community to cadmium contamination in the rhizosphere of two contrasting wheat (Triticum aestivum L.) genotypes

Cadmium (Cd) bioavailability in the rhizosphere makes an important difference in grain Cd accumulation in wheat. Here, pot experiments combined with 16S rRNA gene sequencing were conducted to compare the Cd bioavailability and bacterial community in the rhizosphere of two wheat (Triticum aestivum L.) genotypes, a low-Cd-accumulating genotype in grains (LT) and a high-Cd-accumulating genotype in grains (HT), grown on four different soils with Cd contamination. Results showed that there was non-significant difference in total Cd concentration among four soils. However, except for black soil, DTPA-Cd concentrations in HT rhizospheres were higher than those of LT in fluvisol, paddy soil and purple soil. Results of 16S rRNA gene sequencing showed that soil type (52.7%) was the strongest determinant of root-associated community, while there were still some differences in rhizosphere bacterial community composition between two wheat genotypes. Taxa specifically colonized in HT rhizosphere (Acidobacteria, Gemmatimonadetes, Bacteroidetes and Deltaproteobacteria) could participate in metal activation, whereas LT rhizosphere was highly enriched by plant growth-promoting taxa. In addition, PICRUSt2 analysis also predicted high relative abundances of imputed functional profiles related to membrane transport and amino acid metabolism in HT rhizosphere. These results revealed that the rhizosphere bacterial community may be an important factor regulating Cd uptake and accumulation in wheat and indicated that the high Cd-accumulating cultivar might improve Cd bioavailability in the rhizosphere by recruiting taxa related to Cd activation, thus promoting Cd uptake and accumulation.

Fe-Ni/MWCNTs Nano-Composites for Hexavalent Chromium Reduction in Aqueous Environment

A novel Cr (VI) removal material was designed and produced comprising multi-walled carbon nanotubes (MWCNTs) as a support with a high specific surface area and the loaded Fe-Ni bimetallic particles as catalytic reducing agents. Such a design permits the composite particle to perform the adsorption, reduction, and immobilisation of Cr (VI) quickly and efficiently. Due to MWCNTs' physical adsorption, Cr (VI) in solution aggregates in the vicinity of the composite, and Fe rapidly reduces Cr (VI) to Cr (III) catalysed by Ni. The results demonstrated that the Fe-Ni/MWCNTs exhibits an adsorption capacity of 207 mg/g at pH = 6.4 for Cr (VI) and 256 mg/g at pH 4.8, which is about twice those reported for other materials under similar conditions. The formed Cr (III) is solidified to the surface by MWCNTs and remains stable for several months without secondary contamination. The reusability of the composites was proven by retaining at least 90% of the adsorption capacity for five instances of reutilization. Considering the facile synthesis process, low cost of raw material, and reusability of the formed Fe-Ni/MWCNTs, this work shows great potential for industrialisation.

Differences in the spectral characteristics of dissolved organic matter binding to Cu(II) in wetland soils with moisture gradients

The environmental behavior of heavy metals in soil is significantly regulated by their binding with dissolved organic matter (DOM), which is affected by soil moisture contents. However, the mechanism of this interaction in soils with varying moisture is still not well understood. Using a combination of ultrafiltration, Cu(II) titration, and multispectral (ultraviolet-visible absorption, 3D fluorescence, Fourier transform infrared) analysis techniques, we studied the differences in the spectral characteristics and Cu(II) binding properties of soil dissolved organic matter (DOM) and its different molecular weight (MW) fractions with moisture gradients. We found that the abundance and spectral characters of soil DOM changed with increasing soil moisture, i.e., the increase in abundance while the decrease in aromaticity and humification index. The components of DOM, shown by Fluorescence region-integration (FRI) analysis, also changed, with an increase in the proportion of protein-like substances and a decrease of humic-like and fulvic-like substances. The overall Cu(II) binding potential of soil DOM diminished with increasing soil moisture, as indicated by the fluorescence parallel factor (PARAFAC) analysis. This is aligns with the changes in DOM composition, as the humic-like and fulvic-like fractions exhibited higher Cu(II) binding potential compared to the protein-like fractions. The low MW fraction of the MW-fractionated samples showed a stronger binding potential for Cu(II) compared to the high MW fraction. Finally, the active binding site of Cu(II) in DOM, as revealed by UV-difference spectroscopy and 2D-FTIR-COS analysis, decreased with increasing soil moisture, with the order of preferentially functional groups shifting from OH, NH, and CO to CN and CO. This study emphasizes the impact of moisture variations on the characteristics of DOM and its interaction with Cu(II), providing insight into the environmental fate of heavy metal contaminants in soil in areas with alternating land and water conditions.

Response of soil microbial activities and ammonia oxidation potential to environmental factors in a typical antimony mining area

Mining, smelting and tailing deposition activities can cause metal(loid) contamination in surrounding soils, threatening ecosystems and human health. Microbial indicators are sensitive to environmental factors and have a crucial role in soil ecological risk assessment. Xikuangshan, the largest active antimony (Sb) mine in the world, was taken as the research area. The soil properties, metal(loid) contents and microbial characteristics were investigated and their internal response relationships were explored by multivariate statistical analysis. The assessment of the single pollution index and Nemerow synthetic pollution index (P_N) showed that the soils were mainly polluted by Sb, followed by Cd and As, in which sampling site S1 had a slight metal(loid) pollution and the other sampling sites suffered from severe synthetic metal(loid) pollution. The microbial characteristics were dissimilar among sampling points at different locations from the mining area according to hierarchical cluster analysis. The correlation analysis indicated that fluorescein diacetate hydrolase, acid phosphatase, soil basal respiration and microbial biomass carbon were negatively correlated with P_N, indicating their sensitivity to combined metal(loid) contamination; that dehydrogenase was positively correlated with pH; and that urease, potential ammonia oxidation and abundance of ammonia-oxidizing bacteria and archaea were correlated with N (nitrogen) contents. However, β-glucosidase activity had no significant correlations with physicochemical properties and metal(loid) contents. Principal components analysis suggested bioavailable Sb and pH were the dominant factors of soil environment in Xikuangshan Sb mining area. Our results can provide a theoretical basis for ecological risk assessment of contaminated soil.

Responses of potential ammonia oxidation and ammonia oxidizers community to arsenic stress in seven types of soil

Soil arsenic contamination is of great concern because of its toxicity to human, crops, and soil microorganisms. However, the impacts of arsenic on soil ammonia oxidizers communities remain unclear. Seven types of soil spiked with 0 or 100 mg arsenic per kg soil were incubated for 180 days and sampled at days 1, 15, 30, 90 and 180. The changes in the community composition and abundance of ammonia oxidizing bacteria (AOB) and ammonia oxidizing archaea (AOA) were analyzed by terminal restriction fragment length polymorphism (T-RFLP) analysis, clone library sequencing, and quantitative PCR (qPCR) targeting amoA gene. Results revealed considerable variations in the potential ammonia oxidation (PAO) rates in different soils, but soil PAO was not consistently significantly inhibited by arsenic, probably due to the low bioavailable arsenic contents or the existence of functional redundancy between AOB and AOA. The variations in AOB and AOA communities were closely associated with the changes in arsenic fractionations. The amoA gene abundances of AOA increased after arsenic addition, whereas AOB decreased, which corroborated the notion that AOA and AOB might occupy different niches in arsenic-contaminated soils. Phylogenetic analysis of amoA gene-encoded proteins revealed that all AOB clone sequences belonged to the genus Nitrosospira, among which those belonging to Nitrosospira cluster 3a were dominant. The main AOA sequence detected belonged to Thaumarchaeal Group 1.1b, which was considered to have a high ability to adapt to environmental changes. Our results provide new insights into the impacts of arsenic on the soil nitrogen cycling.

