Interactions between plant and rhizosphere microbial communities in a metalliferous soil

In the present work, the relationships between plant consortia, consisting of 1-4 metallicolous pseudometallophytes with different metal-tolerance strategies (Thlaspi caerulescens: hyperaccumulator; Jasione montana: accumulator; Rumex acetosa: indicator; Festuca rubra: excluder), and their rhizosphere microbial communities were studied in a mine soil polluted with high levels of Cd, Pb and Zn. Physiological response and phytoremediation potential of the studied pseudometallophytes were also investigated. The studied metallicolous populations are tolerant to metal pollution and offer potential for the development of phytoextraction and phytostabilization technologies. T. caerulescens appears very tolerant to metal stress and most suitable for metal phytoextraction; the other three species enhance soil functionality. Soil microbial properties had a stronger effect on plant biomass rather than the other way around (35.2% versus 14.9%). An ecological understanding of how contaminants, ecosystem functions and biological communities interact in the long-term is needed for proper management of these fragile metalliferous ecosystems.     

污泥施用对根际和非根际石灰性土壤中细菌多样性的影响

为研究污泥施用对石灰性土壤细菌多样性的影响,在连续2年种植夏玉米大田系统中,施用不同量的腐熟污泥,采集根际和非根际土壤进行16S rDNA-V3-V4区高通量测序,分析污泥施用对石灰性土壤细菌丰富度、多样性指数、群落结构、功能基因在代谢途径的影响,同时对细菌群落和环境因素之间的相关性进行分析。结果表明：污泥用量分别在3.5～37.5 t·hm⁻²和3.5～7.5 t·hm⁻²有利于非根际和根际土壤OTU数量增加;但污泥在75 t·hm⁻²过量施用时,根际和非根际土壤细菌的Shannon多样性指数显著降低,Simpson指数显著增加,Ace,Chao丰富度指数显著降低。主成分和门水平物种丰度分析表明：污泥施用量不同会造成根际和非根际细菌群落结构差异,并且当污泥施用量为75 t·hm⁻²时,明显降低了非根际土壤放线菌门的丰度;污泥施用量在3.75～37.5 t·hm⁻²时,非根际土壤中拟杆菌门丰度会明显增加。与对照相比,当污泥用量为75 t·hm⁻²时,根际土壤拟杆菌门有明显的增加,增加丰度达1.45倍,但酸杆菌门和放线菌门丰度降低了49.74%和80.57%。冗余分析(RDA)表明,土壤TN、Cd、Cu、TP是影响土壤细菌群落最主要的因素,其中TN、Cd、Cu和细菌Shannon、Simpson多样性指数呈现显著相关性(P< 0.05)。由此可见,连续过量施入污泥会对根际和非根际石灰性土壤中细菌多样性造成不利影响,而且上述微生物多样性变化可作为污泥合理施用的判断依据。     

When is a soil remediated? Comparison of biopiled and windrowed soils contaminated with bunker-fuel in a full-scale trial

A six month field scale study was carried out to compare windrow turning and biopile techniques for the remediation of soil contaminated with bunker C fuel oil. End-point clean-up targets were defined by human risk assessment and ecotoxicological hazard assessment approaches. Replicate windrows and biopiles were amended with either nutrients and inocula, nutrients alone or no amendment. In addition to fractionated hydrocarbon analysis, culturable microbial characterisation and soil ecotoxicological assays were performed. This particular soil, heavy in texture and historically contaminated with bunker fuel was more effectively remediated by windrowing, but coarser textures may be more amendable to biopiling. This trial reveals the benefit of developing risk and hazard based approaches in defining end-point bioremediation of heavy hydrocarbons when engineered biopile or windrow are proposed as treatment option.     

