Biological activation of hydrous ferric oxide for reduction of hexavalent chromium in the presence of different anions

Shewanella alga BrY, a dissimilatory iron reducing bacterium (DIRB), transformed inert ferric oxides that are common in sediments, aquifer material and passivated permeable reactive iron barriers (PRBs), producing dissolved and sorbed Fe(II) capable of rapidly reducing and immobilizing Cr(VI). The effect of groundwater chemistry on the formation and reactivity of such microbial-produced, abiotic reductants was investigated. Batch reactors with high carbonate concentration (10 mM) were the most reactive, removing 66.0% ± 2.8 of Cr (VI) (76 mg/l) from liquid phase within 5 min. Treatments with high concentrations of sulfate (5.2 mM), chloride (10 mM), phosphate (1 mM) or silica (0.75 mM) were less reactive (about 40% removal). Loss of reactivity was observed possibly due to oxidation of Fe(II) (sorbed and dissolved) by Cr(VI). Normalization of Cr(VI) removal to the mass of biogenic solid present showed the following molar Cr/Fe ratios in solid phase: 0.185 ± 0.041 (carbonate), 0.146 ± 0.013 (sulfate), 0.092 ± 0.010 (silica), 0.075 ± 0.012 (phosphate) and 0.062 ± 0.012 (chloride). Overall, these results show that bacterial transformation of inert ferric oxides can contribute to the (abiotic) natural attenuation of Cr(VI) in and around PRBs, and that groundwater chemistry is an important determinant of biogenic solids reactivity.     

Response of microbial communities to different doses of chromate in soil microcosms

The toxic effect of chromate on soil microbial communities is not well documented, although microorganisms control biogeochemical cycling, contribute to formation of soil structure, regulate the fate of organic matter applied to soil. In this study the effects of short- and middle-term chromate on the soil microbial community were investigated. The shifts in the size and in the diversity of culturable heterotrophic bacterial community, the resistance to Cr(VI) of heterotrophic bacteria, the presence of cyanobacteria, the activity of 19 enzymes, and the ATP content were monitored over time (120 days) in soil microcosms artificially contaminated with three concentrations of chromate (50, 250 and 1000 mg kg⁻¹ soil). The chromate contamination affected the structure and the diversity of the soil bacterial community. Bacterial strains isolated from the microcosm contaminated with the highest concentration of chromate were identified by 16S rDNA gene sequencing. All isolates belonged to the genus Pseudomonas, were able to reduce Cr(VI), and showed a high resistance to chromate. To our knowledge, this is the first report that shows Pseudomonas strains having the capability to resist up to 40 mM of Cr(VI) on minimal medium. The cyanobacterial group was more sensitive to chromate contamination than culturable heterotrophic bacteria. No cyanobacterial growth was detected in enrichment cultures from the soil polluted with the highest chromate concentration. Some enzymes were inhibited by high concentrations of chromate, whereas others were stimulated. The ATP content in microcosms was strongly affected by chromate. We conclude that the soil microbial community responds to chromate pollution through changes in community structure, in metabolic activity, and in selection for Cr(VI)-resistance.     

Tag-encoded pyrosequencing analysis of bacterial diversity in a single soil type as affected by management and land use