Green synthesized hydroxyapatite for efficient immobilization of cadmium in weakly alkaline environment

The development of cost-effective passivators for the remediation of heavy metal-contaminated soils has been a research hotspot and an unsolved challenge. Herein, a novel hydroxyapatite (GSCH) was synthesized by co-precipitating distiller effluent-derived Ca with (NH₄)₂HPO₄ using straw-derived dissolved organic matter (S-DOM) as the dispersant. Batch adsorption experiments and soil incubation tests were performed to assess the immobilization efficiency of GSCH for Cd in weakly alkaline environments. As a result, GSCH showed an excellent adsorption efficiency to Cd with a maximum adsorption amount of ∼222 mg g^-1, which was fairly competitive compared to other similar previously materials reported. The kinetic data indicated that the adsorption of Cd on GSCH was a chemical and irreversible process, while the thermodynamic data revealed a spontaneous (ΔG° < 0) and endothermic (ΔH° > 0) adsorption process. Based on mechanism analysis, both physisorption (e.g., electrostatic attraction and pore filling) and chemisorption (e.g., ion exchange and complexation) were responsible for Cd adsorption on GSCH. Particularly, the incorporated S-DOM and hydroxyapatite phase in GSCH acted synergistically in the adsorption process. The incubation results showed that GSCH application could significantly reduce the bioavailability, phytoavailability and bioaccessibility of Cd in soil by 48.4%-57.8%, 20.4%-28.6% and 12.6%-24.0%, respectively. Moreover, GSCH application also improved soil bacterial communities and enhanced soil nutrient availability. Overall, this is the first study to demonstrate the potential application value of GSCH in Cd immobilization, providing promising insights into the development of green and cost-effective hydroxyapatite-based passivators for the remediation of heavy metal-contaminated soils.

Effects of different heavy metal pollution levels on microbial community structure and risk assessment in Zn-Pb mining soils

Heavy metal contamination in soils seriously threatens human health and aggravates the global pollution burden. In this study, we investigated the risk of heavy metal contamination in soils at a Zn-Pb mineral processing plant in Longnan, China, and the effects of different heavy metal contamination levels on diverse microbial communities. Statistical analysis showed that, except for Ni, the average content of all detected metals (Zn, Pb, As, Cu, Cd, Hg) in the soil was higher than the background value of soil in the study area, which was most seriously contaminated with Pb and As. Comparison of functional divisions showed that heavy metal soil contamination was most serious in the raw material stacking area and the production area. Interpolation analysis showed that areas closer to the wastewater discharge area had higher contents of each heavy metal and were more seriously polluted. From the point of pollution index, the risk of heavy metal soil pollution in the study area was very high (RI = 2845.24, i.e., > 600), with Cd and Hg being the most serious pollutants compared with other heavy metals. Microbial community abundance, diversity, and structure differed at different levels of heavy metal contamination. The community diversity of bacteria decreased with increasing heavy metal concentrations, while no significant change in fungi was observed. Evidence from variation redundancy analysis (RDA) and the Spearman correlation analysis showed that the leading factors affecting microbial community composition were Cu, Cd, Hg, and pH. Actinobacteria and Gemmatimonadetes at the uncontaminated level (CL) were significantly and negatively correlated with the concentrations of Cu, Zn, Cd, and Pb. Proteobacteria and Chloroflexi at the severely contaminated level (SL) were significantly correlated with pH and Hg. However, heavy metal contamination had less effect on most of the dominant fungi. In conclusion, microbial communities such as Proteobacteria, Actinobacteria, Chloroflexi, and Ascomycota showed greater tolerance to heavy metals. These results could be used as important references for the remediation of heavy metal-contaminated soils.

The relationships between heavy metals and bacterial communities in a coal gangue site

Coal is the main source of energy for China's economic development, but coal gangue dumps are a major source of heavy metal pollution. Bacterial communities have a major effect on the bioremediation of heavy metals in coal gangue dumps. The effects of different concentrations of heavy metals on the composition of bacterial communities in coal gangue sites remain unclear. Soil bacterial communities from four gangue sites that vary in natural heavy metal concentrations were investigated using high-throughput sequencing in this study. Correlations among bacterial communities, heavy metal concentrations, physicochemical properties of the soil, and the composition of dissolved organic matter of soil in coal gangue dumps were also analyzed. Our results indicated that Actinobacteriota, Proteobacteria, Chloroflexi, Acidobacteriota, and Gemmatimonadota were the bacterial taxa most resistant to heavy metal stress at gangue sites. Heavy metal contamination may be the main cause of changes in bacterial communities. Heavy metal pollution can foster mutually beneficial symbioses between microbial species. Microbial-derived organic matter was the main source of soil organic matter in unvegetated mining areas, and this could affect the toxicity and transport of heavy metals in soil. Polar functional groups such as hydroxyl and ester groups (A_226-400) play an important role in the reaction of cadmium (Cd) and lead (Pb), and organic matter with low molecular weight (S_R) tends to bind more to mercury (Hg). In addition to heavy metals, the content of nitrogen (N), phosphorus (P), and total organic carbon (TOC) also affected the composition of the bacterial communities; TOC had the strongest effect, followed by N, SOM, and P. Our findings have implications for the microbial remediation of heavy metal-contaminated soils in coal gangue sites and sustainable development.

New insights into the effects of antibiotics and copper on microbial community diversity and carbon source utilization

Residual antibiotics (ABs) and heavy metals (HMs) are continuously released from soil, reflecting their intensive use and contamination of water and soil, posing an environmental problem of great concern. Relatively few studies exist of the functional diversity of soil microorganisms under the combined action of ABs and HMs. To address this deficiency, BIOLOG ECO microplates and the Integrated Biological Responses version 2 (IBRv2) method were used to comprehensively explore the effects of single and combined actions of copper (Cu) and enrofloxacin (ENR), oxytetracycline (OTC), and sulfadimidine (SM2) on the soil microbial community. The results showed that the high concentration (0.80 mmol/kg) compound group had a significant effect on average well color development (AWCD) and OTC showed a dose-response relationship. The results of IBRv2 analysis showed that the single treatment group of ENR or SM2 had a significant effect on soil microbial communities, and the IBRv2 of E1 was 5.432. Microbes under ENR, SM2, and Cu stress had more types of available carbon sources, and all treatment groups were significantly more enriched with microorganisms having D-mannitol and L-asparagine as carbon sources. This study confirms that the combined effects of ABs and HMs can inhibit or promote the function of soil microbial communities. In addition, this paper will provide new insights into IBRv2 as an effective method to evaluate the impacts of contaminants on soil health.

CaFe-layered double hydroxide corn straw biochar reduced heavy metal uptake by Brassica campestris L. and Ipomoea aquatic F.: Rhizosphere effects and oxidative stress alleviation

In the present study, CaFe-layered double hydroxide corn straw biochar (CaFe-LDH@CSB) was applied to the rhizosphere soil of both pakchoi (Brassica campestris L. ssp. Chinensis Makino, B. campestris L.) and water spinach (Ipomoea aquatic F., I. aquatic F.) to explore and clarify the potential mechanism by which CaFe-LDH@CSB helps vegetables reduce heavy metal (HM) uptake and alleviate oxidative stress. Pot experiments were conducted with CaFe-LDH@CSB applied at four levels: control (CK), T1 (5 g kg^-1), T2 (10 g kg^-1) and T3 (20 g kg^-1). The results indicated that the application of CaFe-LDH@CSB significantly increased pH and decreased the acid-soluble forms of Cd, Pb, Zn and Cu in the rhizosphere soil of both B. campestris L. and I. aquatic F.; decreases of 39.4%, 18.0%, 10.0% and 33.3% in B. campestris L. and of 26.6%, 49.1%, 13.2% and 36.8% in I. aquatic F., respectively, were observed at the T3 level. Moreover, CaFe-LDH@CSB application reduced HM uptake by B. campestris L. and decreased HM-induced oxidative stress through the regulation of soil physicochemical properties and microbial abundance. For B. campestris L., variations in Sordariomycetes helped alleviate the accumulation of HMs in the aerial part, while GSH and -SH from the nonenzymatic system played an important role in scavenging H₂O₂ in leaves, thus helping B. campestris L. alleviate HM-induced oxidative stress. For I. aquatica F., variations in Vicinamibacteria and Mortierellomycetes helped alleviate the accumulation of HMs in plants, while GSH and PCs from nonenzymatic systems played an important role in removing ·O₂^- in leaves, thereby helping I. aquatica F. alleviate HM-induced oxidation stress. Our study indicated that the application of CaFe-LDH@CSB improved the rhizosphere soil environment and rebuilt the soil microbial community, helping B. campestris L. and I. aquatica F. alleviate HM-induced oxidative stress and promoting the growth of both vegetables.

