Effects of soil properties, heavy metals, and PBDEs on microbial community of e-waste contaminated soil

Heavy metal contamination impacts the structure and co-occurrence patterns of bacterial communities in agricultural soils

Heavy metal (HM) contamination caused by mining and smelting activities can be harmful to soil microbiota, which are highly sensitive to HM stress. Here, we explore the effects of HM contamination on the taxonomic composition, predicted function, and co-occurrence patterns of soil bacterial communities in two agricultural fields with contrasting levels of soil HMs (i.e., contaminated and uncontaminated natural areas). Our results indicate that HM contamination does not significantly influence soil bacterial α diversity but changes the bacterial community composition by enriching the phyla Gemmatimonadetes, Planctomycetes, and Parcubacteria and reducing the relative abundance of Actinobacteria. Our results further demonstrate that HM contamination can strengthen the complexity and modularity of the bacterial co-occurrence network but weaken positive interactions between keystone taxa, leading to the gradual disappearance of some taxa that originally played an important role in healthy soil, thereby possibly reducing the resistance of bacterial communities to HM toxicity. The predicted functions of bacterial communities are related to membrane transport, amino acid metabolism, energy metabolism, and carbohydrate metabolism. Among these, functions related to HM detoxification and antioxidation are enriched in uncontaminated soils, while HM contamination enriches functions related to metal resistance. This study demonstrated that microorganisms adapt to the stress of HM pollution by adjusting their composition and enhancing their network complexity and potential ecological functions.

Soil properties and organochlorine compounds co-shape the microbial community structure: A case study of an obsolete site

Organochlorine compounds (OCs) such as chlorobenzenes (CB) are persistent organic pollutants that are ubiquitous in soils at organochlorine pesticides (OCP) production sites. Long-term contamination with OCs might alter the soil microbial structure and further affect soil functions. However, the effects of OCs regarding the shaping of microbial community structures in the soils of OCs-contaminated sites remain obscure, especially in the vertical soil profile where pollutants are highly concealed. Hence this paper explored the status and causes of OCs pollution (CB, hexachlorocyclohexane (HCH), and dichlorodiphenyltrichloroethane (DDT)) in an obsolete site, and its combined effects with soil properties (pH, available phosphorus (AP), dissolved organic carbon (DOC), etc) on microbial community structure. The mean total concentration of OCs in the subsoils was up to 996 times higher than that in the topsoils, with CB constituting over 90% of OCs in the subsoil. Historical causes, anthropogenic effects, soil texture, and the nature of OCs contributed to the differences in the spatial distribution of OCs. Redundancy analysis revealed that both the soil properties and OCs were important factors in shaping microbial composition and diversity. Variation partitioning analysis further indicated that soil properties had a greater impact on microbial community structure than OCs. Significant differences in microbial composition between topsoils and subsoils were observed through linear discriminant analysis effect size (LEfSe) analysis, primarily driven by different pollutant conditions. Additionally, co-occurrence network analysis indicated that heavily contaminated subsoils exhibited closer and more intricate bacterial community interactions compared to lightly contaminated topsoils. This work reveals the impact of environmental factors in co-shaping the structure of soil microbial communities. These findings advance our understanding of the intricate interplay among organochlorine pollutants, soil properties, and microbial communities, and provides valuable insights into devising effective management strategies in OCs-contaminated soils.

Bioremediation of PBDEs and heavy metals co-contaminated soil in e-waste dismantling sites by Pseudomonas plecoglossicida assisted with biochar

Biochar-assisted microbial remediation has been proposed as a promising strategy to eliminate environmental pollutants. However, studies on this strategy used in the remediation of persistent organic pollutants and heavy metals co-contaminated soil are lacking, and the effect of the combined incorporation of biochar and inoculant on the assembly, functions, and microbial interactions of soil microbiomes are unclear. Here, we studied 2,2',4,4'-tetrabrominated diphenyl ether (BDE-47) degradation and heavy metal immobilization by and biochar-based bacterial inoculant (BC/PP) in an e-waste contaminated soil, and corresponding microbial regulation mechanisms. Results showed that BC/PP addition was more effective in reducing Cu and Pb availability and degrading BDE-47 than inoculant alone. Notably, BC/PP facilitated bound-residue formation of BDE-47, reducing the ecological risk of residual BDE-47. Meanwhile, microbial carbon metabolism and enzyme activities (related to C-, N-, and P- cycles) were enhanced in soil amended with BC/PP. Importantly, biochar played a crucial role in inoculant colonization, community assembly processes, and microbiome multifunction. In the presence of biochar, positive interactions in co-occurrence networks of the bacterial community were more frequent, and higher network stability and more keystone taxa were observed (including potential degraders). These findings provide a promising strategy for decontaminating complex-polluted environments and recovering soil ecological functions.

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.

Spatial-vertical variations of energetic compounds and microbial community response in soils from an ammunition demolition site in China

Ammunition-related activities have caused severe energetic compound (EC) contamination and pose serious risks to ecosystems. However, little is known regarding the spatial-vertical variations of ECs or their migration in soils at ammunition demolition sites. Although the toxic effect of some ECs to microorganisms have been reported through laboratory simulations, the responses of indigenous microbial communities to ammunition demolition activities are unclear. In this study, the spatial-vertical variations of ECs in 117 topsoil samples and three soil profiles from a typical ammunition demolition site in China were studied. Heavy contamination of ECs was concentrated in the top soils of the work platforms, and ECs were also detected in the surrounding area and nearby farmland. ECs showed different migration characteristics in the 0-100 cm soil layer of the different soil profiles. Demolition activities and surface runoff play critical roles in the spatial-vertical variations and migration of ECs. These findings suggest that ECs are able to migrate from the topsoil to the subsoil and from the core demolition area to further ecosystems. The work platforms exhibited lower microbial diversity and different microbiota compositions compared to the surrounding areas and farmlands. Using the random forest analysis, pH and 1,3,5-trinitrobenzene (TNB) were characterized as the most important factors affecting microbial diversity. Network analysis revealed that Desulfosporosinus was highly sensitive to ECs and may be a unique indicator of EC contamination. These findings provide key information in understanding EC migration characteristics in soils and the potential threats to indigenous soil microorganisms in ammunition demolition sites.

