Interactions between plant and rhizosphere microbial communities in a metalliferous soil

Activation and tolerance of Siegesbeckia Orientalis L. rhizosphere to Cd stress

This experiment investigated the changes of rhizosphere soil microenvironment for hyperaccumulation-soil system under Cd stress in order to reveal the mechanism of hyperaccumulation and tolerance. Thus, Cd fractions, chemical compositions, and biochemical characteristics in rhizosphere soil of Siegesbeckia orientalis L. under Cd stress conditions of 0, 5, 10, 25, 50, 100, and 150 mg kg-1 were investigated through a root bag experiment, respectively. As a result, Cd induced the acidification of S. orientalis rhizosphere soil, and promoted the accumulation of dissolved organic carbon (DOC) and readily oxidizable organic carbon (ROC), which increased by 28.39% and 6.98% at the maximum compared with control. The percentage of labile Cd (acid-soluble and reducible Cd) in soil solution increased significantly (P < 0.05) from 31.87% to 64.60% and from 26.00% to 34.49%, respectively. In addition, rhizosphere microenvironment can alleviate the inhibition of Cd on soil microorganisms and enzymes compare with bulk soils. Under medium and low concentrations of Cd, the rhizosphere soil microbial biomass carbon (MBC), basal respiration, ammonification and nitrification were significantly increased (P < 0.05), and the activities of key enzymes were not significantly inhibited. This suggests that pH reduction and organic carbon (DOC and ROC) accumulation increase the bioavailability of Cd and may have contributed to Cd accumulation in S. orientalis. Moreover, microorganisms and enzymes in rhizosphere soils can enhance S. orientalis tolerance to Cd, alleviating the nutrient imbalance and toxicity caused by Cd pollution. This study revealed the changes of physicochemical and biochemical properties of rhizosphere soil under Cd stress. Rhizosphere soil acidification and organic carbon accumulation are key factors promoting Cd activation, and microorganisms and enzymes are the responses of Cd tolerance.

Responses of rhizosphere bacterial communities in newly reclaimed mudflat paddies to rice genotype and nitrogen fertilizer rate

The rhizosphere microbiome plays a vital role in crop growth and adaptation. However, the effects of rice genotype, nitrogen (N) fertilization, and their interactions on the rhizosphere bacterial communities in low fertility soil remain poorly understood. In this study, a two-factor field experiment was performed in newly reclaimed mudflat paddies characterized by poor fertility to analyze bacterial communities in the rhizosphere of Yongyou 2640 (japonica/indica hybrid rice, JIH) and Huaidao No.5 (japonica conventional rice, JC) under different N fertilizer rates. Results showed that genotype, followed by N fertilizer rate, was the primary factor affecting rhizobacteria diversity. Rhizobacteria diversity was higher in JIH than in JC and that of JIH and JC did not significantly change overall as N fertilizer rates but increased and decreased at N fertilizer rates of over 300 kg N ha^-1, respectively. The inconsistent response was probably attributed to the difference in the increase of ammonium and/or nitrate in the rhizosphere of JIH and JC. Genotype explained approximately 26% of the variation in rhizosphere bacterial communities. Rhizosphere bacterial communities with N fertilizer rates of over 300 kg N ha^-1 were more dissimilar to those without N fertilization relative to those with N fertilizer rates of below 300 kg N ha^-1, which was mainly attributed to changes in the concentration of ammonium and/or nitrate. The relative abundances of some potential beneficial genera such as Salinimicrobium, Salegentibacter, Gillisia, and Anaerolinea in the rhizosphere of JC and Salegentibacter, Lysobacter, Nocardioides, and Pontibacter in the rhizosphere of JIH were increased under N fertilizer rates of less than 300 kg N ha^-1 and positively correlated with rice yields, which indicate that changes in bacterial communities caused by N fertilization might be strongly associated with the improvement of rice yield. Overall, rhizosphere bacterial communities were more sensitive to genotype in newly reclaimed mudflat paddies and showed a consistent response to N fertilizer rates.

Impact of physiochemical properties, microbes and biochar on bioavailability of toxic elements in the soil: a review

The pollution of toxic elements (TEs) in the ecosystem exhibits detrimental effects on the human health. In this paper, we debated remediation approaches for TEs polluted soils via immobilization methods employing numerous amendments with reverence to type of soil and metals, and amendment, immobilization competence, fundamental processes and field applicability. We argued the influence of pH, soil organic matter, textural properties, microbes, speciation and biochar on the bioavailability of TEs. All these properties of soil, microbes and biochar are imperative for effective and safe application of these methods in remediation of TEs contamination in the ecosystem. Further, the application of physiochemical properties, microbes and biochar as amendments has significant synergistic impacts not only on absorption of elements but also on diminution of toxic elements.

Possible effects of temperature on bacterial communities in the rhizosphere of rice under different climatic regions

Global warming is an indisputable fact. However, the effect of warming on the rhizosphere bacterial community of crops is not well understood. Therefore, we carried out pot experiments with three rice (Oryza sativa L.) varieties in black soil across three climatic regions of northeast China to simulate temperature change, and analyzed the response of the rhizosphere bacterial community to different temperatures. Results showed that climate had stronger effects on rhizosphere bacterial communities than rice variety. The rhizosphere bacterial diversity differed significantly among the three climatic regions and positively correlated with the mean daily average temperature (MAveT), mean daily maximum temperature (MMaxT), and mean daily minimum temperature (MMinT), and negatively correlated with the daily temperature range (DTR). Principal co-ordinate analysis revealed that bulk soil bacterial communities maintained a high similarity across the three climatic regions, while rhizosphere bacterial communities notably varied. This change was significantly correlated with MAveT, MMaxT, MMinT, and DTR. Compared with bulk soil, Proteobacteria and Bacteroidetes were enriched in the rhizosphere, while Actinobacteria was depleted. Moreover, these changes were strengthened by increasing the temperature and decreasing DTR. Additionally, correlation analysis revealed that changes in rhizosphere bacterial communities were closely related to the formation of rice yields. Our study revealed that the increasing temperature indirectly reshapes the rhizosphere bacterial community that may promote rice production in areas with lower temperatures.