Impacts of management and land use on soil bacterial diversity have not been well documented. Here we present the application of the bacterial tag encoded FLX amplicon pyrosequencing (bTEFAP) diversity method, which will promote studies in soil microbiomes. Using this modified FLX pyrosequencing approach we evaluated bacterial diversity of a soil (Pullman soil; fine, mixed, thermic Torrertic Paleustolls) with 38% clay and 34% sand (0–5 cm) under four systems. Two non-disturbed grass systems were evaluated including a pasture monoculture (Bothriochloa bladhii (Retz) S.T. Blake) [P] and a diverse mixture of grasses in the Conservation Reserve Program (CRP). Two agricultural systems were evaluated including a cotton (Gossypium hirsutum L.) -winter wheat (Triticum aestivum L.)-corn (Zea mays L.) rotation [Ct–W–Cr] and the typical practice of the region, which is continuous monoculture cotton (Ct–Ct). Differences due to land use and management were observed in soil microbial biomass C (CRP > P = Ct–W–Cr > Ct–Ct). Using three estimators of diversity, the maximum number of unique sequences operational taxonomic units (OTU; roughly corresponding to the species level) never exceeded 4500 in these soils at the 3% dissimilarity level. The following trend was found using the most common estimators of bacterial diversity: Ct–W–Cr > P = CRP > Ct–Ct. Predominant phyla in this soil were Actinobacteria, Bacteriodetes and Fermicutes. Bacteriodetes were more predominant in soil under agricultural systems (Ct–W–Cr and Ct–Ct) compared to the same soil under non-disturbed grass systems (P and CRP). The opposite trend was found for the Actinobacteria, which were more predominant under non-disturbed grass systems (P and CRP). Higher G? bacteria and lower G+ bacteria were found under Ct–W–Cr rotation and highest abundance of actinomycetes under CRP. The bTEFAP technique proved to be a powerful method to characterize the bacterial diversity of the soil studied under different management and land use in terms not only on the presence or absence, but also in terms of distribution.     

Single and mixture toxicity of gold nanoparticles and gold(III) to Enchytraeus buchholzi (Oligochaeta)

The ecotoxicity of gold nanoparticles (Au-NPs), gold(III) and their mixtures was assessed in the potworm Enchytraeus buchholzi after 14-day bioassays. The worms were exposed at 20 °C in OECD artificial soil to 0, 9.37, 18.7, 28.1 and 37.5 mg/kg Au-NPs or Au(III) and 0, 9.37 + 9.37, 18.7 + 18.7, 28.1 + 28.1, 37.5 + 37.5 mg Au-NPs + Au(III)/kg. The results indicated that the range of Au-NPs concentrations used in the present study was not deleterious to the survival and reproduction of E. buchholzi. Au(III) showed no significant effect on survival but was significantly deleterious to reproduction in the highest treatment (p ≤ 0.01). A 14-day EC50_Au(III) = 35.5 mg/kg was estimated for effects on reproduction. Au-NPs/Au(III) mixtures essentially caused the same effects as Au(III) except for 18.7 mg Au(III)/kg vs. 18.7 + 18.7 mg Au-NPs + Au(III)/kg where the mixture treatment was significantly more toxic to reproduction (p < 0.02). Mixture results suggested a seemingly additive effect between Au-NPs and Au(III), although the conventional toxic unit approach could not be used to ascertain this conclusively because of the lack of Au-NPs toxicity. The order of toxicity between Au-NPs, Au(III) and their mixtures was Au-NPs = Au(III) = Au-NPs/Au(III) for survival and Au-NPs < Au(III) ≤ Au-NPs/Au(III) for reproduction.     

Molecular and physiological bacterial diversity of a semi-arid soil contaminated with different levels of formulated atrazine

A semi-arid soil treated with different concentrations of formulated atrazine in a laboratory experiment was studied over 45 days, by different biological and molecular parameters (bacterial enumeration (cfu), community level physiological profiles (CLPPs) measured by Biolog^® and denaturing gradient gel electrophoresis (DGGE)), to study the bacterial community diversity.Formulated atrazine was almost totally degraded at different concentrations after this incubation time. The number of colony forming units (cfu) for soils with 100 and 1000 mg kg⁻¹ atrazine was significantly (p ≤ 0.05) higher than for the control, 1 and 10 mg kg⁻¹ treatments. DGGE banding patterns showed that regardless of time elapsed, concentrations of 10, 100 and 1000 mg kg⁻¹ atrazine in soil, affected the bacterial community compared to control and 1 mg kg⁻¹.The Shannon diversity index (H′) based on CLPP data showed a significant (p ≤ 0.05) decrease at atrazine concentrations of 100 and 1000 mg kg⁻¹. The Shannon diversity indices for different guilds of source carbon and the parameters K and r (based on the kinetics of colour formation rather than on the degree of colour development) were related to guilds of carbon substrates and atrazine concentration at a sampling time. The parameter K was very sensitive to atrazine effects on microbial communities.These biological and molecular parameters can be used to monitor changes in soils treated with atrazine at different concentrations, even when the pesticide is degraded.     