Quantitative assessment of selective degradation behavior of etoxazole in different classes of organisms by compound-specific isotope analysis

In this paper, the stereoselective degradation and quantitative identification of chiral pesticide etoxazole in organisms with different classes of organisms (soil, chlorella algal fluid and mice) were carried out by compound-specific isotope analysis (CSIA). The degradation behavior and stable isotope fractionation effect of etoxazole in soil, chlorella and mice were investigated. The R-etoxazole degraded faster than S-etoxazole in different classes of organisms. The metabolites M1, M2 and M3 were detected in all three substrates. Biodegradation is the main factor for the change of stable isotope ratio of chiral pesticide etoxazole. Furthermore, the relationship between fractionation value of carbon isotope and residual concentration of etoxazole is established by Rayleigh equation, and the biodegradation rate of etoxazole could be calculated by using CSIA without measuring the concentration of etoxazole. Therefore, the use of CSIA can accurately assess the degradation behavior of pesticide pollution in the environment and provide a certain scientific evidence and technical support in the process of environmental remediation.

Temporal, compositional, and functional differences in the microbiome of Bangkok subway air environment

With the growing numbers of the urban population, an increasing number of commuters have relied on subway systems for rapid transportation in daily life. Analyzing the temporal distribution of air microbiomes in subway environments is crucial for the assessment and monitoring of air quality in the subway system, especially with regard to public health. This study employed culture-independent metabarcode sequencing to analyze bacterial diversity and variations in bacterial compositions associated with bioaerosols collected from a subway station in Bangkok over a four-month period. The bacteria obtained were found to consist primarily of Proteobacteria, Firmicutes, and Actinobacteria, with variations at the family, genus, and species levels among samples obtained in different months. The vast majority of these bacteria are most likely derived from outside environments and human body sources. Many of the bacteria found in Bangkok subway station were also identified as "core microorganisms" of subway environments around the world, as suggested by the MetaSUB Consortium. The diversity of bacterial communities was shown to be influenced by several air quality variables, especially ambient temperature and the quantity of particulate matters, which showed positive correlations with several bacterial species such as Acinetobacter lwoffii, Staphylococcus spp., and Moraxella osloensis. In addition, metabolic profiles inferred from metabarcode-derived bacterial diversity showed significant variations across different sampling times and sites and can be used as a starting point to further explore the functional roles of specific groups of bacteria in the subway environment. This study thus introduced the information required for surveillance of microbiological impacts and their contributions to the well-being of subway commuters in Bangkok.

Depth-dependent patterns of soil microbial community in the E-waste dismantling area

The long-term dismantling of electronic waste (E-waste) has contaminated the soil environment considerably. In spite of this, it is unknown if it affects the depth-resolved microbial communities. In the present research, six soil profiles (dismantling sites and the surrounding farmland) were collected from one of the largest Chinese E-waste disposal centers to identify depth-resolved microbiota and assess how heavy metal contamination affects microbial adaptation. Results suggested that cadmium (0.12-7.22 mg kg^-1) and copper (18.99-11282.03 mg kg^-1) were the main pollutants in the test soil profiles, and their concentrations gradually decreased with depth. The surrounding contaminated farmland has a more complex interaction and higher modularity (0.77-0.85) among microbes, indicating a stronger niche differentiation to enhance functional diversity. The proportion of positive interactions between taxa decreased with depth, as high heavy metals contamination in the topsoil results in the co-occurrence of microorganisms with the same ecological niche that collaborated to face environmental stress. Soil physicochemical properties, heavy metals concentration, and soil depth critically affect microbial communities. Microbial community assembly processes in the topsoil were affected by environmental filtering, i.e., by deterministic processes (NST: 13-52%), while were more stochastic (NST: 46-72%) in the subsoil due to the environment of soil becoming more homogeneous as soil depth increased.

Polybrominated diphenyl ethers (PBDEs) in household dust: A systematic review on spatio-temporal distribution, sources, and health risk assessment

Much attention has been paid on polybrominated diphenyl ethers (PBDEs) in household dust due to their ubiquitous occurrences in the environment. Based on the data from 59 articles sampled from 2005 to 2020, we investigated the spatio-temporal distribution, sources, and health risk of 8 PBDE homologues in household dusts worldwide. BDE-209 is the predominant PBDE in household dusts, followed by BDE-99 and BDE-47. The total concentrations of PBDEs (∑₈PBDEs) are found to be high in household dusts sampled from 2005 to 2008 and show a significant decline trend from 2009 to 2016 (p < 0.05) and a little upward tendency from 2017 to 2020. The concentrations of PBDEs in household dusts vary greatly in different countries of the world. The use of penta-BDE is the main source of three to five bromo-biphenyl ether monomers contributing 17.4% of ∑₈PBDEs, while BDE-209 and BDE-183 are derived from the use of household appliances contributing 82.6% of ∑₈PBDEs. Ingestion is the main exposure route for adults and toddlers, followed by dermal contact. The values of hazard index (HI) exposed to PBDEs in household dusts are all less than 1 for both adults and toddlers, indicating a low non-cancer risk. The incremental lifetime cancer risks (ILCRs) of BDE-209 are less than 10^-6 for both adults and toddlers, suggesting a negligible risk. However, the total carcinogenic risk of toddlers is higher than that of adults, indicating that much attention should be paid to toddlers exposed to BDE-209 in household dust.