Succession Pattern in Soil Micro-Ecology Under Tobacco (Nicotiana tabacum L.) Continuous Cropping Circumstances in Yunnan Province of Southwest China

Continuous cropping obstacle (CCO) is a common phenomenon in agricultural production and extremely threatens the sustainable development of agriculture. To clarify the potential keystone factors causing tobacco (Nicotiana tabacum L.) CCO, tobacco plants, topsoil, and rhizosphere soil were sampled from the fields with no, slight, and severe tobacco disease in Dali and Yuxi of Yunnan province in China. The physicochemical properties of topsoil and rhizosphere soil, the phenolic acids (PAs) contents in rhizosphere soil, and elemental contents in topsoil, rhizosphere soil, and tobacco plants were analyzed. Microbial diversity in rhizosphere soil was determined by the metagenomic sequencing method. The results showed that soil pH, texture, cation exchange capacity, organic matter, TC, TN, and available K contents showed a significant difference (p < 0.05) in soil physicochemical properties. There was a deficiency of B, K, Mg, and Mn contents in soil and/or tobacco plants. The contents of PAs, especially syringic acid in rhizosphere soil, varied significantly among the three sampling groups (p < 0.05). Meanwhile, microbial communities and functional genes changed from beneficial to harmful, showing an intimate correlation with soil pH and syringic acid content. It can be concluded that tobacco CCO could be allocated to the imbalance of soil micro-ecology, which possessed a regional feature at the two sampling sites.

Effect of the natural establishment of two plant species on microbial activity, on the composition of the fungal community, and on the mitigation of potentially toxic elements in an abandoned mine tailing

In Mexico, millions of tons of mining wastes are deposited in the open pit. Their content in potentially toxic elements (PTE) represents an environmental risk. In the tailings, pioneer plant communities are established, associated with a determined diversity of fungi; plants, and fungi are fundamental in the natural rehabilitation of mining wastes. The objective was to evaluate the impact of the natural establishment of two plant species on the microbial activity, on the composition of the fungal community, and on the mitigation of the effect of PTE in a contaminated mine tailing. In a tailing, we selected three sites: one non-vegetated; one vegetated by Reseda luteola, and one vegetated by Asphodelus fistulosus. In the substrates, we conducted a physical and chemical characterization; we evaluated the enzymatic activity, the mineralization of the carbon, and the concentration of PTE. We also determined the fungal diversity in the substrates and in the interior of the roots, and estimated the accumulation of carbon, nitrogen, phosphorus and PTE in plant tissues. The tailings had a high percentage of sand; the non-vegetated site presented the highest electric conductivity, and the plant cover reduced the concentration of PTE in the substrates. Plants increased the carbon content in tailings. The enzymatic activities of β-glucosidase and dehydrogenase, and the mineralization of carbon were highest at the site vegetated with A. fistulosus. Both plant species accumulated PTE in their tissues and exhibited potential in the phytoremediation of lead (Pb), cadmium (Cd), and copper (Cu). Fungal diversity was more elevated at the vegetated sites than in the bare substrate. Ascomycota prevailed in the substrates; the substrates and the plants shared some fungal taxa, but other taxa were specific. The plant coverage and the rhizosphere promoted the natural attenuation and a rehabilitation of the extreme conditions of the mining wastes, modulated by the plant species.

Pollution Gradients Altered the Bacterial Community Composition and Stochastic Process of Rural Polluted Ponds

Understanding the effects of pollution on ecological communities and the underlying mechanisms that drive them will helpful for selecting a method to mediate polluted ecosystems. Quantifying the relative importance of deterministic and stochastic processes is a very important issue in ecology. However, little is known about their effects on the succession of microbial communities in different pollution levels rural ponds. Also, the processes that govern bacterial communities in polluted ponds are poorly understood. In this study, the microbial communities in water and sediment from the ponds were investigated by using the 16S rRNA gene high-throughput sequencing technology. Meanwhile, we used null model analyses based on a taxonomic and phylogenetic metrics approach to test the microbial community assembly processes. Pollution levels were found to significantly alter the community composition and diversity of bacteria. In the sediment samples, the bacterial diversity indices decreased with increasing pollutant levels. Between-community analysis revealed that community assembly processes among water and sediment samples stochastic ratio both gradually decreased with the increased pollution levels, indicating a potential deterministic environmental filtering that is elicited by pollution. Our results identified assemblage drivers of bacterial community is important for improving the efficacies of ecological evaluation and remediation for contaminated freshwater systems.

Long-term phytomanagement with compost and a sunflower - Tobacco rotation influences the structural microbial diversity of a Cu-contaminated soil

At a former wood preservation site contaminated with Cu, various phytomanagement options have been assessed in the last decade through physicochemical, ecotoxicological and biological assays. In a field trial at this site, phytomanagement with a crop rotation based on tobacco and sunflower, combined with the incorporation of compost and dolomitic limestone, has proved to be efficient in Cu-associated risk mitigation, ecological soil functions recovery and net gain of economic and social benefits. To demonstrate the long-term effectiveness and sustainability of phytomanagement, we assessed here the influence of this remediation option on the diversity, composition and structure of microbial communities over time, through a metabarcoding approach. After 9 years of phytomanagement, no overall effect was identified on microbial diversity; the soil amendments, notably the repeated compost application, led to shifts in soil microbial populations. This phytomanagement option induced changes in the composition of soil microbial communities, promoting the growth of microbial groups belonging to Alphaproteobacteria, many being involved in N cycling. Populations of Nitrososphaeria, which are crucial in nitrification, as well as taxa from phyla Planctomycetacia, Chloroflexi and Gemmatimonadetes, which are tolerant to metal contamination and adapted to oligotrophic soil conditions, decreased in amended phytomanaged plots. Our study provides an insight into population dynamics within soil microbial communities under long-term phytomanagement, in line with the assessment of soil ecological functions and their recovery.