Elevated antimony concentration stimulates rare taxa of potential autotrophic bacteria in the Xikuangshan groundwater

Microbial communities composed of few abundant and many rare species are widely involved in the biogeochemical cycles of elements. Yet little is known about the ecological roles of rare taxa in antimony (Sb) contaminated groundwater. Groundwater samples were collected along an Sb concentration gradient in the Xikuangshan antimony mine area and subjected to high through-put sequencing of 16S rRNA genes to investigate the bacterial communities. Results suggested that both abundant and rare sub-communities were dominated by Betaproteobacteria, Gammaproteobacteria, and Alphaproteobacteria, whereas rare sub-communities showed higher alpha-diversities. Multivariate analysis showed that both the abundant and rare taxa were under the stress of Sb, but the impact on rare taxa was greater. Nitrate explained a large part for the variation of the abundant sub-communities, indicating the critical role of nitrate for their activities under anoxic conditions. In contrast, bicarbonate significantly impacted rare sub-communities, suggesting their potential autotrophic characteristics. To further explore the role of rare taxa in the communities and the mechanism of affecting the community composition, a network was constructed to display the co-occurrence pattern of bacterial communities. The rare taxa contributed most of the network nodes and served as keystone species to maintain the stability of community. Abiotic factors (mainly Sb and pH) and bacterial interspecific interactions (interactions between keystone species and other bacterial groups) jointly affect the community dynamics. Functional prediction was performed to further reveal the ecological function of rare taxa in the Sb-disturbed groundwater environment. The results indicated that the rare taxa harbored much more diverse functions than their abundant counterparts. Notably, elevated Sb concentration promoted some potential autotrophic functions in rare taxa such as the oxidation of S-, N-, and Fe(II)-compounds. These results offer new insights into the roles of rare species in elemental cycles in the Sb-impacted groundwater.

Effect of salinity on the potential cadmium phytoremediation from the polluted soil by carpobrotus rossii

Nowadays, toxic metals accumulation in soil texture due to anthropogenic activities is a major form of pollution, which can lead to worldwide concerns; however, there are many treatment methods to remove them from soil such as phytoremediation. The carpobrotus rossii, has shown great potential to tolerate high salinity and accumulate Cd from contaminated soils. The experiments, in this study, are analyzed and optimized by Central Composite Design (CCD) as method and using Response Surface Methodology (RSM) package in R software. The Cd removal by root and the whole plant followed the quadratic model and the R² values were 94.95 and 94.81, respectively. The results showed that a decrease in NaCl concentration in Cd-containing solution can increase the phytoremediation process of Cd by carpobrotus rossii, significantly. The optimum conditions for 58% Cd removal by the whole plant, predicted through a CCD response surface methodology model were as follows: initial Cd concentration of 49 mgKg^-1,NaCl concentration of 16 dSm^-1, time of 17 days, and pH of 6.5. C. rossii's potential in removing 58% of Cd under the obtained optimum condition from the modelling was evaluated in real condition in the laboratory. The results revealed that around 56% of the initial added Cd concentration was removed by carpobrotus rossii. As a take home message, carpobrotus rossii can be recommended as an efficient plant to remove heavy metals especially cadmium from soil and sediments in arid area which have a salty soil.

Application of biochar and compost improved soil properties and enhanced plant growth in a Pb-Zn mine tailings soil

This study evaluated the effect of biochar and compost on physiochemical properties, heavy metal content, microbial biomass, enzyme activities, and plant growth in Pb-Zn mine tailings. In this study, a pot experiment was conducted to evaluate the effects of biochar, compost, and their combination on the availability of heavy metals, physicochemical features, and enzyme activities in mining soil. Compared to separate addition, the combined application of biochar and compost was more effective to improve soil pH, soil organic carbon (SOC), total nitrogen (TN), available phosphorus (AP), and potassium (AK). All amendments significantly decreased CaCl₂-extractable Pb, Zn, Cu, and Cd. Soil enzyme activities were activated by biochar and compost. Meanwhile, the addition of biochar and compost decreased heavy metal content in plant tissues and increased plant biomass. Pearson's correlation analysis showed that plant biomass was positively correlated with nutrient levels, microbial biomass, and enzyme activities, whereas it was negatively correlated with CaCl₂-extractable heavy metals. These results enhance our understanding of the ecological functions of biochar and compost on the restoration of mining soil and reveal the potential benefit of organic amendments on the improvement of mining soil quality.

The effects of long-term freezing-thawing on the strength properties and the chemical stability of compound solidified/stabilized lead-contaminated soil

Solidification/stabilization (S/S) is the prevalent remediation technology for the treatment of heavy metal contaminated soils (HMCS). However, under the stress of complex surrounding environments, S/S effectiveness tends to deteriorate and freezing-thawing is one of the most influential natural forcings. The different proportions of cement, lime, and fly ash were used as the compound curing agents to treat solidified/stabilized HMCS with varying levels of lead contamination. The resulting samples were subjected to up to 180 freeze-thaw cycles (F-T) (1 day per cycle). Unconfined compressive strength (UCS) tests and semi-dynamic leaching tests were performed after F-T to explore the strength evolution of compound solidified/stabilized lead-contaminated soils (Pb-CSCS) and the chemical stability of the lead within. The results show that the F-T duration changes the strength deterioration mechanism of Pb-CSCS under F-T. There has been a shift in the main influencing factor from the promoted curing agent hydration by short-term F-T to the structural damage of the specimen induced by prolonged F-T. The variations in leachate pH, lead leachability, and diffusion ability with progressing F-T revealed a degradation effect of the changes in the physical states of water and crack propagation brought by F-T. These unfavorable changes in soil structure and chemistry reduce the acid resistance of Pb-CSCS. Notably, fly ash and cement facilitate the strength maintenance of Pb-CSCS under long-term F-T conditions. Curing formulations that included both cement and fly ash significantly increased the UCS of treated soils by up to 80.5% (3 F-T) under short-term F-T. In contrast, the curing formulation without fly ash lost 51.8% of its strength after 180 F-T conditions. For lead stabilization, cement and especially lime are favored. The results showed a 25% increase in the total proportion of lime and cement in the curing agent formulation, leading to a 41.4% reduction of lead leaching risk.

Recent Progress on Ex Situ Remediation Technology and Resource Utilization for Heavy Metal Contaminated Sediment

Sediment is an important part of aquatic systems, which plays a vital role in transporting and storing metals. Due to its abundance, persistence, and environmental toxicity, heavy metal pollution has always been one of the hot spots in the world. In this article, the state-of-art ex situ remediation technology for metal-contaminated sediments is elaborated, including sediment washing, electrokinetic remediation (EKR), chemical extraction, biological treatment, as well as encapsulating pollutants by adding some stabilized/solidified materials. Furthermore, the progress of sustainable resource utilization methods, such as ecosystem restoration, construction materials (e.g., materials fill materials, partition blocks, and paving blocks), and agriculture use are reviewed in detail. Finally, the pros and cons of each technique are summarized. This information will provide the scientific basis for selecting the appropriate remediation technology in a particular scenario.