Heavy metal pollution exerts reduction/adaptation in the diversity and enzyme expression profile of heterotrophic bacteria in Cochin estuary, India

Over the past three decades heavy metal pollution has increased substantially in Cochin estuary, south west coast of India. Here we studied the distribution, diversity and enzyme expression profile of culturable microbial population along a pollution gradient. The distribution of resistance against 5 mM concentration of Zn, Co, Ni and Cu was observed among 90-100% of bacterial isolates retrieved from highly polluted Eloor, whereas it was less than 40% in Vypin and Munambam. Similarly, there was a difference in the distribution and diversity of bacterial phyla with predominance of Proteobacteria in Eloor and Firmicutes in Munambam and Vypin. We observed that 75-100% of the organisms retrieved from Eloor had low levels of expression for hydrolytic enzyme. In conclusion, the heavy metal pollution in Cochin estuary brought in reduction/adaptation in the distribution, diversity and enzyme expression profile of bacteria, which may impart adverse impacts on ecosystem functioning.     

DNA damage and biochemical toxicity of antibiotics in soil on the earthworm Eisenia fetida

DNA damage and changes in enzyme activities were used as biomarkers to evaluate the genotoxicity and oxidative stress of tetracycline and chlortetracycline on the earthworm Eisenia fetida. The results showed that both antibiotics induced significant genotoxicity on earthworms in a dose-dependent manner (p < 0.01) with chlortetracycline having a stronger effect than tetracycline in the short term. The tests on the activities of superoxide dismutase (SOD) and catalase (CAT) enzymes further indicated biochemical stresses induced by the antibiotics. An N-shaped activity pattern was noted with the enzyme activities being stimulated first, then inhibited, and stimulated again with increasing concentration. The induced activity of SOD or CAT could scavenge oxygen free radicals and protect the organisms against oxidative stress by alleviating the corresponding DNA damage. Compared to enzyme activities, DNA damage as a biomarker was more sensitive and is thus more suitable for detecting low concentration exposure and diagnosing the genotoxicity of contaminants in terrestrial environment.     

Persistence of the herbicide butachlor in soil after repeated applications and its effects on soil microbial functional diversity

Effects of repeated applications of the herbicide butachlor (N-(butoxymethyl)-2-chloro -N-2′,6′-dimethyl acetanilide) in soil on its persistence and soil microbial functional diversity were investigated under laboratory conditions. The degradation half-lives of butachlor at the recommended dosage in soil were calculated to be 12.5, 4.5, and 3.2 days for the first, second, and third applications, respectively. Throughout this study, no significant inhibition of the Shannon-Wiener index H′ was observed. However, the Simpson index 1/D and McIntosh index U were significantly reduced (P ≤ 0.05) during the initial 3 days after the first application of butachlor, and thereafter gradually recovered to a similar level to that of the control soil. A similar variation but faster recovery in 1/D and U was observed after the second and third Butachlor applications. Therefore, repeated applications of butachlor led to more rapid degradation of the herbicide, and more rapid recovery of soil microorganisms. It is concluded that repeated butachlor applications in soil had a temporary or short-term inhibitory effect on soil microbial communities.     

Dissipation of carbendazim and chloramphenicol alone and in combination and their effects on soil fungal:bacterial ratios and soil enzyme activities

The dissipation of carbendazim and chloramphenicol alone and in combination and their effects on soil fungal:bacterial ratios and soil enzyme activities were investigated. The results revealed that carbendazim dissipation was little affected by chloramphenicol, whereas chloramphenicol dissipation was found to be retarded significantly by the presence of carbendazim. The inhibitory effect of carbendazim on the fungal:bacterial ratios was increased by the presence of chloramphenicol, and the inhibitory effect of chloramphenicol on neutral phosphatase was increased by the presence of carbendazim. Carbendazim increased soil catalase and urease activities, but this increase was partially diminished by the presence of chloramphenicol. Little interaction was observed between carbendazim and chloramphenicol with regard to their influence on soil invertase. The results obtained in this study suggest that combinations of fungicides and antibiotics may alter the compounds’ individual behaviors in soil and their effects on soil enzymes.     