Distribution of microbial communities in metal-contaminated nearshore sediment from Eastern Guangdong, China

Nearshore environments are a critical transitional zone that connects the marine and terrestrial/freshwater ecosystems. The release of anthropogenic chemicals into nearshore ecosystems pose a human and environmental health risk. We investigated the microbial diversity, abundance and function in metal-contaminated sediments collected from the Rongjiang, Hanjiang and Lianjiang River estuaries and adjacent coastal areas using high throughput sequencing. The concentration of nutrients (NO₃-N, NO₂-N, NH₄-N, PO₄-P) and metal (Cu, Zn, Cd, Pb, As, Hg) contaminants were higher at the mouth of the rivers compared to the coastal lines, and this was confirmed using cluster analysis. Estimates obtained using geoaccumulation index showed that about 38.9% of the sites were contaminated with Pb and the pollution load index showed that sediment from the mouth of Hanjiang River Estuary was moderately polluted with metals. In the nearshore sediment samples collected, Proteobacteria, Bacteroidetes, Planctomycetes, Chloroflexi, Acidobacteria were the dominant phylum with relative abundances of 46.6%, 8.05%, 6.47%, 5.26%, and 4.59%, respectively. There was no significant correlation between environmental variables and microbial abundance and diversity except for total organic carbon (TOC) (diversity; r = 0.569, p < 0.05) and Cr (diversity; r = 0.581, p < 0.05). At phyla level, Nitrospirae had a significant negative correlation with all metals except Cr, while OD1 had a significant positive correlation with all the metals. Overall, changes in nearshore sediment microbial communities by environmental factors were observed, and these may affect biogeochemical cycling.

Effects of tree-herb co-planting on the bacterial community composition and the relationship between specific microorganisms and enzymatic activities in metal(loid)-contaminated soil

Tree-herb co-planting is regarded as an ecologically sustainable approach for the remediation of metal(loid)-contaminated soil. In this study, two herb species, Pteris vittata L. and Arundo donax L., and two woody species, Morus alba L. and Broussonetia papyrifera L., were selected for the tree-herb co-planting, and their impacts on the changing of microbial community structure in metal(loid)-contaminated soil were studied by high-throughput sequencing. The results showed that the microbial diversity was stably maintained by the tree-herb interactions, while the composition of the microbial community was clearly affected in metal(loid)-contaminated soil. According to the Venn and flower diagrams, heat map and principal coordinate analysis, both plant monocultures and co-planting had specific microbial community structures, which suggested that the composition and abundance of bacterial communities varied between plant monoculture and tree-herb co-planting treatments. In particular, A. donax L. played a vital role in increasing the abundances of Cyanobacteria (>1%) in metal(loid)-contaminated soil when co-planted with woody plants. Furthermore, some specific microorganisms combined with plants played a key role in improving enzyme activity in the contaminated soil. Correspondingly, sucrase and acid phosphatase activities in monoculture and co-planting treatments significantly (p < 0.05) increased by 1.05-3.37 and 7.24-20.3 times. These results indicated that the rhizospheric interactions in the tree-herb co-planting system positively affected the soil microbes and had stronger impacts on the composition of soil microorganisms, which was closely related to the improvement of the biological quality in the metal(loid)-contaminated soil.

Effect of Liming with Various Water Regimes on Both Immobilization of Cadmium and Improvement of Bacterial Communities in Contaminated Paddy: A Field Experiment

Cadmium (Cd) in paddy soil is one of the most harmful potentially toxic elements threatening human health. In order to study the effect of lime combined with intermittent and flooding conditions on the soil pH, Cd availability and its accumulation in tissues at the tillering, filling and maturity stages of rice, as well as enzyme activity and the microbial community in contaminated soil, a field experiment was conducted. The results showed that liming under flooding conditions is a more suitable strategy for in situ remediation of Cd-contaminated paddy soil than intermittent conditions. The availability of Cd in soils was closely related to the duration of flooding. Liming was an effective way at reducing available Cd in flooding soil because it promotes the transformation of Cd in soil from acid-extractable to reducible fraction or residual fraction during the reproductive growth period of rice. Compared with control, after liming, the concentration of Cd in brown rice was reduced by 34.9% under intermittent condition while reduced by 55.8% under flooding condition. Meanwhile, phosphatase, urease, and invertase activities in soil increased by 116.7%, 61.4% and 28.8%, and 41.3%, 46.5% and 20.8%, respectively. The high urease activity in tested soils could be used to assess soil recovery with liming for the remediation of contaminated soil. Soil microbial diversity was determined by the activities of soil acid phosphatase, urease and available Cd by redundancy analysis (RDA). The results indicated that the problem of Cd-contaminated paddy soil could achieve risk control of agricultural planting by chemical treatment such as lime, combined with various water regimes.

Spatial heterogeneity of heavy metal contamination in soils and plants in Hefei, China

The contamination of soil and plants with heavy metals, which has detrimental influences on plant growth, water purification, and food safety, has emerged as a serious global issue. To better understand the spatial variations of contamination of heavy metals associated city development and land use types, we collected soil samples and Magnolia grandiflora branches to quantify lead (Pb) and cadmium (Cd) contents of the roadside, industrial, residential, and park greenbelts in Hefei City, China. We found that Pb content in soil was the highest in roadside greenbelts and the lowest in parks with industrial and residential greenbelts being intermediate, while Cd in soil was the highest in greenbelts close to city center and decreased with the distance to city center. Pb in M. grandiflora, however, did not differ among greenbelt types but decreased with distance to the city center. Cd in M. grandiflora was the highest in roadside and lowest in parks and also decreased with the distance to the city center. Across all greenbelt types and the distances to the city center, Pb and Cd contents were positively correlated in soil and plants. Our findings suggest that vehicle traffic, population density, and age of urbanization collectively contribute to soil and plant contamination of Pb and Cd.

Soil acidification amendments change the rhizosphere bacterial community of tobacco in a bacterial wilt affected field

Application of soil amendments has been wildly used to increase soil pH and control bacterial wilt. However, little is known about causal shifts in the rhizosphere microbial community of crops, especially when the field naturally harbors the disease of bacterial wilt to tobacco for many years due to long-term continuous cropping and soil acidification. In this study, biochar (CP), lime (LM), oyster shell powder (OS) and no soil amendment additions (Control; CK) were assessed for their abilities to improve the soil acidification, change the composition of rhizosphere soil bacterial communities and thus control tobacco bacterial wilt. The results showed that oyster shell powder significantly increased soil pH by 0.77 and reduced the incidence of tobacco bacterial wilt by 36.67% compared to the control. The Illumina sequencing -based community analysis showed that soil amendment applications affected the composition of rhizosphere bacterial community and increased the richness and diversity. In contrast, the richness and diversity correlated negatively to disease incidence. Using LEfSe analyses, 11 taxa were found to be closely related with disease suppression, in which Saccharibacteria, Aeromicrobium, and Pseudoxanthomonas could be potential indicators of disease suppression. Our results suggested that the suppression of bacterial wilt after the application of soil amendments (especially oyster shell powder) was attributed to the improved soil pH and increased bacterial richness and diversity.