Diagnostic strategy for the combined effects of microplastics and potentially toxic elements on microbial communities in catchment scale

Combined effects of potentially toxic materials (PTMs) released from production activities on microbial communities in environmental flimsy area are poorly recognised. Microplastics (MPs) and potentially toxic elements (PTEs) were investigated in soils and river sediments in a headwater catchment from the Qinghai-Tibet Plateau. Their co-effects on microbial communities and the controlling factors affecting communities were further explored. Results showed that MPs and PTEs significantly accumulated in soils and sediments. Among which fragment-shaped MPs and copper (Cu) dominated, with mean contents of 1.11 × 10⁴ and 1.81 × 10⁴ items kg^-1 and 13.80 and 7.33 mg kg^-1 in soils and sediments, respectively. Distribution index (0.54) suggested that fiber-shaped MPs preferred to transport into rivers and deposited in sediments. The film mulching contributed significantly to the occurrence of fragment-shaped MPs, while Cu may be derived from industrial wastewater. The antagonistic effect between fiber-shaped MPs and zinc (Zn) on soil microbial structure was found based on their obtuse angle in canonical correlation analysis. While the synergistic effect between total phosphorus (TP) and Cu on diversity was detected by interaction detector model (q(TP ∩ Cu) >q(TP) >q(Cu), p < 0.05). Soil TP and Cu were identified as controlling factors influencing diversity through random forest model and factor detector (q(TP) = 0.49, q(Cu) = 0.36, p < 0.05), which may be related to direct nutrient supply and microbial resistance, respectively. The negative effects of MPs on structure might be counteracted by increasing Zn content, while the co-existence of TP and Cu further increased diversity. A diagnostic framework, which involves background data collection, sampling analysis, characterisation and relationship investigation, was proposed to explore the co-effects of complex pollution and factors on communities. This study may provide strategies to mitigate the negative effects on microorganisms in the environment.

The Effects of Heavy Metal Pollution on Collembola in Urban Soils and Associated Recovery Using Biochar Remediation: A Review

Heavy metal pollution in urban soil continues to be a global issue that poses a serious hazard to invertebrates and human lives through oral ingestion and inhalation of soil particles. Though the toxicity of several heavy metals on invertebrates like Collembola has been studied, lead (Pb) and cadmium (Cd) have been extensively studied due to their high toxicity to collembolans. As a ubiquitous soil organism all over the world, collembolans have been used as a model species to study the effects of heavy metals on invertebrate communities. To reduce the effects of heavy metals on ecosystem functions, biotic and abiotic measures have been used for heavy metal remediation; biochar seems to be the most effective approach that not only increases the physical absorption of heavy metals but also indirectly benefits soil organisms. In this study, we briefly reviewed the application of biochar in Pb and Cd polluted soil and showed its potential in soil remediation. Furthermore, we outlined the potentially toxic effects of Pb- and Cd-polluted urban soil on the collembolan species. We searched peer-reviewed publications that investigated: (1) the level of Pb and Cd contamination on urban soil in different cities around the world; and (2) the different sources of Pb and Cd as well as factors influencing their toxicity to collembolan communities. The obtained information offers new perspectives on the interactions and effects between collembolans, Pb, and Cd, and their remediation in urban soils.

Caenorhabditis elegans: a model organism in the toxicity assessment of environmental pollutants

The unfavorable effects of environmental pollutants are becoming increasingly evident. In recent years, Caenorhabditis elegans (C. elegans) has been used as a powerful terrestrial model organism for environmental toxicity studies owing to its various advantages, including ease of culture, short lifespan, small size, transparent body, and well-characterized genome. In vivo bioassays and field studies can analyze and evaluate various toxic effects of the toxicants on the model organism, while emerging technologies allow profound insights into molecular disturbances underlying the observed phenotypes. In this review, we discuss the applications of C. elegans as a model organism in environmental toxicity studies and delineate apical assays such as lifespan, growth rate, reproduction, and locomotion, which are widely used in toxicity evaluation. In addition to phenotype assays, a comprehensive understanding of the toxic mode of action and mechanism can be achieved through a highly sensitive multi-omics approach, including the expression levels of genes and endogenous metabolites. Recent studies on environmental toxicity using these approaches have been summarized. This review highlights the practicality and advantages of C. elegans in evaluating the toxicity of environmental pollutants and presents the findings of recent toxicity studies performed using this model organism. Finally, we propose crucial technical considerations to escalate the appropriate use of C. elegans in examining the toxic effects of environmental pollutants.

The Influence of Vermicompost and Various Concentrations of Lead on the Enzymatic Activity of Sierozem Soils of Kazakhstan

The influence of vermicompost and various concentrations of lead on the activity of hydrolytic (urease and protease) and oxidative-reducing (catalase and dehydrogenase) enzymes in the sierozem soil of Southern Kazakhstan (Turkestan region) was studied. Background unpolluted soils served as a control. The work shows a change in the enzymatic potential when vermicompost (8 t/ha) and lead are introduced into the soil in the concentration range of 16 to 160 mg/kg Pb. As a result of experimental studies, a decrease in the activities of catalase, protease, and dehydrogenase and, conversely, an increase in the activity of urease with an increase in the lead content in the soil system were revealed. Introduction of vermicompost (vermicompost) into the soil caused an increase in the activity of all studied enzymes and a decrease in the translocation ability of Pb. Inhibition of the process of translocation of lead into plants by vermicompost creates conditions for obtaining environmentally friendly agricultural products.

Sex-specific competition differently regulates the response of the rhizosphere fungal community of Hippophae rhamnoides-A dioecious plant, under Mn stress

In this study, we investigated the soil physicochemical parameters and responses of rhizospheric fungal communities of Hippophae rhamnoides to Mn stress under different sexual competition patterns. The results showed that competition significantly affects soil physicochemical properties, enzyme activity, and rhizosphere-associated fungal community structures. Under Mn stress, soils with intersexual competition had higher levels of N supply than those with the intrasexual competition. Moreover, fungal communities under intersexual interaction were more positive to Mn stress than intrasexual interaction. Under intrasexual competition, female plants had higher total phosphorus content, neutral phosphatase activity, and relative abundance of symbiotic fungi in soils to obtain phosphorus nutrients to alleviate Mn stress. In contrast, male plants had relatively stable fungal communities in soils. In the intersexual competition, rhizosphere fungal diversity and relative abundance of saprophytic fungi in male plants were significantly higher than in female plants under Mn stress. In addition, female plants showed greater plasticity in the response of rhizosphere microorganisms to their neighbors of different sexes. The microbial composition in soils of female plants varied more than male plants between intrasexual and intersexual competition. These results indicated that sex-specific competition and neighbor effects regulate the microbial community structure and function of dioecious plants under heavy metal stress, which might affect nutrient cycling and phytoremediation potential in heavy metal-contaminated soils.

Impact of environmental factors on the ammonia-oxidizing and denitrifying microbial community and functional genes along soil profiles from different ecologically degraded areas in the Siding mine

Ammonia oxidizers (ammonia-oxidizing bacteria (AOB amoA) and ammonia-oxidizing archaea (AOA amoA)) and denitrifiers (encoded by nirS, nirK and nosZ) in the soil nitrogen cycle exist in a variety of natural ecosystems. However, little is known about the contribution of these five N-related functional genes to nitrification and denitrification in the soil profile in severely ecologically degraded areas. Therefore, in the present study, the abundance, diversity and community composition of AOA, AOB, nirS, nirK and nosZ were investigated in the soil profiles of different ecologically degraded areas in the Siding mine. The results indicated that, at the phylum level, the dominant archaea were Crenarchaeota and Thaumarchaeota and the dominant bacteria were Proteobacteria. Heavy metal contents had a great impact on AOA amoA, nirS and nirK gene abundances. AOA amoA contributed more during the ammonia oxidation process and was better adapted for survival in heavy metal-contaminated environments. In addition to heavy metals, the soil organic matter (SOM) content and C/N ratio had strong effects on the AOA and AOB community diversity and structure. In addition, variations in the net ammonification and nitrification rates were proportional to AOA amoA abundance along the soil profile. The soil C/N ratio, soil available phosphorus content and soil moisture influenced the denitrification process. Both soil available phosphorus and moisture were more strongly related to nosZ than to nirS and nirK. In addition, nosZ presented a higher correlation with the nosZ/(nirS + nirK) ratio. Moreover, nosZ/(nirS + nirK) was the key functional gene group that drove the major processes for NH₄⁺-N and NO₃^--N transformation. This study demonstrated the role and importance of soil property impacts on N-related microbes in the soil profile and provided a better understanding of the role and importance of N-related functional genes and their contribution to soil nitrification and denitrification processes in highly degraded areas in the Siding mine.