Mobility of metals and metalloids in a multi-element contaminated soil 20 years after cessation of the pollution source activity

Knowledge of trace element concentrations and mobility is important in the ecotoxicological assessment of contaminated soils. We analysed soil pore water under field conditions to provide new insights into the mobility of residual contaminants in the surface 50cm of a highly contaminated woodland soil. Cadmium and Zn were highly mobile in the acidic soil, concentrations increasing with depth in soil pore water, showing considerable downward mobility. High levels of surface organic matter restricted the solubility of Cu, Pb and Sb, with highest concentrations being found close to the surface. Dissolved organic carbon in pore water had a strong influence on mobility of Cu, Zn, Pb and Sb. Elevated As had moved from the organic surface horizons but was largely immobilised in deeper layers and associated with Fe and Al oxides. The measured differential mobility of pollutants in the present study is highly relevant to protection of groundwater and other receptors.     

Effect of the veterinary ionophore monensin on the structure and activity of a tropical soil bacterial community

Abstract

Monensin (MON) is a coccidiostat used as a growth promoter that can reach the environment through fertilization with manure from farm animals. To verify whether field-relevant concentrations of this drug negatively influence the structure and activity of tropical soil bacteria, plate counts, CO₂ efflux measurements, phospholipid fatty acids (PLFA) and community-level physiological profiling (CLPP) profiles were obtained for soil microcosms exposed to 1 or 10?mg kg^?1 of MON across 11?days. Although 53% (1?mg kg^?1) to 40% (10?mg kg^?1) of the MON concentrations added to the microcosms dissipated within 5?days, a subtle concentration-dependent decrease in the number of culturable bacteria (<1 log CFU g^?1), reduced (?20 to ?30%) or exacerbated (+25%) soil CO₂ effluxes, a marked shift of non-bacterial fatty acids, and altered respiration of amines (1.22-fold decrease) and polymers (1.70-fold increase) were noted in some of the treatments. These results suggest that MON quickly killed some microorganisms and that the surviving populations were selected and metabolically stimulated. Consequently, MON should be monitored in agronomic and environmental systems as part of One Health efforts.     

Effect of birch (Betula spp.) and associated rhizoidal bacteria on the degradation of soil polyaromatic hydrocarbons, PAH-induced changes in birch proteome and bacterial community

Two birch clones originating from metal-contaminated sites were exposed for 3 months to soils (sand-peat ratio 1:1 or 4:1) spiked with a mixture of polyaromatic hydrocarbons (PAHs; anthracene, fluoranthene, phenanthrene, pyrene). PAH degradation differed between the two birch clones and also by the soil type. The statistically most significant elimination (p ≤ 0.01), i.e. 88% of total PAHs, was observed in the more sandy soil planted with birch, the clearest positive effect being found with Betula pubescens clone on phenanthrene. PAHs and soil composition had rather small effects on birch protein complement. Three proteins with clonal differences were identified: ferritin-like protein, auxin-induced protein and peroxidase. Differences in planted and non-planted soils were detected in bacterial communities by 16S rRNA T-RFLP, and the overall bacterial community structures were diverse. Even though both represent complex systems, trees and rhizoidal microbes in combination can provide interesting possibilities for bioremediation of PAH-polluted soils.     

Persistence of azadirachtin A and B in soil: Effects of temperature and microbial activity