Reduced arsenic availability and plant uptake and improved soil microbial diversity through combined addition of ferrihydrite and Trichoderma asperellum SM-12F1

Arsenic (As) accumulation in agricultural soils is prone to crop uptake, posing risk to human health. Passivation shows potential to inactivate soil labile As and lower crop As uptake but often contributes little to improving the microbiota in As-contaminated soils. Here, the combined addition of ferrihydrite and Trichoderma asperellum SM-12F1 as a potential future application for remediation of As-contaminated soil was studied via pot experiments. The results indicated that, compared with the control treatment, the combined addition of ferrihydrite and T. asperellum SM-12F1 significantly increased water spinach shoot and root biomass by 134 and 138%, respectively, and lowered As content in shoot and root by 37 and 34%, respectively. Soil available As decreased by 40% after the combined addition. The variances in soil pH and As fractionation and speciation were responsible for the changes in soil As availability. Importantly, the combined addition greatly increased the total phospholipid fatty acids (PLFAs) and gram-positive (G+), gram-negative (G-), actinobacterial, bacterial, fungal PLFAs by 114, 68, 276, 292, 133, and 626%, respectively, compared with the control treatment. Correspondingly, the soil enzyme activities closely associated with carbon, nitrogen, and phosphorus mineralization and antioxidant activity were improved. The combination of ferrihydrite and T. asperellum SM-12F1 in soils did not reduce their independent effects.

Phytostabilization potential of ornamental plants grown in soil contaminated with cadmium

In a greenhouse experiment, five ornamental plants, Osmanthus fragrans (OF), Ligustrum vicaryi L. (LV), Cinnamomum camphora (CC), Loropetalum chinense var. rubrum (LC), and Euonymus japonicas cv. Aureo-mar (EJ), were studied for the ability to phytostabilization for Cd-contaminated soil. The results showed that these five ornamental plants can grow normally when the soil Cd content is less than 24.6 mg·kg^-1. Cd was mainly deposited in the roots of OF, LV, LC and EJ which have grown in Cd-contaminated soils, and the maximum Cd contents reached 15.76, 19.09, 20.59 and 32.91 mg·kg^-1, respectively. For CC, Cd was mainly distributed in the shoots and the maximum Cd content in stems and leaves were 12.5 and 10.71 mg·kg^-1, however, the total amount of Cd in stems and leaves was similar with the other ornamental plants. The enzymatic activities in Cd-contaminated soil were benefited from the five tested ornamental plants remediation. Soil urease and sucrase activities were improved, while dehydrogenase activity was depressed. Meanwhile, the soil microbial community was slightly influenced when soil Cd content is less than 24.6 mg·kg^-1 under five ornamental plants remediation. The results further suggested that ornamental plants could be promising candidates for phytostabilization of Cd-contaminated soil.

Ecosystem services and plant physiological status during endophyte-assisted phytoremediation of metal contaminated soil

Mining sites shelter a characteristic biodiversity with large potential for the phytoremediation of metal contaminated soils. Endophytic plant growth-promoting bacteria were isolated from two metal-(hyper)accumulator plant species growing in a metal contaminated mine soil. After characterizing their plant growth-promoting traits, consortia of putative endophytes were used to carry out an endophyte-assisted phytoextraction experiment using Noccaea caerulescens and Rumex acetosa (singly and in combination) under controlled conditions. We evaluated the influence of endophyte-inoculated plants on soil physicochemical and microbial properties, as well as plant physiological parameters and metal concentrations. Data interpretation through the grouping of soil properties within a set of ecosystem services was also carried out. When grown together, we observed a 41 and 16% increase in the growth of N. caerulescens and R. acetosa plants, respectively, as well as higher values of Zn phytoextraction and soil microbial biomass and functional diversity. Inoculation of the consortia of putative endophytes did not lead to higher values of plant metal uptake, but it improved the plants' physiological status, by increasing the content of chlorophylls and carotenoids by up to 28 and 36%, respectively, indicating a reduction in the stress level of plants. Endophyte-inoculation also stimulated soil microbial communities: higher values of acid phosphatase activity (related to the phosphate solubilising traits of the endophytes), bacterial and fungal abundance, and structural diversity. The positive effects of plant growth and endophyte inoculation on soil properties were reflected in an enhancement of some ecosystem services (biodiversity, nutrient cycling, water flow regulation, water purification and contamination control).

Influence of the vegetative cover on the fate of trace metals in retention systems simulating roadside infiltration swales

Large-scale outdoor mesocosms were designed and co-contaminated with metals (Cd, Pb, Zn) and organic compounds to better understand the complex functioning of urban roadside swale environments. Infiltration systems were planted with macrophytes (P. arundinaceae, J. effusus and I. pseudacorus) or grassed, and natural or spiked target metals were monitored over two years. In the non-spiked mesocosms, atmospheric metal inputs were slightly higher than outputs, leading to low metal accumulation in topsoils and to very low outflow water contamination (<0.7% of the initial metal stock). In the spiked infiltration systems that simulated point pollution through water inflow, transfer of the initial stock of metals to the deeper soil layers was quite low and outflow water contamination was very low (<0.6% of the initial stock). The main metal output from these systems occurred in the first days of their installation because of the high metal solubility in water and insufficient plant cover at that time. The infiltration systems stabilized after a few weeks, probably because of stronger sorption to soil aggregates, and because of plant root development. Mephytoextraction in plant roots was more efficient in mesocosms planted with P. arundinacea and grass. Metal phytoextraction in plant aerial parts was also better for grass and P. arundinacea, when considering metal standing stocks instead of their concentration in plants. J. effusus was a good metal accumulator, but its low aboveground biomass development was less favorable to metal removal through harvesting.