Evidence that offshore wind farms might affect marine sediment quality and microbial communities

Offshore wind power is a typical example of clean energy production and plays a critical role in achieving carbon neutrality. Offshore wind farms can have an impact on the marine environment, especially sedimentary environments, but their influence on sediments remain largely unknown. This study, which uses the control-impact principle to define different areas, investigated the characteristics of marine sediments under the Putidao offshore wind farm in Bohai Bay, China. We used chemical and microbiological observations to evaluate sediment quality and microbial community structure. According to both the geo-accumulation index (I_geo) and contamination factor (CF) indexes, copper, chromium and zinc were the major contaminants in the offshore wind farm sediments. The pollution load index (PLI) index showed that the various sites on the wind farm were only lightly polluted compared with baseline values. Closer to the wind farm's center, the metal concentrations started to rise. The physicochemical features of the sediments could better explain changes in the microorganisms present, and screening the microbiomes showed a correlation with heavy metal levels, linking the relative abundance of microorganisms to the sediment quality index. This comprehensive study fills a knowledge gap in China and adds to our understanding of how to assess the sedimentary environments of offshore wind farms.

Applying fulvic acid for sediment metals remediation: Mechanism, factors, and prospect

Fulvic acid (FA) has been shown to play a decisive role in controlling the environmental geochemical behavior of metals. As a green and natural microbial metabolite, FA is widely used in environmental remediation because of its good adsorption complexation and redox ability. This paper introduces the reaction mechanism and properties of FA with metals, and reviews the progress of research on the remediation of metal pollutant by FA through physicochemical remediation and bioremediation. FA can control the biotoxicity and migration ability of some metals, such as Pb, Cr, Hg, Cd, and As, through adsorption complexation and redox reactions. The concentration, molecular weight, and source are the main factors that determine the remediation ability of FA. In addition, the ambient pH, temperature, metal ion concentrations, and competing components in sediment environments have significant effects on the extent and rate of a reaction between metals and FA during the remediation process. Finally, we summarize the challenges that this promising environmental remediation tool may face. The research directions of FA in the field of metals ecological remediation are also prospected. This review can provide new ideas and directions for the research of remediation of metals contaminants in sediments.

Metagenomic insight into the distribution of metal resistance genes within cascade reservoir waters: Synergic impacts of geographic variation and anthropogenic pollution

Metal resistance genes (MRGs) are potential bio-indicators to diagnose contamination stress on riverine ecosystems. Within reservoir systems, river damming weakens hydrodynamic condition and enriches metal contaminants. But, little is known about the synergic impacts of geographic variation and anthropogenic pollution on MRGs. In this study, the abundance, composition and microbes of MRGs in four cascade reservoirs along the Jinsha River, southwestern China were investigated via high-throughput metagenomics. The results showed significant enrichment of chromium, cadmium and lead in Ludila and Xiluodu reservoirs with moderate ecological risks based on the criteria of drinking water quality and aquatic life protection. Nevertheless, at watershed scale, these metals played little role in up-regulating MRGs abundance owing to the limited toxic stress on microbes. Accordingly, geographic variation showed stronger impacts on MRGs composition than metals as revealed by the distance-decay relationship (Pearson correlation, r_geo = 0.24-0.57, r_metal = 0.10-0.41) and co-occurrence network (Node degree to MRGs subtype, n_geo = 180, n_metal = 6). River damming, as an artificial isolation of geographic space, significantly affected MRGs composition. The longer operation history, smaller storage capacity and higher regulation frequency caused the higher dissimilarity of MRGs composition between the reservoir's upstream and downstream areas. In conclusion, the metal pollution level is a prerequisite regulating MRGs; while under the lowly-polluted conditions, geographic variation had stronger impacts on MRGs than metal pollution via altered assembly of microbial communities. This study provides an important guidance for the future environmental management and ecological protection of river-reservoir ecosystems.

Evaluation of potential toxic heavy metal contamination in soil, fly ash, vegetables and grain crops along with associated ecological and health risk assessment of nearby inhabitants of a thermal power station in Jharkhand (India)

The present study aimed to evaluate the potential toxic heavy metal (PTHM) concentrations and associated ecological and health risk of nearby inhabitants (child and adult populations) of the Bokaro thermal power station (BTPS), Jharkhand, India. The fly ash containing PTHMs is released from the thermal power plant and contaminates the soil of the nearby agricultural area, roadside area and residential area. Furthermore, PTHMs cause ecological risk as well as carcinogenic health effects in adults. Inhabitants are exposed to PTHMs through exposure pathways (for instance, direct ingestion, dermal contact and air inhalation), and PTHMs were examined in this study by calculating the estimated daily intake (EDI). The contamination factor (C_f) of Cd exceeded the threshold value throughout the study area, whereas the C_f of Hg was observed higher only in roadside soil (RSS). The geoaccumulation index (I_geo) of Cd was higher in the top soil of agricultural soil (AS) (7.39) and RSS (9.38). The level of PTHMs was monitored slightly higher in the topsoil of RSS. The ecological risk index (Eri) was detected to be the highest in RSS (1628.9). The permissible limit of Cd (0.05 mg kg^-1) and Pb (0.1 mg kg^-1) for all sampled vegetables and grain crops was surpassed. The transfer factor (TF) of the studied vegetables and grain crops was in the order of Cd > Cr > Pb > Hg > As. The results of the present study concluded that the hazard quotient (HQ) values for all PTHMs analysed in soil throughout the study area were < 1, which indicates that the child population was within the safe limit. However, the adult population was at a high risk of non-carcinogenic health effects due to increased permissible limits of Cd, Pb and Cr in vegetables and grain crops whereas the target carcinogenic risk (TCR) of Pb and Cr was higher and indicated that there may be a health risk of cancer in adults.

Health Risk Assessments and Microbial Community Analyses of Groundwater from a Heavy Metal-Contaminated Site in Hezhou City, Southwest China

In industrial site groundwater, heavy metal pollution is relatively common, causing great harm to the surrounding environment and human health. To explore the relationships between the heavy metal concentration, health risks and microbial community distribution, the groundwater from a polluted site at an abandoned processing plant in Hezhou City, China, is taken as the research object. A health risk assessment model recommended by the United States Environmental Protection Agency (US EPA) is used for the evaluation, and high-throughput sequencing technology is used to analyze the characteristics of the microbial community in the groundwater. The results show that the heavy metal pollution levels of five monitoring wells are different. The monitoring well labelled HLJ2 is polluted by Cu, Mn, Ni and Cd, and the other four monitoring wells are polluted by As and Cd to varying degrees. The carcinogenic risk values of heavy metals in the groundwater environments of the five monitoring wells are all greater than the acceptable range, and only the noncarcinogenic risk value of the HLJ2 monitoring well exceeds 1, which greatly impacts health. The risks posed by the contaminants in the site groundwater through the ingestion route of drinking water are greater than those caused by the ingestion route of skin contact. The groundwater environments of the five monitoring wells contain Proteobacteria and Patescibacteria, indicating that these two bacteria have certain tolerances to heavy metal pollution. The microbial community composition varies between the monitoring wells, suggesting that different concentrations and types of heavy metal contamination promote different types of bacterial growth. Studies have shown that Proteobacteria have many heavy metal resistance genes, improving their tolerance in heavy metal-polluted environments; additionally, Proteobacteria can transport heavy metals, which is conducive to the restoration of polluted sites.