Abstract

The persistence of two insecticidally active compounds from the neem tree, azadirachtin A and B, was determined at two different temperatures (15 and 25°C) in the laboratory after application of the commercial neem insecticide, Margosan‐O, to a sandy loam soil. The influence of microbial activity on degradation was also examined by comparing autoclaved and non‐autoclaved soils also at 15 and 25°C. Temperature influenced degradation rates. The DT ₅₀ (time required for 50% disappearance of the initial concentration) for azadirachtin A was 43.9 and 19.8 d for non‐autoclaved soil kept at 15 and 25°C, respectively. The DT ₅₀ for azadirachtin B was 59.2 and 20.8 d for non‐autoclaved soil kept at 15 and 25°C, respectively. Microbial activity was also responsible for faster degradation because DT ₅₀ ’s for autoclaved soil were much longer than for non‐autoclaved soils. DT ₅₀ ‘_s for azadirachtin A in autoclaved soil were 91.2 (15°C) and 31.5 d (25°C). DT50’s for azadirachtin B in autoclaved soil were 115.5 (15°C) and 42.3 d (25°C). Two degradation products of azadirachtin were detected, but were not identified. Higher levels of the two degradation products were detected in non‐autoclaved soil.     

Effect of Dursban 480 EC (chlorpyrifos) and Talstar 10 EC (bifenthrin) on the physiological and genetic diversity of microorganisms in soil

This investigation was undertaken to determine the impact of the insecticides Dursban 480 EC (with organophosphate compound chlorpyrifos as the active ingredient) and Talstar 10 EC (with pyrethroid bifenthrin as the active ingredient) on the respiration activity and microbial diversity in a sandy loam luvisol soil. The insecticides were applied in two doses: the maximum recommended dose for field application (15 mg kg^?1 for Dursban 480 EC and 6 mg kg^?1 for Talstar 10 EC) and a 100-fold higher dose for extrapolation of their effect. Bacterial and fungal genetic diversity was analysed in soil samples using PCR DGGE and the functional diversity (catabolic potential) was studied using BIOLOG EcoPlates at 1, 3, 7, 14, 28, 56 and 112 days after insecticide application. Five bacterial groups (α, β, γ proteobacteria, firmibacteria and actinomycetes) and five groups of fungi or fungus-like microorganisms (Ascomycota, Basidiomycota, Chytridiomycota, Oomycota and Zygomycota) were analysed using specific primer sets. This approach provides high resolution of the analysis covering majority of microorganisms in the soil. Only the high-dose Dursban 480 EC significantly changed the community of microorganisms. We observed its negative effect on α- and γ-proteobacteria, as the number of OTUs (operational taxonomic units) decreased until the end of incubation. In the β-proteobacteria group, initial increase of OTUs was followed by strong decrease. Diversity in the firmibacteria, actinomycetes and Zygomycota groups was minimally disturbed by the insecticide application. Dursban 480 EC, however, both positively and negatively affected certain species. Among negatively affected species Sphingomonas, Flavobacterium or Penicillium were detected, but Achromobacter, Luteibacter or Aspergillus were supported by applied insecticide. The analysis of BIOLOG plates using AWCD values indicated a significant increase in metabolic potential of microorganisms in the soil after the high-dose Dursban application. Analysis of respiration demonstrated high microbial activity after insecticide treatments; thus, microbial degradation was relatively fast. The half-life of the active insecticide compounds were estimated within the range of 25 to 27 days for Talstar and 6 to 11 days for Dursban and higher doses stimulated degradation. The recommended dose levels of both insecticides can be considered as safe for microbial community in the soil.     

The bioaccumulation of Molybdenum in the earthworm Eisenia andrei: influence of soil properties and ageing

Mo bioaccumulation in the earthworm Eisenia andrei was determined after 28 d exposure in ten different European field soils (pH 4.4-7.8) and an artificial soil, freshly spiked with Na₂MoO₄ at concentrations between 3.2 and 3200 mg Mo kg⁻¹ dry soil. Three field soils were also tested after ageing for 11 months. Earthworm Mo concentrations generally levelled off at high exposure levels but in most soils showed a (nearly) linear increase with increasing soil concentrations in the lower, non-toxic range (below EC10 or NOEC for reproduction effects). Bioaccumulation (BAF) and Bioconcentration factors (BCF) were calculated as the ratio of earthworm concentration to soil and estimated porewater concentrations, respectively. BAFs (0.35-3.44) and BCFs (1.31-276) did not seem much affected by soil concentration, suggesting that earthworms are not capable of regulating their internal Mo concentrations. BAF was best predicted by ammonium oxalate-extractable iron (Fe_ox) and phosphor (P_ox) contents of the soils.     