The microbial profile of rivers and lagoons three years after the impact of the world's largest mining disaster (Fundão dam, Brazil)

The collapse of the Fundão tailings dam (Minas Gerais, Brazil) was the largest environmental disaster in Brazil's history and in the world mining industry. This disaster carried approximately 55 million m³ of iron ore tailings along the rivers and the lagoons of the Doce river basin. Although multiple studies assessed the impact on microbial communities in those rivers and lagoons right after the dam rupture, it is not known whether the microbiome in those environments remains impacted years after the disaster. Assessing the microbiome is very important to evaluate impacts and evaluate the health of the environment, due to the several ecological roles played by microorganisms. Here, we evaluated the impact of the dam failure on water and sediment bacteriome and archaeome by high-throughput next-generation sequencing. Samples were taken from two rivers and six lagoons during the dry and rainy seasons approximately three years post disturbance. The results showed a large number and abundance of microbial groups associated with the presence of heavy metals and mine tailings sediments. Some of these microorganisms were also reported in large abundance in the impacted rivers shortly after the Fundão dam rupture. Among the most abundant microorganisms in the Doce River, we can highlight the bacteria hgcI clade and the archaea Nitrososphera sp. in the water, and the bacteria Anaerolineaceae sp. in the sediment. These results suggest that the microbiome of the rivers and the lagoons in the Doce river basin remains severely impacted by the Fundão tailings dam failure even three years after the disaster. The presence of those microorganisms can also help to assess the occurrence of the Fundão dam sediment in other environments.

Recent advances and trends of trichloroethylene biodegradation: A critical review

Trichloroethylene (TCE) is a ubiquitous chlorinated aliphatic hydrocarbon (CAH) in the environment, which is a Group 1 carcinogen with negative impacts on human health and ecosystems. Based on a series of recent advances, the environmental behavior and biodegradation process on TCE biodegradation need to be reviewed systematically. Four main biodegradation processes leading to TCE biodegradation by isolated bacteria and mixed cultures are anaerobic reductive dechlorination, anaerobic cometabolic reductive dichlorination, aerobic co-metabolism, and aerobic direct oxidation. More attention has been paid to the aerobic co-metabolism of TCE. Laboratory and field studies have demonstrated that bacterial isolates or mixed cultures containing Dehalococcoides or Dehalogenimonas can catalyze reductive dechlorination of TCE to ethene. The mechanisms, pathways, and enzymes of TCE biodegradation were reviewed, and the factors affecting the biodegradation process were discussed. Besides, the research progress on material-mediated enhanced biodegradation technologies of TCE through the combination of zero-valent iron (ZVI) or biochar with microorganisms was introduced. Furthermore, we reviewed the current research on TCE biodegradation in field applications, and finally provided the development prospects of TCE biodegradation based on the existing challenges. We hope that this review will provide guidance and specific recommendations for future studies on CAHs biodegradation in laboratory and field applications.

Effects of combined pollution of organic pollutants and heavy metals on biodiversity and soil multifunctionality in e-waste contaminated soil

Electronic waste (e-waste) is increasing globally, but the impact of this source of combined pollution on soil biodiversity and multiple soil functions (i.e., ecosystem multifunctionality) remains unclear. Here, we evaluated the effects of combined pollution on the biodiversity and soil multifunctionality using samples collected from upland and paddy soils chronically contaminated with e-waste. Overall biodiversity, as well as the relative abundance and biodiversity of key ecological clusters, as combined pollution concentrations increased in upland soil, while the opposite was true in paddy soil. Soil multifunctionality followed the same trend. Organic pollutants had significant negative effects on soil multifunctionality and were the main influencing factors in upland soil. Heavy metals had significant positive effects on soil multifunctionality in paddy soil. Moreover, driving soil multifunctionality was overall biodiversity in upland soil but key biodiversity in paddy soil. Importantly, a strong positive association between key organism biodiversity and soil multifunctionality was found in soil with low contamination. However, the relationship between key organism biodiversity and soil multifunctionality weakened or disappeared in highly contaminated soil, whereas overall biodiversity was significantly and positively correlated with multifunctionality. Our results emphasized that severe e-waste contamination would reduce soil biodiversity and soil multifunctionality and warrants high attention.

The evaluation of Hudson River sediment as a growth substrate - Microbial activity, PCB-degradation potential and risk assessment

The potential use of growth substrates prepared with an admixture of 10% to 75% Hudson River sediments was evaluated by analysis of changes in microbial activity (measured using Biolog Ecoplates) and molecular markers (presence of degradative tceA1 and bphA genes) as well as potential risks toward humans and the environment (health and environmental risk quotients). The highest microbial activity was found in growth substrate with 25% Hudson River sediments compared to unamended control soil. Significant differences were observed between samples amended with lower (0-10%) and higher (25-75%) proportion of sediment. Microbial activity increased with the proportion of sediment amendment (≥25% sediment); however, this increase in microbial activity was not affected by increasing pollutant concentrations (PCBs, Pb, Cr Ni and Zn) nor decreasing TOC content. The growth substrate amended with Hudson River sediments demonstrated a potential for PCB degradation, as evidenced by the presence of tceA1 and bphA genes responsible, respectively, for reductive dehalogenation and oxidation of a range of aromatic organic compounds including PCBs. An assessment of risk quotients showed that the growth substrates containing lower doses of Hudson River sediments (10-50%) meet the international requirements for use in agriculture/horticulture for the production of non-food crops. Nevertheless, due to the elevated content of some toxic metals and PCBs, the growth substrate prepared with the highest proportion of sediments (75%) was not suitable for agricultural/horticultural use.