Distinct structural strategies with similar functional responses of abundant and rare subcommunities regarding heavy metal pollution in the Beiyun river basin

Bacteria within a metacommunity could be partitioned into different subcommunities ecological assemblages in light of potential importance for the community function. It is unknown how abundant and rare microbial subcommunities in urban river sediments respond to heavy metal pollutants. Using high-throughput sequencing, we analyzed these response patterns in the heavliy polluted (Beijing, China). We found that this river faces substantial ecological risks, owing to high rates of Cd and Hg pollution from urban activities. Surprisingly, abundant and rare subcommunity structures showed opposite responses to heavy metals. Abundant taxa, such as Crenarchaeota and Euryarchaeota, are resistant to heavy metal pollution through the synergistic of ammonia nitrogen (NH₄⁺-N) and total phosphorus (TP). By contrast, rare taxa, such as Verrucomicrobia, Fibrobacteres, Berkelbacteria, and Euryarchaeota, had a high synergy with NH₄⁺-N and TP with high a resilience to heavy metal pollution. However, the functions of both abundant and rare subcommunities showed a similar response to heavy metal pollutants, especially in denitrification processes. The abundant taxa responded to heavy metal pollution through methanogenesis by CO₂ reduction with H₂, human pathogens nosocomia, sulfate respiration, photoheterotrophy, and dark sulfide oxidation synergy with NH₄⁺-N and TP. The rare taxa responded to heavy metals through methanogenesis by CO₂ reduction with H₂, cellulolysis, sulfate respiration, intracellular parasites, nitrate reduction and plant pathogen. We observed distinct patterns between the structural and functional responses of microbial subcommunities to heavy metal pollutants. Our findings support the concept that denitrification processes are sensitive to but not inhibited by high levels of heavy metals pollution. We propose that the structures and functions of the abundant and rare microbial subcommunities could inform the management of pollutants in heavily polluted urban river ecosystems at fine geographical scales.

Pollution Characteristics and Health Risk Assessment of Heavy Metals in Agricultural Soils over the Past Five Years in Zhejiang, Southeast China

Heavy metal contamination in agricultural soils has attracted increasing attention in recent years. In this study, 1999 agricultural soil samples were collected from 11 cities in Zhejiang Province from 2016 to 2020, and the spatial and temporal variation characteristics of 3 of the most important heavy metals, i.e., lead (Pb), cadmium (Cd), and chromium (Cr) were analyzed. The results showed that Cd had a slightly higher sample over-standard rate of 12.06%. Spatial distribution and temporal trends showed that the Pb concentrations overall increased from 2016 to 2020 and mainly accumulated in southern Zhejiang. In addition, multiple exposure routes were evaluated for human health risks. Children are more susceptible to the adverse effects of heavy metals in agricultural soils, and oral ingestion was the major exposure route. Cr poses higher human health risks to humans than Pb and Cd in agricultural soils. Therefore, more rigid environmental monitoring and related soil remediation counter-measures for some sites with high concentrations of heavy metals are necessary to limit the potential threat to human health.

Transcriptomic analysis of cadmium toxicity and molecular response in the spiderling of Pirata subpiraticus

Cadmium (Cd) is a kind of toxic heavy metal widely distributed in the environment, posing life-threatening challenges to organisms. The paddy field spider is a natural enemy of pests and an essential component of rice biodiversity. Nonetheless, the effects of Cd stress on the postembryonic development of spiders and its detailed mechanism remain to be investigated. In the present study, we found that Cd stress posed adverse impacts on the growth indicators (e.g., carapace length, development duration, and survival rate) and increased the levels of three antioxidants (i.e., superoxide dismutase, glutathione S-transferase, and glutathione peroxidase) in the spiderlings of Pirata subpiraticus. An in-depth transcriptome analysis was employed in the study, and the results displayed that differentially expressed genes (DEGs) involved in postembryonic morphogenesis, development involved in symbiotic interaction, postembryonic development, and growth were distinctively altered under Cd stress. Further enrichment analysis showed that Cd exposure could activate the apoptosis pathway in the spider via the up-regulation of several key factors, including caspase-10, α-tubulin, actin, etc. In addition, we demonstrated that the increased level of glutathione-related enzymes in spiderlings was caused by the activation of glutathione metabolic pathway. The altered hedgehog signaling pathway might affect cell proliferation, tissue patterning, and development of spiderlings. Further protein interaction network displayed that Cd stress could affect multiple biological processes in spiderlings, particularly cellular response to stimulus and system development. To sum up, this study can provide multi-level perspectives to understand the toxicity of Cd on the growth and development of spiders.

Biogeographical survey of soil microbiomes across sub-Saharan Africa: structure, drivers, and predicted climate-driven changes

BACKGROUND

Top-soil microbiomes make a vital contribution to the Earth's ecology and harbor an extraordinarily high biodiversity. They are also key players in many ecosystem services, particularly in arid regions of the globe such as the African continent. While several recent studies have documented patterns in global soil microbial ecology, these are largely biased towards widely studied regions and rely on models to interpolate the microbial diversity of other regions where there is low data coverage. This is the case for sub-Saharan Africa, where the number of regional microbial studies is very low in comparison to other continents.

RESULTS

The aim of this study was to conduct an extensive biogeographical survey of sub-Saharan Africa's top-soil microbiomes, with a specific focus on investigating the environmental drivers of microbial ecology across the region. In this study, we sampled 810 sample sites across 9 sub-Saharan African countries and used taxonomic barcoding to profile the microbial ecology of these regions. Our results showed that the sub-Saharan nations included in the study harbor qualitatively distinguishable soil microbiomes. In addition, using soil chemistry and climatic data extracted from the same sites, we demonstrated that the top-soil microbiome is shaped by a broad range of environmental factors, most notably pH, precipitation, and temperature. Through the use of structural equation modeling, we also developed a model to predict how soil microbial biodiversity in sub-Saharan Africa might be affected by future climate change scenarios. This model predicted that the soil microbial biodiversity of countries such as Kenya will be negatively affected by increased temperatures and decreased precipitation, while the fungal biodiversity of Benin will benefit from the increase in annual precipitation.

CONCLUSION

This study represents the most extensive biogeographical survey of sub-Saharan top-soil microbiomes to date. Importantly, this study has allowed us to identify countries in sub-Saharan Africa that might be particularly vulnerable to losses in soil microbial ecology and productivity due to climate change. Considering the reliance of many economies in the region on rain-fed agriculture, this study provides crucial information to support conservation efforts in the countries that will be most heavily impacted by climate change. Video Abstract.

Goethite-based carbon foam nanocomposites for concurrently immobilizing arsenic and metals in polluted soils

Although different amendments have been used for the immobilization of metals and metalloids in contaminated soils, in most of them there are still important challenges that need to be faced in order to achieve an optimal result. In this work, a new material based on a carbon foam impregnated with goethite nanoneedles has been developed with the aim of evaluating its effect on the mobility and availability of As, Cd, Cu, Pb and Zn in an industrial soil. For this purpose, leaching, sequential extraction and phytotoxicity studies have been carried out. The results were compared with the same carbon foam without goethite impregnation. When the soil was treated with goethite-based carbon foam nanocomposite, the mobility of metal(loid)s was markedly reduced, with the exception of Zn, which showed moderate immobilization. The presence of acid groups on the surface of the carbon foam, together with a high surface area, led to a strong immobilization of pollutants. Moreover, the modification of the foams using goethite nanoneedles, imply that the novel nanocomposite obtained is effective to remediate simultaneously metal and metalloid-polluted soils, without any relevant effect on soil toxicity.