Spatial variability of arsenic and chromium in the soil water at a former wood preserving site

Contamination of industrial sites by wood preservatives such as chromated copper arsenate (CCA) may pose a serious threat to groundwater quality. The objective of this study was to characterise the spatial variability of As and Cr concentrations in the solid phase and in the soil water at a former wood impregnation plant and to reveal the fundamental transport processes. The soil was sampled down to a depth of 2m. The soil water was extracted in situ from the vadose zone over a period of 10 months at depths of 1 and 1.5m, using large horizontally installed suction tubes. Groundwater was sampled from a depth of 4.5m. Results showed that arsenic and chromium had accumulated in the upper region of the profile and exhibited a high spatial variability (As: 21-621 mg kg(-1); Cr: 74-2872 mg kg(-1)). Concentrations in the soil water were high (mean As 167 microg L(-1); Cr: 62 microg L(-1)) and also showed a distinct spatial variability, covering concentration ranges up to three orders of magnitude. The variability was caused by the severe water-repellency of the surface soil, induced by the concurrent application of creosote wood preservatives, which leads to strong preferential flow as evident from a dye experiment. In contrast to soil water concentrations, only low As concentrations (<12 microg L(-1)) were detected in the groundwater. High Cr concentrations in the groundwater (approx. 300 microg L(-1)), however, illustrated the pronounced mobility of chromium. Our study shows that at sites with a heterogeneous flow system in the vadose zone a disparity between flux-averaged and volume-averaged concentrations may occur, and sampling of soil water might not be adequate for assessing groundwater concentrations. In these cases long-term monitoring of the groundwater appears to be the best strategy for a groundwater risk assessment.     

Mobility of radionuclides in soil/groundwater system: Comparing the influence of EDTA and four of its degradation products

The adsorption behavior of ²⁴¹Am, ⁶⁰Co, ¹³⁷Cs and ⁸⁵Sr in the presence and absence of chelating ligands (ethylenediaminetetraacetic acid, ethylenediaminediacetic acid, hydroxyethyliminodiacetic acid, iminodiaceiticacid and methyliminodiacetic acid) was investigated. Sorption affinity in the absence of chelating ligands followed: Am(III) > Co(II) > Cs(I) > Sr(II). The presence of chelating ligands generally had little effect on sorption of ⁸⁵Sr and ¹³⁷Cs with K_d values 110 and 690 mL g⁻¹, respectively. But at 0.02 M of ethylenediaminetetraacetic or hydroxyethyliminodiacetic, the K_d decreased to 5 or 63 mL g⁻¹, respectively, where thermochemical modeling indicated almost all ⁸⁵Sr is complexed with these ligands. The K_d values for ²⁴¹Am and ⁶⁰Co generally decreased with increasing chelating agent concentrations. In notable cases, the K_d values for Am increased at specific concentrations of 10⁻³ M for IDA, MIDA and 10⁻⁴ M for EDDA. This is proposed to be due to formation of a ternary surface complex.     

Spatial patterns and autocorrelation in the response of microarthropods to soil pollutants: The example of oribatid mites in an abandoned mining and smelting area

Although exogenous factors such as pollutants can act on endogenous drivers (e.g. dispersion) of populations and create spatially autocorrelated distributions, most statistical techniques assume independence of error terms. As there are no studies on metal soil pollutants and microarthropods that explicitly analyse this key issue, we completed a field study of the correlation between Oribatida and metal concentrations in litter, organic matter and soil in an attempt to account for spatial patterns of both metals and mites. The 50-m wide study area had homogenous macroscopic features, steep Pb and Cu gradients and high levels of Zn and Cd. Spatial models failed to detect metal–oribatid relationships because the observed latitudinal and longitudinal gradients in oribatid assemblages were independent of the collinear gradients in the concentration of metals. It is therefore hypothesised that other spatially variable factors (e.g. fungi, reduced macrofauna) affect oribatid assemblages, which may be influenced by metals only indirectly.     