A novel and affordable bioaugmentation strategy with microbial extracts to accelerate the biodegradation of emerging contaminants in different media

This study describes a new bioaugmentation alternative based on the application of aqueous aerated extracts from a biomixture acclimated with ibuprofen, diclofenac and triclosan. This bioaugmentation strategy was assayed in biopurification systems (BPS) and in contaminated aqueous solutions to accelerate the removal of these emerging contaminants. Sterilized extracts or extracts from the initial uncontaminated biomixture were used as controls. In BPS, the dissipation of 90% of diclofenac and triclosan required, respectively, 60 and 108 days less than in the controls. The metabolite methyl-triclosan was determined at levels 12 times lower than in controls. In the bioaugmented solutions, ibuprofen was almost completely eliminated (99%) in 21 days and its hydroxylated metabolites were also determined to be at lower levels than in the controls. The plasmidome of acclimated biomixtures and its extract appeared to maintain certain types of plasmids but degradation related genes became less evident. Several dominant OTUs found in the extract identified as Flavobacterium and Fluviicola of the phylum Bacteroidetes, Thermomicrobia (phylum Chloroflexi) and Nonomuraea (phylum Actinobacteria), may be responsible for the enhanced dissipation of these contaminants. This bioaugmentation strategy represents an advantageous tool to facilitate in situ bioaugmentation.

Tolerance of phyllospheric Wickerhamomyces anomalus to BDE-3 and heavy metals

Few research have focused on the potential microorganism and gene resources for plant resistance to polybrominated diphenyl ether (PBDE) and heavy metal (HM) co-contamination. The purpose of this study was to investigate the impact of phyllospheric Wickerhamomyces anomalus bioremediation ability on PBDE and HM co-contamination. The results showed that the toleration capability of W. anomalus to cadmium (Cd²⁺) was higher than that to chromium (Cr) or 4-bromodiphenyl ether (BDE-3) contamination. The threshold levels of W. anomalus tolerance to BDE-3, Cd²⁺, and Cr were 30 mg/L, 500 mg/L, 30 mg/L, respectively. The use of the higher concentration of BDE-3 (30 mg/L) as a carbon source may improve tolerance to Cd²⁺ and Cr (10 mg/L Cd²⁺ and 10 mg/L Cr). Overexpression of Wapdr15 gene of ABCG subfamily from W. anomalus improved the tolerance to BDE-3 (10 mg/mL) and Cd²⁺ (0.5 mg/mL) significantly in transgenic tobacco lines. The synergism effect of BDE-3 and Cd²⁺ stress existed similarly in W. anomalus and transgenic lines. The findings suggest that W. anomalus should be taken into account for providing an efficient method in improving crops' tolerance during PBDE and HM co-contamination in soil.

Long-term metal pollution shifts microbial functional profiles of nitrification and denitrification in agricultural soils

The increasing contamination of heavy metals in agricultural soils and its impact on the nitrogen (N) cycle and N use efficiency have attracted considerable attention in recent years. In this study, agricultural soils neighboring the Dabaoshan copper mining area (DBS) and Qingyuan electronic-waste recycling area (QY), in Guangdong, China, were sampled to study the interaction between heavy metals and nitrification/denitrification processes, especially the related microbial functional profiles. Results showed that the contamination of heavy metals affected nitrifiers and denitrifiers differently. The potential nitrification activity was about four times lower in metal-polluted soils compared with the unpolluted ones, with a significant decrease in the abundance of amoA and nxrB (p < 0.05) in the polluted samples. On the other hand, the potential denitrification activity was more metal-resistant, which attributed to its complex species composition as shown by a slightly higher α-diversity index, and was slightly higher (p > 0.05) in the polluted samples. Among the five denitrifying genes tested, nosZ gene had the highest increase and the nirK gene the most decrease in numbers and in the polluted soils. The metal-polluted soils had fewer correlations among N functional genes based on the co-occurrence network analysis. In addition, the core taxa of the whole bacterial community changed from copiotrophic to oligotrophic bacteria in the presence of heavy metals. Mantel test indicated that heavy metals were the dominant factors determining N-related genes while the bacterial community composition was due to a combination of heavy metal presence and soil properties such as TOC, NO₂^-, and pH. It is concluded that long-term heavy metals pollution potentially affected nitrifiers and denitrifiers differently as indicated by the shift in N functional genes and the change in nitrification/denitrification processes.

Vertical distribution of the toxic metal(loid)s chemical fraction and microbial community in waste heap at a nonferrous metal mining site

Over the past few decades, nonferrous mining has produced numerous waste rock and part of the waste that has not been properly treated was generally dumped at roadsides and hill slopes. However, the vertical distributions of toxic metal(loid)s and composition of microbial communities in waste heap and the under-laid pristine soil are rarely studied. In this work, the fraction-related distributions of toxic metal(loid)s were investigated at a waste heap profile and the indigenous microbial assemblages were also analyzed by Illumina sequencing of 16 s rRNA genes. Results showed that compared to the under-laid pristine soil, content of toxic metal(loid)s, especially Cd, As and Pb, in waste rock layer were higher. Most of As in subsoil existed as non-specifically sorbed and specifically-sorbed fractions, which could be ascribed to the migration from the upper layer. The mobility was significantly correlated with Eh, EC, clay content, CEC and the total content of metal(loid)s. Phyla Proteobacteria, Acidobacteria and Firmicutes dominated the microbial communities. The microbial community compositions at the genus level were similar, but their relative abundances were mainly influenced by pH, CEC, Eh, SOM, and bioavailability content of toxic metal(loid)s. Besides, microbial functions of elements (S, Fe, Mn and As) oxidation/reduction and metabolites (siderophore, biosurfactant, organic acid, phosphatase and urease) potentially were used for pollutants bioremediation.