A field study to estimate heavy metal concentrations in a soil-rice system: Application of graph neural networks

Accurate prediction of the concentration of heavy metals is of great significance for assessing the quality of agricultural products and reducing health risks. However, the complexity and interconnectivity of the farmland ecosystem restricts the improvement of the prediction accuracy of traditional methods. This research explored the application potential of graph neural network (GNN) technology, which can extract and learn information in large-scale networks in detail, in the field of heavy metal prediction for the first time. In this study, a heavy metal prediction model for rice, CoNet-GNN, was proposed with 17 environmental factors as input variables using the co-occurrence network and GNN. Experimental results using a dataset from a field study showed that the R² of CoNet-GNN for predicting Cd, Pb, Cr, As, and Hg had outstanding values of 0.872, 0.711, 0.683, 0.489, and 0.824, respectively. Sensitivity analysis further indicated that CoNet-GNN had good stability and robustness. Compared with random forest, gradient boosting, and multilayer perceptron, CoNet-GNN made a remarkable improvement to the prediction accuracy of all studied heavy metals. Therefore, CoNet-GNN can effectively simulate the rich relationships and laws between various factors in the soil-rice system and effectively characterize the influence diffusion path. Furthermore, it provides new ideas for heavy metal prediction based on network research methods and expands the technical scope of heavy metal evaluation.

Probabilistic health risk assessment for residents exposed to potentially toxic elements near typical mining areas in China

Public health problems caused by toxic elements in mining areas have always been an important topic worldwide. However, existing studies have focused on single exposure routes and common toxic elements, which might underestimate the risks faced by residents. In this study, three typical mining areas in central China were selected to assess the health risks of 14 potentially toxic elements through five exposure routes using Monte Carlo simulations. The results indicated that the 95th percentile non-carcinogenic risk values to humans via rice and vegetable ingestion ranged from 9.8 to 26.0 and 6.2 to 19.0. The corresponding carcinogenic risks ranged from 1.4E-2 to 6.3E-2 and from 2.9E-3 to 2.3E-2, respectively. Therefore, residents face serious health risks. Multi-element analysis showed that cadmium (Cd), boron (B), and arsenic (As) were the main contributors to rice non-carcinogenicity, whereas Cd and nickel (Ni) were the main elements of rice carcinogenicity. B and lead (Pb) played an essential role in the non-carcinogenesis of vegetables, and B, Ni, and Cd played an essential role in carcinogenesis. Accidental ingestion is the main route of soil exposure. In these three areas, the probability of non-carcinogenic risk faced by adults was 40%, 0%, and 1%, respectively, while the probabilities for children were 100%, 62%, and 83%, respectively. Regarding carcinogenicity, the risk for both adults and children was up to 100%. This study emphasizes the overall health risks in polluted areas via multi-route and multi-element analysis. This conclusion is helpful to comprehensively assess the potential health risks faced by residents in mining areas and provide baseline data support and a scientific basis for formulating reasonable risk control measures.

Abundant microbial communities act as more sensitive bio-indicators for ecological evaluation of copper mine contamination than rare taxa in river sediments

Bacterial and fungal communities have been widely applied as bio-indicators for ecological evaluation of copper (Cu) mine pollution in river sediments. However, the response pattern of their abundant and rare sub-communities is still unknown, limiting the further development of biological diagnostics. Here, the alpha-diversity, community composition, environmental contribution and co-occurrence network of total, abundant and rare taxa for bacteria and fungi in the Jiaopingdu Cu Mine wastewater treatment plant (WWTP) were investigated through high-throughput sequencing. The results revealed different responses of microbial alpha-diversity for abundant and rare sub-communities. The abundant taxa were ubiquitous in all sediments, while rare taxa exhibited increases of species richness in polluted areas because of heterochthonous inputs of WWTP drainage. Nevertheless, the variations of community composition were consistent for bacterial and fungal abundant and rare taxa, all of which showed significant dissimilarity between control and polluted areas. Distance-decay relationship and canonical correlation analysis indicated that abundant taxa assemblies (r_bacteria = -0.924, r_fungi = -0.684) were more strongly driven by environmental changes than rare ones (r_bacteria = -0.626, r_fungi = -0.349), because abundant microbes had higher proportions of significant variations in abundance. Co-occurrence networks revealed more keystone species with high node degree and centrality among abundant taxa compared with rare ones. Moreover, bacterial abundant and rare taxa were more sensitive to Cu mine pollution than relevant fungal taxa owing to different Cu tolerance. In conclusion, among all microbial sub-communities, abundant bacteria had the highest environmental sensitivity, suggesting their important application in biological diagnosis of Cu mine pollution. Accordingly, the abundant taxa could act as "key reservoir" for future selection of specific indicator species, for example Thiobacillus, while rare taxa no longer need excessive in-depth analysis, which would greatly improve microbial diagnosis efficiency.

Speciation Distribution and Influencing Factors of Heavy Metals in Rhizosphere Soil of Miscanthus Floridulus in the Tailing Reservoir Area of Dabaoshan Iron Polymetallic Mine in Northern Guangdong

Through field investigation and experimental analysis, the forms, contents and distribution of heavy metals (Zn, Pb, Cu, Cd, Ni, Cr) in rhizosphere and non-rhizosphere soils of Miscanthus floridulus growing everywhere in Tielongwei mine pond (sample plot 1), Caoduikeng tailings pond (sample plot 2), Donghua tailings pond (sample plot 3) and Small tailings pond (sample plot 4) in Dabaoshan, Guangdong Province were studied. The results showed that the main forms and distributions of heavy metals in rhizosphere and non-rhizosphere soils are basically the same, which shows that the mineral content accounts for most of the total amount of heavy metals, while the exchange content is low. Compared with non-rhizosphere soil, the proportion of exchangeable and organic heavy metals in rhizosphere soil increased significantly, in which the proportion of organic-bound Cu increased by 53.25%, the proportion of organic-bound Cd and Pb increased by more than 17%, and the proportion of Zn increased by 5.67%. At the same time, the contents of carbonate-bound and iron manganese oxide-bound decreased. Statistical analyses showed that the morphological distribution of Zn, Pb, Cu, Cd, Ni and Cr in rhizosphere soil was closely related to soil pH value, organic matter content, plant growth and other factors. The results of this study provided a basis for the restoration of heavy metal-contaminated sites by Miscanthus.

How microorganisms tell the truth of potentially toxic elements pollution in environment

Potentially toxic elements (PTEs) posed a major hazard to microbial community in river sediments, but the way how different kinds of microorganisms responses to elements pollution has not been clearly understood. The target of this research was to discriminate the apposite indicators for diagnosing elements pollution based on the sensitivity of microbial abundance, biodiversity, predicted metabolic functions to PTEs (Cu, Cd, Cr, Ni, Pb, Zn, As and Hg). Considering Huaihe River Basin as the main subject, sediment samples were gathered from 135 sites. Ni, Zn and Cd significantly influenced the microbial communities and predicted functions. In general, the microbial sensitivity to PTEs was bacteria > archaea. Geo-accumulation index and potential ecological risk (PER) index suggested Hg and Cd were the significant contaminates and posed the most serious ecological risk in sediments. Structural Equation Model identified the bioindicators 1/nitrate reduction and rara taxa (Azoarcus) as reflect and speculate Hg and Cd pollution, respectively. PER was predicted by 1/nitrate reduction and rare taxa (Phaeodactylibacter and Illumatobacter). Results elucidated the rather role of rare taxa in indicating PTEs pollution. The findings contributed to provide useful reference for bioremediation of contaminated sediments under PTEs stress.