Cadmium Bioavailability, Uptake, Toxicity and Detoxification in Soil-Plant System

This review summarizes the findings of the most recent studies, published from 2000 to 2016, which focus on the biogeochemical behavior of Cd in soil-plant systems and its impact on the ecosystem. For animals and people not subjected to a Cd-contaminated environment, consumption of Cd contaminated food (vegetables, cereals, pulses and legumes) is the main source of Cd exposure. As Cd does not have any known biological function, and can further cause serious deleterious effects both in plants and mammalian consumers, cycling of Cd within the soil-plant system is of high global relevance.The main source of Cd in soil is that which originates as emissions from various industrial processes. Within soil, Cd occurs in various chemical forms which differ greatly with respect to their lability and phytoavailability. Cadmium has a high phytoaccumulation index because of its low adsorption coefficient and high soil-plant mobility and thereby may enter the food chain. Plant uptake of Cd is believed to occur mainly via roots by specific and non-specific transporters of essential nutrients, as no Cd-specific transporter has yet been identified. Within plants, Cd causes phytotoxicity by decreasing nutrient uptake, inhibiting photosynthesis, plant growth and respiration, inducing lipid peroxidation and altering the antioxidant system and functioning of membranes. Plants tackle Cd toxicity via different defense strategies such as decreased Cd uptake or sequestration into vacuoles. In addition, various antioxidants combat Cd-induced overproduction of ROS. Other mechanisms involve the induction of phytochelatins, glutathione and salicylic acid.

Phytostabilization of mine tailings using compost-assisted direct planting: Translating greenhouse results to the field

Standard practice in reclamation of mine tailings is the emplacement of a 15 to 90cm soil/gravel/rock cap which is then hydro-seeded. In this study we investigate compost-assisted direct planting phytostabilization technology as an alternative to standard cap and plant practices. In phytostabilization the goal is to establish a vegetative cap using native plants that stabilize metals in the root zone with little to no shoot accumulation. The study site is a barren 62-hectare tailings pile characterized by extremely acidic pH as well as lead, arsenic, and zinc each exceeding 2000mgkg(-1). The study objective is to evaluate whether successful greenhouse phytostabilization results are scalable to the field. In May 2010, a 0.27ha study area was established on the Iron King Mine and Humboldt Smelter Superfund (IKMHSS) site with six irrigated treatments; tailings amended with 10, 15, or 20% (w/w) compost seeded with a mix of native plants (buffalo grass, arizona fescue, quailbush, mountain mahogany, mesquite, and catclaw acacia) and controls including composted (15 and 20%) unseeded treatments and an uncomposted unseeded treatment. Canopy cover ranging from 21 to 61% developed after 41 months in the compost-amended planted treatments, a canopy cover similar to that found in the surrounding region. No plants grew on unamended tailings. Neutrophilic heterotrophic bacterial counts were 1.5 to 4 orders of magnitude higher after 41months in planted versus unamended control plots. Shoot tissue accumulation of various metal(loids) was at or below Domestic Animal Toxicity Limits, with some plant specific exceptions in treatments receiving less compost. Parameters including % canopy cover, neutrophilic heterotrophic bacteria counts, and shoot uptake of metal(loids) are promising criteria to use in evaluating reclamation success. In summary, compost amendment and seeding, guided by preliminary greenhouse studies, allowed plant establishment and sustained growth over 4years demonstrating feasibility for this phytostabilization technology.

Scenario-targeted toxicity assessment through multiple endpoint bioassays in a soil posing unacceptable environmental risk according to regulatory screening values

Lanestosa is a chronically polluted site (derelict mine) where the soil (Lanestosa (LA) soil) exceeds screening values (SVs) of regulatory policies in force (Basque Country; Europe) for Zn, Pb and Cd. A scenario-targeted toxicity assessment was carried out on the basis of a multi-endpoint bioassay approach. Acute and chronic toxicity bioassays were conducted with selected test species (Vibrio fischeri, Dictyostelium discoideum, Lactuca sativa, Raphanus sativus and Eisenia fetida) in combination with chemical analysis of soils and elutriates and with bioaccumulation studies in earthworms. Besides, the toxicity profile was compared with that of the mine runoff (RO) soil and of a fresh artificially polluted soil (LAAPS) resembling LA soil pollutant profile. Extractability studies in LA soil revealed that Pb, Zn and Cd were highly available for exchange and/or release into the environment. Indeed, Pb and Zn were accumulated in earthworms and LA soil resulted to be toxic. Soil respiration, V. fischeri, vegetative and developmental cycles of D. discoideum and survival and juvenile production of E. fetida were severely affected. These results confirmed that LA soil had unacceptable environmental risk and demanded intervention. In contrast, although Pb and Zn concentrations in RO soil revealed also unacceptable risk, both metal extractability and toxicity were much lower than in LA soil. Thus, within the polluted site, the need for intervention varied between areas that posed dissimilar risk. Besides, since LAAPS, with a high exchangeable metal fraction, was the most toxic, ageing under in situ natural conditions seemingly contributed to attenuate LA soil risk. As a whole, combining multi-endpoint bioassays with scenario-targeted analysis (including leaching and ageing) provides reliable risk assessment in soils posing unacceptable environmental risk according to SVs, which is useful to optimise the required intervention measures.

Cover crops influence soil microorganisms and phytoextraction of copper from a moderately contaminated vineyard

We investigated the ability of summer (Avena sativa [oat], Trifolium incarnatum [crimson clover], Chenopodium [goosefoot]) and winter (Vicia villosa [hairy vetch], Secale Cereale L. [Rye], Brassica napus L. partim [rape]) cover crops, including a mixed species treatment, to extract copper from an organic vineyard soil in situ and the microbial communities that may support it. Clover had the highest copper content (14.3mgCukg(-1) DM). However, it was the amount of total biomass production that determined which species was most effective at overall copper removal per hectare. The winter crop rye produced significantly higher amounts of biomass (3532kgDMha(-1)) and, therefore, removed significantly higher amounts of copper (14,920mgCuha(-1)), despite less accumulation of copper in plant shoots. The maximum annual removal rate, a summation of best performing summer and winter crops, would be 0.033kgCuha(-1)y(-1). Due to this low annual extraction efficiency, which is less than the 6kgCuha(-1)y(-1) permitted for application, phytoextraction cannot be recommended as a general method of copper extraction from vineyards. Copper concentration did not influence aboveground or belowground properties, as indicated by sampling at two distances from the grapevine row with different soil copper concentrations. Soil microorganisms may have become tolerant to the copper levels at this site. Microbial biomass and soil enzyme activities (arylsulfatase and phosphatase) were instead driven by seasonal fluxes of resource pools. Gram+ bacteria were associated with high soil moisture, while fungi seemed to be driven by extractable carbon, which was linked to high plant biomass. There was no microbial group associated with the increased phytoextraction of copper. Moreover, treatment did not influence the abundance, activity or community structure of soil microorganisms.