Microbial community profiles in soils adjacent to mining and smelting areas: Contrasting potentially toxic metals and co-occurrence patterns

Mining and smelting activities have introduced severe potentially toxic metals (PTMs) contamination into surrounding soil settings. Influences of PTMs on microbial diversity have been widely studied. However, variations of microbial communities, network structures and community functions in different levels of PTMs contaminated soils adjacent to mining and smelting aera are still poorly investigated. In this study, microbial communities of soils around different levels of PTMs contamination were comprehensively studied by 16S rRNA gene amplicons high-throughput sequencing. Microbial interactions and module functions were also exploited to ascertain the discrepancies of PTMs concentration levels on microbial ecological functions. Results indicated that the microbial community composition was significantly distinct attributed to the phylum Protebacteria (p = 0.002) dominating in soil with high level PTMs contents but Actinobacteria (p = 0.002) in low level of PTMs-contaminated soil. Microbial α diversity was not significantly influenced by different levels of PTMs contaminations. Microorganisms proactively responded to PTMs content levels by means of strengthening network complexities and modularities among microbe-microbe interactions. The functions of main network modules were predicted associating membrane transport, amino acid metabolism, energy metabolism and carbohydrate metabolism. The PTMs detoxification and anti-oxidation were significantly strengthened at the high level of PTMs contamination. The present study demonstrated that modification of microbial community by the adaptive adjustment of microbial compositions and strengthening their network complexity and modularity.

Responses of soil microbial community to combination pollution of galaxolide and cadmium

The goal of this work was to assess the effect of combined pollution of galaxolide (HHCB) and cadmium (Cd) on soil microbial community as measured by phospholipid fatty acid (PLFA). Combined effects of HHCB and Cd were different from that of HHCB alone. The total microbial biomass increased with the concentrations of HHCB in both the single and combined treatments. Comparing to the single HHCB treatments, addition of Cd significantly reduced both the total microbial biomass and Gram-positive/Gram-negative bacteria (G+/G-) ratio, while increased the bacteria/fungi (B/F) ratio in the combined pollution treatments. The principal component analysis (PCA) revealed that the microbial community structure was significantly altered by the combined effects of HHCB and Cd. Results of redundancy analysis (RDA) showed that there was complex relationship between pollutant and microbial community and the combined effects was higher than the single pollution. Taken together, these results suggest that combined pollution of HHCB and Cd caused a greater influence on the soil microbial community than the single pollution of HHCB.

Energetic Value of Elymus elongatus L. and Zea mays L. Grown on Soil Polluted with Ni2+, Co2+, Cd2+, and Sensitivity of Rhizospheric Bacteria to Heavy Metals

Plants, and microorganisms associated with them, offer an effective tool for removing pollutants, such as heavy metals, from the soil environment. The aim of this study was to determine changes caused by Ni2+, Co2+, and Cd2+ in the genetic diversity of soil-populating bacteria and the effect these heavy metals on the heating value of elongated coach grass (Elymus elongatus L.) and maize (Zea mays L.). Microorganisms support plants in removing heavy metals from soil. These plants can then be used for energetic purposes. The study aim was accomplished by determining counts of microorganisms and their resistance (RS) to Ni2+, Co2+, Cd2+, their colony development index (CD), ecophysiological diversity index (EP), and diversity established with the next generation sequencing (NGS) method. Further analyses aimed to establish test plants resistance to pollution with heavy metals and their heating value. Organotrophic bacteria turned out to be the most resistant to Co2+, whereas actinobacteria—to Cd2+ effects. At all taxonomic levels, the genetic diversity of bacteria was most adversely influenced by Cd2+ in the soil sown with Zea mays L. Bacteria belonging to Arthrobacter, Rhodoplanes, Kaistobacter, Devosia, Phycicoccus, and Thermomonas genera showed high tolerance to soil pollution with Ni2+, Co2+, and Cd2+, hence they should be perceived as potential sources of microorganisms useful for bioaugmentation of soils polluted with these heavy metals. Ni2+, Co2+, and Cd2+ had no effect on the heating value of Elymus elongatus L. and Zea mays L. The heating value of 1 kg of air-dry biomass of the tested plants was relatively high and ranged from 14.6 to 15.1 MJ. Elymus elongatus L. proved more useful in phytoremediation than Zea mays L.

Field study on the soil bacterial associations to combined contamination with heavy metals and organic contaminants

The understanding of soil microbial associations to combined contamination would substantially benefit the restoration of damaged ecosystems, which is currently limited at the field scale. In this study, we investigated the soil bacterial associations to combined contamination with metals (Cd, Cu, Hg, Pb, and Zn), polyaromatic hydrocarbons (PAHs), and polybrominated diphenyl ethers (PBDEs). Samples were collected from field sites under five land-use patterns with electronic waste recycling. Results showed that the contents of Cd (0.22-12.86 mg/kg), Cu (17-14,136 mg/kg), Pb (4.6-77,014 mg/kg), Hg (0.28-22 mg/kg), Zn (26-42,495 mg/kg), PAHs (4.6-1753 μg/kg), and PBDEs (1.9-1079 μg/kg) varied significantly across sites. We observed positive correlations between catalase activity and heavy metals, indicative of a resistance response to the oxidative stress induced by metals. Furthermore, the bacterial community diversity was found to be determined primarily by PBDEs, whereas acenaphthylene, available phosphorus, and 2,2',3,3',4,5,6-heptabrominated diphenyl ether (BDE-183) were the three major drivers affecting community composition. The co-occurrence network constructed for bacterial communities exposed to combined contamination was non-random with scale-free, small-world and modularity features. We further proposed functional roles of the modules including stress resistance, hydrocarbon degradation, and nutrient cycling. Overall, the findings of redundancy analysis, variation partition analysis and the co-occurrence network indicated that soil bacterial community under combined contamination cooperated to survive. Members including Rhodoplanes and Nitrospira were capable of degrading PAHs and PBDEs in various pathways, while others, including Acinetobacter, Citrobacter, and Pseudomonas, reduced the metal toxicity to the community. Our findings provide new insights into the responses of soil bacteria, particularly in terms of inter-specific relationships, under combined contamination at the field scale.