Bioremediation of lead-contaminated soil by inorganic phosphate-solubilizing bacteria immobilized on biochar

In this study, a bio-composite (IBWS700) was prepared using inorganic phosphate-solubilizing bacteria (iPSB), which were immobilized on biochar produced from wheat straw (WS700). Further, the bio-remediation effects of the composite for lead (Pb) in soil were also investigated. The presence of different Pb species, physicochemical properties, enzyme activities, and immobilization mechanisms of Pb in soil were also evaluated. Compared to free iPSB and biochar, IBWS700 significantly decreased the lead bio-availability whereas increased the residual fraction, also affected available phosphorus (AP), cation exchange capacity (CEC), organic matter (OM) and activity of urease, alkaline phosphatase, sucrase and catalase. Interestingly, the changes in the enzyme activity, AP and OM performed twice increases with increasing Pb concentration, which was rarely reported. The reason might be attributed to the reconstruction of bacteria communities with high Pb load. Further, the immobilization mechanisms mainly included bio-adsorption and bio-precipitation. SEM revealed that the surface of IBWS700 covered with a large number of heterogeneous colonization of iPSB and white stack after Pb²⁺ adsorption. FTIR spectra showed that O-H, C-O-P, CO, and C =C could play important roles in bio-adsorption. Moreover, XRD analysis indicated that bio-precipitates were mainly Pb₅(PO₄)₃Cl. In general, the use of IBWS700 could effectively immobilize Pb²⁺ and improve soil quality.

Silicon fertilizers, humic acid and their impact on physicochemical properties, availability and distribution of heavy metals in soil and soil aggregates

It has been confirmed that silicon (Si) fertilizer and humic acid (HA) could effectively decrease the heavy metals in soil. Nonetheless, the impact of these additives on soil aggregate characteristics was ignored. Therefore, the effects of Si fertilizer, HA, and their combinations on the physicochemical characteristics, availability of heavy metals (Cu, Cd, Pb, Zn), and fraction changes in soils and soil aggregates were investigated in this research. The results showed that Si fertilizer and HA significantly modified soil properties such as soil pH, electrical conductivity total organic carbon, water-soluble organic carbon, and nitrate‑nitrogen. HA and Si-HA (SHA) supplementation significantly decreased the availability of Cu, Cd, Pd, and Zn. Besides, there was no significant difference in physicochemical properties between soil and soil aggregates. The availability of Cu, Cd, Pd, and Zn in soil aggregates could be significantly inhibited by the addition of HA and SHA, and the content in microaggregates was greater than that in macroaggregates. After the addition of the three additives, the main fractions of heavy metals in different particle sizes were changed and eventually transformed to the residue state. These results indicated that Si fertilizer, HA, and SHA were influential in physicochemical properties and metal availability in soil aggregates. Therefore, it is of great scientific significance to study the impact of heavy metal pollution on the ecological environment in different aggregates, which will provide reference data for future sustainable management of heavy-metal polluted soils.

Calorific Value of Festuca rubra Biomass in the Phytostabilization of Soil Contaminated with Nickel, Cobalt and Cadmium Which Disrupt the Microbiological and Biochemical Properties of Soil

The choice of optimal plant species for phytoremediation and organic fertilization plays an important role in stabilizing the functions of soils contaminated with heavy metals. The influence of nickel, cobalt and cadmium on the biomass yield and calorific value of Festuca rubra, heavy metal concentrations in soil and plants and the microbiological, biochemical and physicochemical proprieties of soil were analyzed in a pot experiment. The tolerance index (TI) describing Festuca rubra’s ability to tolerate heavy metals, as well as the translocation (TF), accumulation (AF) and bioaccumulation (BF) factors of heavy metals in Festuca rubra were calculated. The experiment was conducted in two series: In soil fertilized and not fertilized with compost. Nickel and cobalt significantly inhibited the growth and development of Festuca rubra. The experiment demonstrated that this plant species can be grown on soil contaminated with heavy metals. Festuca rubra contained on average 46.05% C, 34.59% O, 5.91% H, 3.49% N, 0.19% S and 9.76% ash. Festuca rubra has a stable calorific value which is not affected by heavy metals; therefore, biomass harvested from heavy metal-polluted soil can be used for energy generation. The calorific value of Festuca rubra ranged from 15.924 to 16.790 MJ kg−1 plant d.m., and the heat of combustion from 17.696 to 18.576 MJ kg−1. It has a stable calorific value which is not affected by heavy metals, therefore biomass harvested from heavy metal-polluted soil can be used for energy generation. Festuca rubra is particularly useful for the phytostabilization of soil contaminated with cadmium and cobalt. Compost minimizes the adverse effects of heavy metal pollution on the microbiological, biochemical and physicochemical properties of soil.

Simultaneous elimination of black-odor and stabilization of heavy metals in contaminated sediment using calcium peroxide/hydroxyapatite: Microbial responses and ecotoxicological effects

In this study, laboratory-scale experiments were conducted to investigate the feasibility of the combined use of calcium peroxide and hydroxyapatite (CaO₂/HAP) for simultaneous black-odor sediment remediation and heavy metal stabilization. The ecotoxicological effects of remediated sediment were also evaluated based on biological toxicity. Results showed that CaO₂/HAP effectively eliminated the black-odor and simultaneously stabilized heavy metals in the sediment. Under the optimal dosage ratio of CaO₂/HAP (1:2), the acid volatile sulfides decreased to approximately 20 mg/kg (dry weight, dw) and oxidation-reduction potential increased from - 165 mV to approximately - 90 mV. The leaching of heavy metals meets the strictest standards (Level I) of the "Technical Specification for Output Disposal of Contaminated Sediment Treatment Plant of River and Lake" (SZDB/Z 236-2017). The indigenous microbial community succession occurred (p < 0.01), Proteobacteria and Firmicutes accounting for 75.54% and 20.19%, respectively, were the predominant bacteria in the remediated sediment. Additionally, CaO₂/HAP remediated sediments were safer and more environmentally friendly than raw sediments, and were not biotoxic to the benthic environment (p < 0.01). This study provides new insights into the combined use of the beneficial amendments remediating heavy metal-contaminated black-odor river sediment.

Microbial metabolic limitation of rhizosphere under heavy metal stress: Evidence from soil ecoenzymatic stoichiometry

Slow nutrient turnover and destructed soil function were the main factors causing low efficiency in phytoremediation of heavy metal (HM)-contaminated soil. Soil ecoenzymatic stoichiometry can reflect the ability of soil microorganisms to acquire energy and nutrients, and drive nutrient cycling and carbon (C) decomposition in HM-contaminated soil. Therefore, for the first time, we used the enzymatic stoichiometry modeling to examine the microbial nutrient limitation in rhizospheric and bulk soil of different plants (Medicago sativa, Halogeton arachnoideus and Agropyron cristatum) near the Baiyin Copper Mine. Results showed that the main pollutants in this area were Cu, Zn, Cd, and Pb, while Cd and Zn have the greatest contribution according to the analysis of pollution load index (PLI). The activities of soil C-, nitrogen (N)-, and phosphorus (P)-acquiring enzymes in the rhizosphere of plants were significantly greater than that in bulk soil. Moreover, microbial C and P limitations were observed in all plant treatments, while the lower limitation was generally in the rhizosphere compared to bulk soil. The HM stress significantly increased microbial C limitation and decreased microbial P limitation, especially in the rhizospheric soil. The partial least squares path modeling (PLS-PM) further indicated that HM concentration has the greatest effects on microbial P limitation (-0.64). In addition, the highest enzyme activities and the lowest P limitation were observed in the rhizospheric and bulk soil of M. sativa, thereby implying that soil microbial communities under the remediation of M. sativa were steadier and more efficient in terms of their metabolism. These findings are important for the elucidation of the nutrient cycling and microbial metabolism of rhizosphere under phytoremediation, and provide guidance for the restoration of HM-contaminated soil.