SF Box--a tool for evaluating the effects on soil functions in remediation projects

Although remediation is usually aimed at reducing the risks posed by contaminants to human health and the environment, it is also desirable that the remediated soil within future green spaces is capable of providing relevant ecological functions, e.g., basis for primary production. Yet while addressing a contamination problem by reducing contaminant concentration and/or amounts in the soil, the remedial action itself can lead to soil structure disturbances, decline in organic matter and nutrient deficiencies, and in turn affect a soil's capacity to carry out its ecological soil functions. This article presents the Soil Function Box (SF Box) tool that is aimed to facilitate integration of information from suggested soil quality indicators (SQIs) into a management process in remediation using a scoring method. The scored SQIs are integrated into a soil quality index corresponding to 1 of 5 classes. SF Box is applied to 2 cases from Sweden (Kvillebäcken and Hexion), explicitly taking into consideration uncertainties in the results by means of Monte Carlo simulations. At both sites the generated soil quality indices corresponded to a medium soil performance (soil class 3) with a high certainty. The main soil constraints at both Kvillebäcken and Hexion were associated with biological activity in the soil, as soil organisms were unable to supply plant-available N. At the Kvillebäcken site the top layer had a content of coarse fragment (ø > 2 mm) higher than 35%, indicating plant rooting limitations. At the Hexion site, the soil had limited amount of organic matter, thus poor aggregate stability and nutrient cycling potential. In contrast, the soil at Kvillebäcken was rich in organic matter. The soils at both sites were capable of storing a sufficient amount of water for soil organisms between precipitation events.

Agro-industrial wastes as effective amendments for ecotoxicity reduction and soil health improvement in aided phytostabilization

Aided phytostabilization is a technology that uses metal tolerant plants and organic and/or inorganic amendments to reduce soil metal bioavailability, while improving soil health. Our objective was to determine the effects of the application of amendments [sheep manure (SHEEP), poultry litter (POULTRY), cow slurry (COW), and paper mill sludge mixed with poultry litter (PAPER)], together with the growth of a metallicolous Festuca rubra L. population, on (i) chemical and microbial indicators of soil health and (ii) soil ecotoxicity, during the aided phytostabilization of a Zn/Pb contaminated mine soil. Amendment application led to an increase in soil pH, organic matter content, and inorganic salts, resulting in a decrease in Pb and Zn CaCl2-extractable concentrations in soil, which, in turn, contributed to lower ecotoxicity and a stimulation of plant growth and soil microbial communities. The factor most affecting the metal extractability was probably soil pH. POULTRY was the best amendment in terms of increasing plant growth, chlorophylls content, and soil microbial biomass and activity, but resulted in higher levels of phytoavailable Pb and Zn. SHEEP and PAPER were more effective at reducing metal CaCl2-extractability and, consequently, led to lower values of metal accumulation in plant tissues, thereby reducing the risk of metals entering into the food chain. When combined with the application of organic amendments, the metallicolous F. rubra population studied here appears an excellent candidate for aided phytostabilization. Our results indicate that the application of organic amendments is essential for the short-term recovery of highly contaminated metalliferous soils during aided phytostabilization.

Using soil function evaluation in multi-criteria decision analysis for sustainability appraisal of remediation alternatives

Soil contamination is one of the major threats constraining proper functioning of the soil and thus provision of ecosystem services. Remedial actions typically only address the chemical soil quality by reducing total contaminant concentrations to acceptable levels guided by land use. However, emerging regulatory requirements on soil protection demand a holistic view on soil assessment in remediation projects thus accounting for a variety of soil functions. Such a view would require not only that the contamination concentrations are assessed and attended to, but also that other aspects are taking into account, thus addressing also physical and biological as well as other chemical soil quality indicators (SQIs). This study outlines how soil function assessment can be a part of a holistic sustainability appraisal of remediation alternatives using multi-criteria decision analysis (MCDA). The paper presents a method for practitioners for evaluating the effects of remediation alternatives on selected ecological soil functions using a suggested minimum data set (MDS) containing physical, biological and chemical SQIs. The measured SQIs are transformed into sub-scores by the use of scoring curves, which allows interpretation and the integration of soil quality data into the MCDA framework. The method is demonstrated at a study site (Marieberg, Sweden) and the results give an example of how soil analyses using the suggested MDS can be used for soil function assessment and subsequent input to the MCDA framework.

Inoculating Helianthus annuus (sunflower) grown in zinc and cadmium contaminated soils with plant growth promoting bacteria--effects on phytoremediation strategies

Plant growth promoting bacteria (PGPR) may help reducing the toxicity of heavy metals to plants in polluted environments. In this work the effects of inoculating metal resistant and plant growth promoting bacterial strains on the growth of Helianthus annuus grown in Zn and Cd spiked soils were assessed. The PGPR strains Ralstonia eutropha (B1) and Chrysiobacterium humi (B2) reduced losses of weight in metal exposed plants and induced changes in metal bioaccumulation and bioconcentration - with strain B2 decreasing up to 67% Zn accumulation and by 20% Zn bioconcentration factor (BCF) in the shoots, up to 64% Zn uptake and 38% Zn BCF in the roots, and up to 27% Cd uptake and 27% Cd BCF in plant roots. The impact of inoculation on the bacterial communities in the rhizosphere of the plant was also assessed. Bacterial community diversity decreased with increasing levels of metal contamination in the soil, but in rhizosphere soil of plants inoculated with the PGPR strains, a higher bacterial diversity was kept throughout the experimental period. Inoculation of sunflower, particularly with C. humi (B2), appears to be an effective way of enhancing the short term stabilization potential of the plant in metal contaminated land, lowering losses in plant biomass and decreasing aboveground tissue contamination.