Microbial community diversity and composition in river sediments contaminated with tetrabromobisphenol A and copper

The microbial community composition in aquatic ecosystems have received increased attention. However, the knowledge gap relative to the responses of bacterial, archaeal and fungal communities in co-contaminated river sediments remain poorly studied. Here, we investigated the changes of tetrabromobisphenol A (TBBPA) and copper (Cu) concentrations and the responses of microbial communities in co-contaminated sediments during long-term incubation. TBBPA concentrations significantly decreased over time, whereas Cu concentrations remained relatively stable over the 60-day incubation. Abundances of the bacterial 16S rRNA, archaeal 16S rRNA and fungal ITS genes ranged from 6.53 × 10⁶ to 1.26 × 10⁹ copies g^-1, 1.12 × 10⁶ to 5.47 × 10⁶ copies g^-1 and 5.33 × 10³ to 7.51 × 10⁴ copies g^-1 in the samples, respectively. A total of 11, 6 and 5 bacterial, archaeal and fungal phyla were identified across all samples. Bacterial, archaeal and fungal communities mainly consisted of members from the phyla Proteobacteria and Acidobacteria, Methanomicrobia and Woesearchaeia as well as Agaricales and Helotiales, respectively. Fungal communities showed a stronger response to pollutant addition after a long incubation compared with bacterial and archaeal communities. The variance analysis results revealed that the bacterial, archaeal and fungal microbial communities of all treatments were distinctly distributed into two separated clusters according to incubation time. However, the three microbial communities did not significantly change in response to pollutant types, which was consistent with variation in relative abundances of the three microbial communities. These findings improve our understanding of the ecotoxicological effects of co-exposure on sediment microbial communities.

Identifying the Specific Root Microbiome of the Hyperaccumulator Noccaea brachypetala Growing in Non-metalliferous Soils

Noccaea brachypetala is a close relative of Noccaea caerulescens, a model plant species used in metal hyperaccumulation studies. In a previous survey in the Catalan Pyrenees, we found two occidental and two oriental N. brachypetala populations growing on non-metalliferous soils, with accumulated high concentrations of Cd and Zn. Our hypothesis was that the microbiome companion of the plant roots may influence the ability of these plants to absorb metals. We performed high-throughput sequencing of the bacterial and fungal communities in the rhizosphere soil and rhizoplane fractions. The rhizobiomes and shoot ionomes of N. brachypetala plants were analyzed along with those from other non-hyperaccumulator Brassicaceae species found at the same sampling locations. The analyses revealed that microbiome richness and relative abundance tended to increase in N. brachypetala plants compared to non-hyperaccumulator species, regardless of plant location. We confirmed that the root compartment is a key factor in describing the community composition linked to the cohabiting Brassicaceae species, and the rhizoplane fraction contained the specific and rare taxa associated with each species. N. brachypetala plants harbored a similar relative abundance of fungi compared to the other plant hosts, but there was a notable reduction in some specific taxa. Additionally, we observed an enrichment in the hyperaccumulator rhizoplane of previously described metal-tolerant bacteria and bacteria involved in nitrogen cycling. The bacteria involved in the nitrogen cycle could contribute indirectly to the hyperaccumulator phenotype by improving soil quality and fertility. Our results indicate that N. brachypetala captures a particular prokaryotic community from the soil. This particular prokaryotic community may benefit the extraction of metal ions and/or improve plant nutrition. Our research identified satellite groups associated with the root niche of a hyperaccumulator plant that may assist in improving biological strategies in heavy metal remediation.

Heavy Metal Tolerance Genes Associated With Contaminated Sediments From an E-Waste Recycling River in Southern China

Heavy metal pollution that results from electronic waste (e-waste) recycling activities has severe ecological environmental toxicity impacts on recycling areas. The distribution of heavy metals and the impact on the bacteria in these areas have received much attention. However, the diversity and composition of the microbial communities and the characteristics of heavy metal resistance genes (HMRGs) in the river sediments after long-term e-waste contamination still remain unclear. In this study, eight river sediment samples along a river in a recycling area were studied for the heavy metal concentration and the microbial community composition. The microbial community consisted of 13 phyla including Firmicutes (ranging from 10.45 to 36.63%), Proteobacteria (11.76 to 32.59%), Actinobacteria (14.81 to 27.45%), and unclassified bacteria. The abundance of Firmicutes increased along with the level of contaminants, while Actinobacteria decreased. A canonical correspondence analysis (CCA) showed that the concentration of mercury was significantly correlated with the microbial community and species distribution, which agreed with an analysis of the potential ecological risk index. Moreover, manually curated HMRGs were established, and the HMRG analysis results according to Illumina high-throughput sequencing showed that the abundance of HMRGs was positively related to the level of contamination, demonstrating a variety of resistance mechanisms to adapt, accommodate, and live under heavy metal-contaminated conditions. These findings increase the understanding of the changes in microbial communities in e-waste recycling areas and extend our knowledge of the HMRGs involved in the recovery of the ecological environment.