Epiphytic lichen diversity in central European oak forests: Assessment of the effects of natural environmental factors and human influences

We investigated lichen diversity in temperate oak forests using standardized protocols. Forty-eight sites were sampled in the Czech Republic, Slovakia and Hungary. The effects of natural environmental predictors and human influences on lichen diversity (lichen diversity value, species richness) were analysed by means of correlation tests. We found that lichen diversity responded differently to environmental predictors between two regions with different human impact. In the industrial region, air pollution was the strongest factor. In the agricultural to highly forested regions, lichen diversity was strongly influenced by forest age and forest fragmentation. We found that several natural factors can in some cases obscure the effect of human influences. Thus, factors of naturality gradient must be considered (both statistically and interpretively) when studying human impact on lichen diversity.     

Long-term dynamics of the atrazine mineralization potential in surface and subsurface soil in an agricultural field as a response to atrazine applications

The dynamics of the atrazine mineralization potential in agricultural soil was studied in two soil layers (topsoil and at 35-45 cm depth) in a 3 years field trial to examine the long term response of atrazine mineralizing soil populations to atrazine application and intermittent periods without atrazine and the effect of manure treatment on those processes. In topsoil samples, ¹⁴C-atrazine mineralization lag times decreased after atrazine application and increased with increasing time after atrazine application, suggesting that atrazine application resulted into the proliferation of atrazine mineralizing microbial populations which decayed when atrazine application stopped. Decay rates appeared however much slower than growth rates. Atrazine application also resulted into the increase of the atrazine mineralization potential in deeper layers which was explained by the growth on leached atrazine as measured in soil leachates recovered from that depth. However, no decay was observed during intermittent periods without atrazine application in the deeper soil layer. atzA and trzN gene quantification confirmed partly the growth and decay of the atrazine degrading populations in the soil and suggested that especially trzN bearing populations are the dominant atrazine degrading populations in both topsoil and deeper soil. Manure treatment only improved the atrazine mineralization rate in deeper soil layers. Our results point to the importance of the atrazine application history on a field and suggests that the long term survival of atrazine degrading populations after atrazine application enables them to rapidly proliferate once atrazine is again applied.     

DNAPL distribution in the source zone: effect of soil structure and uncertainty reduction with increased sampling density

This paper focuses on parameters describing the distribution of dense nonaqueous phase liquid (DNAPL) contaminants and investigates the variability of these parameters that results from soil heterogeneity. In addition, it quantifies the uncertainty reduction that can be achieved with increased density of soil sampling. Numerical simulations of DNAPL releases were performed using stochastic realizations of hydraulic conductivity fields generated with the same geostatistical parameters and conditioning data at two sampling densities, thus generating two simulation ensembles of low and high density (three-fold increase) of soil sampling. The results showed that DNAPL plumes in aquifers identical in a statistical sense exhibit qualitatively different patterns, ranging from compact to finger-like. The corresponding quantitative differences were expressed by defining several alternative measures that describe the DNAPL plume and computing these measures for each simulation of the two ensembles. The uncertainty in the plume features under study was affected to different degrees by the variability of the soil, with coefficients of variation ranging from about 20% to 90%, for the low-density sampling. Meanwhile, the increased soil sampling frequency resulted in reductions of uncertainty varying from 7% to 69%, for low- and high-uncertainty variables, respectively. In view of the varying uncertainty in the characteristics of a DNAPL plume, remedial designs that require estimates of the less uncertain features of the plume may be preferred over others that need a more detailed characterization of the source zone architecture.