Phylogenetic analysis of bacterial community composition in sediment contaminated with multiple heavy metals from the Xiangjiang River in China

Understanding the ecology of sediments that are contaminated with heavy metals is critical for bioremediating these sediments, which has become a public concern over the course of the development of modern industry. To investigate the bacterial community composition of sediments that are contaminated with heavy metals in the Xiangjiang River, a total of four sediment samples contaminated with multiple heavy metals were obtained, and a culture-independent molecular analysis, polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP), was performed. The results revealed that heavy metal pollution affected the sediment microbial community diversity, and the greatest species diversity appeared in the moderately polluted sediment X sample. The dominant family in these sediments includes α-Proteobacteria, β-Proteobacteria and Firmicutes. Moreover, α-Proteobacteria was significantly increased with increases in heavy metal. A redundancy analysis (RDA) also confirmed this phenomenon.

Moderate phosphorus application enhances Zn mobility and uptake in hyperaccumulator Sedum alfredii

While phytoextraction tools are increasingly applied to remediation of contaminated soils, strategies are needed to optimize plant uptake by improving soil conditions. Mineral nutrition affects plant growth and metal absorption and subsequently the accumulation of heavy metal through hyper-accumulator plants. Microcosm experiments were conducted in greenhouse to examine the effect of different phosphorus (P) sources on zinc (Zn) phytoextraction by Sedum alfredii in aged Zn-contaminated paddy soil. The Zn accumulation, soil pH, microbial biomass and enzyme activity, available Zn changes. and Zn phytoremediation efficiency in soil after plant harvest were determined. Upon addition of P, Zn uptake of S. alfredii significantly increased. Mehlich-3 extractable or the fractions of exchangeable and carbonate-bound soil Zn were significantly increased at higher P applications. Soil pH significantly decreased with increasing P application rates. Soil microbial biomass in the P-treated soils was significantly higher (P < 0.05) than those in the control. Shoot Zn concentration was positively correlated with Mehlich-3 extractable P (P < 0.0001) or exchangeable/carbonate-bound Zn (P < 0.001), but negatively related to soil pH (P < 0.0001). These results indicate that application of P fertilizers has the potential to enhance Zn mobility and uptake by hyperaccumulating plant S. alfredii, thus increasing phytoremediation efficiency of Zn-contaminated soils.

Climate change driven plant-metal-microbe interactions

Various biotic and abiotic stress factors affect the growth and productivity of crop plants. Particularly, the climatic and/or heavy metal stress influence various processes including growth, physiology, biochemistry, and yield of crops. Climatic changes particularly the elevated atmospheric CO₂ enhance the biomass production and metal accumulation in plants and help plants to support greater microbial populations and/or protect the microorganisms against the impacts of heavy metals. Besides, the indirect effects of climatic change (e.g., changes in the function and structure of plant roots and diversity and activity of rhizosphere microbes) would lead to altered metal bioavailability in soils and concomitantly affect plant growth. However, the effects of warming, drought or combined climatic stress on plant growth and metal accumulation vary substantially across physico-chemico-biological properties of the environment (e.g., soil pH, heavy metal type and its bio-available concentrations, microbial diversity, and interactive effects of climatic factors) and plant used. Overall, direct and/or indirect effects of climate change on heavy metal mobility in soils may further hinder the ability of plants to adapt and make them more susceptible to stress. Here, we review and discuss how the climatic parameters including atmospheric CO₂, temperature and drought influence the plant-metal interaction in polluted soils. Other aspects including the effects of climate change and heavy metals on plant-microbe interaction, heavy metal phytoremediation and safety of food and feed are also discussed. This review shows that predicting how plant-metal interaction responds to altering climatic change is critical to select suitable crop plants that would be able to produce more yields and tolerate multi-stress conditions without accumulating toxic heavy metals for future food security.

Effects of root inoculation with bacteria on the growth, Cd uptake and bacterial communities associated with rape grown in Cd-contaminated soil

Two metal-resistant and plant growth-promoting bacteria (Burkholderia sp. J62 and Pseudomonas thivervalensis Y-1-3-9) were evaluated for their impacts on plant growth promotion, Cd availability in soil, and Cd uptake in rape (Brassica napus) grown in different level (0, 50, and 100 mg kg(-1)) of Cd-contaminated soils. The impacts of the bacteria on the rape-associated bacterial community structures were also evaluated using denaturing gradient gel electrophoresis (DGGE) analysis of bacterial DNA extracted from the root interior and rhizosphere and bulk soil samples collected at day 60 after inoculation. Canonical correspondence analysis (CCA) was used to have a comparative analysis of DGGE profiles. Inoculation with live bacteria not only significantly increased root (ranging from 38% to 86%), stem (ranging from 27% to 65%) and leaf (ranging from 23% to 55%) dry weights and water-extractive Cd contents (ranging from 59% to 237%) in the rhizosphere soils of the rape but also significantly increased root (ranging from 10% to 61%), stem (ranging from 41% to 57%) and leaf (ranging from 46% to 68%) total Cd uptake of rape compared to the dead bacterial-inoculated controls. DGGE and sequence analyses showed that the bacteria could colonize the rhizosphere soils and root interiors of rape plants. DGGE-CCA also showed that root interior and rhizosphere and bulk soil community profiles from the live bacteria-inoculated rape were significantly different from those from the dead bacteria-inoculated rape respectively. These results suggested that the bacteria had the potential to promote the growth and Cd uptake of rape and to influence the development of the rape-associated bacterial community structures.