Insights into the Occurrence, Fate, and Impacts of Halogenated Flame Retardants in Municipal Wastewater Treatment Plants

Halogenated flame retardants (HFRs) have been extensively used in various consumer products and many are classified as persistent organic pollutants due to their resistance to degradation, bioaccumulation potential and toxicity. HFRs have been widely detected in the municipal wastewater and wastewater treatment solids in wastewater treatment plants (WWTPs), the discharge and agricultural application of which represent a primary source of environmental HFRs contamination. This review seeks to provide a current overview on the occurrence, fate, and impacts of HFRs in WWTPs around the globe. We first summarize studies recording the occurrence of representative HFRs in wastewater and wastewater treatment solids, revealing temporal and geographical trends in HFRs distribution. Then, the efficiency and mechanism of HFRs removal by biosorption, which is known to be the primary process for HFRs removal from wastewater, during biological wastewater treatment processes, are discussed. Transformation of HFRs via abiotic and biotic processes in laboratory tests and full-scale WWTPs is reviewed with particular emphasis on the transformation pathways and functional microorganisms responsible for HFRs biotransformation. Finally, the potential impacts of HFRs on reactor performance (i.e., nitrogen removal and methanogenesis) and microbiome in bioreactors are discussed. This review aims to advance our understanding of the fate and impacts of HFRs in WWTPs and shed light on important questions warranting further investigation.

Insight Into Microbial Community Aerosols Associated With Electronic Waste Handling Facilities by Culture-Dependent and Culture-Independent Methods

Airborne microorganisms in the waste associated environments are more active and complex compared to other places. However, the diversity and structure of airborne bacteria in waste-associated environments are still not clearly understood. The purpose of this study was to assess airborne bacterial community in electronic waste dismantling site and a waste transfer station based on culture-dependent and culture-independent methods. A total of 229 isolates were obtained from four airborne sites collected from residential area, electronic industrial park, and office area in or near an electronic waste dismantling site and a waste transfer station in Southern China in the morning, afternoon, and evening. Most of the isolates were isolated from air for the first time and 14 potentially novel species were identified by Sanger sequencing. Bacterial communities in waste-associated bioaerosols were predominated by Proteobacteria and Bacteroidetes. Abundant genera (>1%) included Paracaedibacteraceae (uncultured EF667926), Ralstonia, Chroococcidiopsis, Chitinophagaceae (uncultured FN428761), Sphingobium, and Heliimonas. One-third of the species in these genera were uncultured approximately. Differences community structure existed in airborne bacterial diversity among different sampling sites. These results showed that waste-associated environments have unique bacterial diversity. Further studies on such environments could provide new insights into bacterial community.

Microbial structure and diversity in non-sanitary landfills and association with physicochemical parameters

This study assessed the bacterial populations in a non-sanitary landfill around Guarani Aquifer recharge zone in Brazil. Samples from two different positions (sites 1 and 2) at three different depths were evaluated, totaling six solid waste samples; two samples from an impacted stream were also collected. 16S rRNA sequencing was performed using the Ion S5TM XL platform; 3113 operational taxonomic units (OTUs) and 52 phyla were identified. Proteobacteria (37%) and Firmicutes (28%) were the most abundant phyla in the landfill, whereas Proteobacteria (~ 50%) and Bacteroidetes (~ 10%) were more profuse in surface water samples. Canonical correlation analysis (CCA) enabled us to clearly separate the samples according to their spatial location (site 1 or 2) or environmental matrix (surface water or solid waste samples), showing that microbiological populations are strongly associated with site-specific conditions and the kind of environmental matrix they come from. Environmental factors that mostly influenced the microbial communities were organic matter, oxidation-reduction potential, moisture, alkalinity, nitrogen (TKN), sodium, potassium, and zinc. Exiguobacterium (phylum Firmicutes) was overwhelmingly dominant at site 1 and was associated with higher concentrations of organic matter and potassium. Differently, site 2 did not present such dominant genera and was more diverse having lower concentrations of organic matter and nutrients. Distinct environments co-exist inside the same waste deposit, including zones which are representative of active and closed landfills and the occurrence of considerable physicochemical and microbiological shifts within short distances. Those shifts indicate that microbial populations are well adapted to the heterogeneity typical of urban solid waste, which is possibly beneficial to contaminant degradation. Graphical abstract.

Spatial Distribution of Toxic Metal(loid)s and Microbial Community Analysis in Soil Vertical Profile at an Abandoned Nonferrous Metal Smelting Site

In this study soils at different depths were collected in a Zn smelting site located in Zhuzhou City, China, in order to understand toxic metal(loid)s distribution and microbial community in vertical soil profile at a smelting site. Except Soil properties and metal(loid)s content, the richness and diversity of microbial communities in soil samples were analyzed via high-throughput Illumina sequencing of 16s rRNA gene amplicons. The results showed that the content of As, Pb, Cu, Cd, Zn, and Mn was relatively high in top soil in comparison to subsoil, while the concentration of Cr in subsoil was comparable with that in top soil due to its relative high background value in this soil layer. The bioavailability of Cd, Mn, Zn, and Pb was relative higher than that of As, Cr, and Cu. The diversity of soil microbial communities decreased with increasing depth, which might be ascribed to the decrease in evenness with increase in depth duo to the influence by environmental conditions, such as pH, TK (total potassium), CEC (cation exchange capacity), ORP (oxidation reduction potential), and Bio-Cu (bioavailable copper). The results also found Acidobacteria, Proteobacteria, Firmicutes, and Chloroflexi were dominant phyla in soil samples. At the genus level, Acinetobacter, Pseudomonas, and Gp7 were dominant soil microorganism. Besides, Environmental factors, such as SOM (soil organic matter), pH, Bio-Cu, Bio-Cd (bioavailable cadmium), and Bio-Pb (bioavailable lead), greatly impacted microbial community in surface soil (1-3 m), while ORP, TK, and AN concentration influenced microbial community in the subsoil (4-10 m).