Promotion of growth and Cu accumulation of bio-energy crop (Zea mays) by bacteria: implications for energy plant biomass production and phytoremediation

Three metal-resistant and plant growth-promoting bacteria (Burkholderia sp. GL12, Bacillus megaterium JL35 and Sphingomonas sp. YM22) were evaluated for their potential to solubilize Cu(2) (OH)(2)CO(3) in solution culture and their plant growth promotion and Cu uptake in maize (Zea mays, an energy crop) grown in a natural highly Cu-contaminated soil. The impacts of the bacteria on the Cu availability and the bacterial community in rhizosphere soils of maize were also investigated. Inductively coupled-plasma optical emission spectrometer analysis showed variable amounts of water-soluble Cu (ranging from 20.5 to 227 mgL(-1)) released by the bacteria from Cu(2) (OH)(2)CO(3) in solution culture. Inoculation with the bacteria was found to significantly increase root (ranging from 48% to 83%) and above-ground tissue (ranging from 33% to 56%) dry weights of maize compared to the uninoculated controls. Increases in Cu contents of roots and above-ground tissues varied from 69% to 107% and from 16% to 86% in the bacterial-inoculated plants compared to the uninoculated controls, respectively. Inoculation with the bacteria was also found to significantly increase the water-extractive Cu concentrations (ranging from 63 to 94%) in the rhizosphere soils of the maize plants compared to the uninoculated controls in pot experiments. Denaturing gradient gel electrophoresis and sequence analyses showed that the bacteria could colonize the rhizosphere soils and significantly change the bacterial community compositions in the rhizosphere soils. These results suggest that the metal-resistant and plant growth-promoting bacteria may be exploited for promoting the maize (energy crop) biomass production and Cu phytoremediation in a natural highly Cu-contaminated soil.

GFP-tagged multimetal-tolerant bacteria and their detection in the rhizosphere of white mustard

The introduction of rhizobacteria that tolerate heavy metals is a promising approach to support plants involved in phytoextraction and phytostabilisation. In this study, soil of a metal-mine wasteland was analyzed for the presence of metal-tolerant bacterial isolates, and the tolerance patterns of the isolated strains for a number of heavy metals and antibiotics were compared. Several of the multimetal-tolerant strains were tagged with a broad host range reporter plasmid (i.e. pPROBE-NT) bearing a green fluorescent protein marker gene (gfp). Overall, the metal-tolerant isolates were predominately Gram-negative bacteria. Most of the strains showed a tolerance to five metals (Zn, Cu, Ni, Pb and Cd), but with differing tolerance patterns. From among the successfully tagged isolates, we used the transconjugant Pseudomonas putida G25 (pPROBE-NT) to inoculate white mustard seedlings. Despite a significant decrease in transconjugant abundance in the rhizosphere, the gfp-tagged cells survived on the root surfaces at a level previously reported for root colonisers.

Pseudometallophytes colonising Pb/Zn mine tailings: a description of the plant-microorganism-rhizosphere soil system and isolation of metal-tolerant bacteria

The plant-microorganism-soil system of three pseudometallophytes (Betula celtiberica, Cytisus scoparius and Festuca rubra) growing in a Pb/Zn mine was characterised. Plant metal accumulation, soil metal fractions (rhizosphere and non-vegetated) and bacterial densities were determined. Total Cd, Pb and Zn in non-vegetated soils was up to 50, 3000 and 20,000 mg kg(-1) dry weight, respectively. The residual fraction dominated non-vegetated soils, whereas plant-available fractions became important in rhizosphere soils. All plant species effectively excluded metals from the shoot. F. rubra presented a shoot:root transport factor of ≤0.2 and this population could be useful in future phytostabilisation trials. Culturable bacterial densities and diversity were low (predominantly Actinobacteria). Rhizosphere soils hosted higher total and metal-tolerant bacterial densities. Seventy-four metal-tolerant rhizobacteria were isolated, and characterised genotypically (BOX-PCR, 16S rDNA) and phenotypically [Cd/Zn tolerance, biosurfactant production and plant growth promoting (PGP) traits]. Several isolates resisted high concentrations of Cd and Zn, and only a few presented PGP traits. Fourteen isolates were evaluated for promoting plant growth of two species (Salix viminalis and Festuca pratensis). Thirteen inoculants enhanced growth of F. pratensis, while only three enhanced growth of S. viminalis. Growth enhancement could not always be related to isolate PGP traits. In conclusion, some isolates show potential application in phytostabilisation or phytoextraction techniques.

Native plant communities in an abandoned Pb-Zn mining area of northern Spain: implications for phytoremediation and germplasm preservation

Plants growing on metalliferous soils from abandoned mines are unique because of their ability to cope with high metal levels in soil. In this study, we characterized plants and soils from an abandoned Pb-Zn mine in the Basque Country (northern Spain). Soil in this area proved to be deficient in major macronutrients and to contain toxic levels of Cd, Pb, and Zn. Spontaneously growing native plants (belonging to 31 species, 28 genera, and 15 families) were botanically identified. Plant shoots and rhizosphere soil were sampled at several sites in the mine, and analyzed for Pb, Zn and Cd concentration. Zinc showed the highest concentrations in shoots, followed by Pb and Cd. Highest Zn concentrations in shoots were found in the Zn-Cd hyperaccumulator Thlaspi caerulescens (mean = 18,254 mg Zn kg(-1) DW). Different metal tolerance and accumulation patterns were observed among the studied plant species, thus offering a wide germplasm assortment for the suitable selection of phytoremediation technologies. This study highlights the importance of preserving metalliferous environments as they shelter a unique and highly valuable metallicolous biodiversity.

Pine forest and grassland differently influence the response of soil microbial communities to metal contamination

Metal pollution can affect soil microbial communities, and vegetation potentially influences this relationship. It can, for example, modify the toxicity of metal to soil microbes by controlling its input to the ground or by altering soil physicochemical properties. This study examined metal effects on soil respiration, potentially active microbial biomass (SIR) and catabolic abilities of culturable heterotrophic bacterial communities (Biolog GN) in pine forest and grassland ecosystems developed on soils contaminated with Zn, Pb and Cd. In samples from non-forested areas we found that metal pollution reduced the microbial biomass and functional diversity of bacteria, while increasing the metabolic quotient. In samples from pine forests we found no relationship between metal pollution and microbial parameters. Metals induced changes in soil respiration neither in forest nor in grassland sites. Generally, microbial performance was determined predominantly by soil physicochemical properties (nutrient content, acidity, contamination level). Vegetation type seemed a minor but important factor influencing microbial communities. More work is needed to determine why even relatively high metal concentrations do not significantly affect microbial communities in forest soils.