First report on polybrominated diphenyl ethers in the Iranian Coral Islands: Concentrations, profiles, source apportionment, and ecological risk assessment

Coral reefs are challenged by multiple stressors due to the growing industrialization. Despite that, data on their environment are still scarce, and no research is yet performed on polybrominated diphenyl ethers in the Persian Gulf area. Seeking to fill in this gap, the present study aims to determine spatio-vertical distributions, source apportionment and ecological risk of polybrominated diphenyl ethers in the sediment cores and seawater samples from ten coral reef Islands in the Persian Gulf, Iran. Σ₁₂PBDEs concentrations ranged from 0.42 ± 0.04 to 47.14 ± 1.35 ng g^-1 dw in sediments, and from 1.17 ± 0.06 to 7.21 ± 1.13 ng L^-1 in seawater. The vertical polybrominated diphenyl ethers distribution varied significantly among the sampling stations and different depths with a decreasing trend towards the surface and peaks around 12-20 cm. Both in the seawater and sediment samples, elevated polybrominated diphenyl ethers loadings were observed in highly industrialized areas. Deca-bromodiphenyl ether-209 was the predominant congener along the sediment cores, whereas Tetra-bromodiphenyl ether-47 and Penta-bromodiphenyl ether-100 dominated in seawater samples. Commercial Deca-bromodiphenyl ether mixture was found to be the major source of polybrominated diphenyl ethers. Penta-bromodiphenyl ether was revealed to be the major ecological risk driver in the study area: it posed medium to high-risk quotient to sediment dwelling organisms. This study indicated that coral reefs are playing an important role in retaining polybrominated diphenyl ethers and highlighted the need to manage polybrominated diphenyl ethers contamination in the coral reef environment.

Distributions of chlorinated paraffins and the effects on soil microbial community structure in a production plant brownfield site

The distributions of chlorinated paraffins (CPs) in soils and their ecological effects attract much attention, while site-scale data are still scarce. In this study, a comprehensive investigation was performed to understand the CP distributions at a CP production plant brownfield site, as well as their effects on soil microbial community. Short-, medium- and long-chain CPs (SCCPs, MCCPs, LCCPs) were detected in most samples with total contents ranging ND-5,090, ND-6,670, and ND-1450 ng g^-1 (dw), respectively. A CP-hotspot was observed 10 m beneath the synthesis workshop, indicating the downward migration of CPs. The consistence of soil SCCP congener profiles with commercial product CP-52 suggested the leakage of CP products as the contamination source. Besides CPs, petroleum hydrocarbons (PHC) contamination also occurred beneath the synthesis workshop. Soil microbial community composition and diversity were significantly influenced by SCCPs (p < 0.05) despite their lower contents compared to other concerned contaminants. Microbial network analysis indicated nonrandom co-occurrence patterns, with Acinetobacter, Brevibacterium, Corynebacterium, Microbacterium, Stenotrophomonas, and Variibacter as the keystone genera. Genera from the same module showed significant ecological links (p < 0.05) and were involved in the degradation of PHCs and chlorinated organic contaminants. This study provides the first phylogenetic look at the microbial communities in CP contaminated soils, indicating that the long-term exposure to CPs and PHCs may lead to microbial group assemblages with the potential for degradation.

Assessing microbial degradation degree and bioavailability of BDE-153 in natural wetland soils: Implication by compound-specific stable isotope analysis

Microbial degradation is an important pathway for the attenuation of polybrominated diphenyl ethers (PBDEs) in natural soils. In this study, the compound-specific stable isotope analysis (CSIA) was applied to characterize microbial degradation of BDE-153, one of the prevailing and toxic PBDE congeners, in natural wetland soils. During the 45-day incubation, the residual percentages of BDE-153 decreased to 67.9% and 73.6% in non-sterilized soils spiked with 1.0 and 5.0 μg/g, respectively, which were both much lower than those in sterilized soils (96.0% and 97.2%). This result indicated that microbial degradation could accelerate BDE-153 elimination in wetland soils. Meanwhile, the significant carbon isotope fractionation was observed in non-sterilized soils, with δ¹³C of BDE-153 shifting from -29.4‰ to -26.7‰ for 1.0 μg/g and to -27.2‰ for 5.0 μg/g, respectively, whilst not in sterilized soils. This phenomenon indicated microbial degradation could induce stable carbon isotope fractionation of BDE-153. The carbon isotope enrichment factor (ε_c) for BDE-153 microbial degradation was first determined as -7.58‰, which could be used to assess the microbial degradation and bioavailability of BDE-153 in wetland soils. Based on δ¹³C and ε_c, the new methods were developed to dynamically and quantitatively estimate degradation degree and bioavailability of BDE-153 during degradation process, respectively, which could exclude interference of physical processes. This work revealed that CSIA was a promising method to investigate in situ microbial degradation of PBDEs in field studies.

pH dependence of the non-cooperative binding of Bi3+ to human apo-metallothionein 1A: kinetics, speciation, and stoichiometry

ESI-MS along with cysteine modification show that the binding of Bi³⁺ to apo-metallothionein is non-cooperative with a coordination of BiS(cys)₃ up to Bi₆MT. Stopped flow kinetics reveal that the rate of binding depends on the pH and the Bi³⁺ anion.