The effect of compost and Bacillus licheniformis on the phytoextraction of Cr,Cu, Pb and Zn by three brassicaceae species from contaminated soils in the Apulia region,Southern Italy

The selection of appropriate plant species is critical in the successful application of phytoremediation techniques. The present study is an attempt to assess the capability of three brassicaceae, Brassica alba (L.) Rabenh, Brassica carinata A. Braun and Brassica nigra (L.) Koch, for the phytoextraction of Cr, Cu, Pb and Zn from an unpolluted and polluted silty loamy soil added with either Bacillus licheniformis BLMB1 or compost or both. Experiments were conducted in a greenhouse in pots filled with the soils. In all experiments metals were shown to accumulate in shoots and roots of plants grown on polluted soils, and both compost and B. licheniformis BLMB1 strain were able to enhance the accumulation of metals, especially Cr. In particular, Cr accumulation in B. alba resulted higher than the Cr threshold for hyperaccumulator plants (1000 mg kg^? 1). This result provides a new plant resource that may have a potential use for phytoextraction of Cr from contaminated soil. However, because of the low bioconcentration factors (< 1) for all studied metals, these species cannot be regarded as suitable for the phytoextraction of excessive Cr, Cu, Pb and Zn from polluted soils. Thus, these species may be used with success only for low metal polluted soils.     

Perchlorate biodegradation in contaminated soils and the deep unsaturated zone

In the United States, perchlorate has been officially recognized as an environmental contaminant. In Israel, widespread perchlorate contamination has been found in the 40-m deep vadose zone near an ammonium perchlorate manufacturing plant north of Tel Aviv, above the central part of Israel's coastal aquifer, with peak concentrations of 1200 mg kg_sediment^?1. In this study, we examined the perchlorate-reduction potential by native microbial communities along this deep contaminated vadose zone profile. We analyzed the effect of various concentrations of nitrate on perchlorate reduction and determined whether perchlorate concentrations in the profile are toxic to the native microbial population. All experiments were performed in soil slurries with sediments taken from the contaminated site. Perchlorate was reduced to chloride in three (1, 15 and 35 m) of the four examined sediment samples taken from different depths (1, 15, 20, and 35 m below surface). No activity was observed in the sediment sample from 20 m below land surface, suggesting low viable microbial communities and water content, and high perchlorate concentrations. In the presence of nitrate, the lag time for perchlorate degradation was inversely correlated to nitrate concentration. We found no perchlorate degradation as long as nitrate was present in the system, and perchlorate degradation initiated only after all the nitrate had been reduced. Nitrate-reduction rates were correlated to the initial concentrations of nitrate and no lag period was observed for nitrate reduction. Viable microbial populations were observed at both high concentrations (10,000 mg l^?1 and 20,000 mg l^?1) and with no addition of perchlorate, at levels of 2.35 × 10⁵, 4.01 × 10⁵, and 3.41 × 10³ CFU ml^?1, respectively; these results were well correlated to those found by PCR amplification analysis of chlorite dismutase. We suggest that the microbial community has adapted to the conditions of high perchlorate concentrations in the unsaturated zone over 30 years of exposure. When no external carbon source was added to the slurry of soil from land surface, all perchlorate was removed after 134 days of incubation. The average perchlorate-reduction rate using natural organic matter as a carbon source was 0.45 mg day^?1, while the average rate using acetate as an external carbon source was 7.2 mg day^?1.     

Lumbricus terrestris L. does not impact on the remediation efficiency of compost and biochar amendments

The aim of this study was to test the impact of compost and biochar, with or without earthworms, on the mobility and availability of metals, and on the growth of grass to re-vegetate contaminated soil from the Parys Mountain mining site, Anglesey. We also determined if the addition of earthworms compromises remediation efforts.In a laboratory experiment, contaminated soil (1343 mg Cu kg^?1, 2511 mg Pb kg^?1 and 262 mg Zn kg^?1) was remediated with compost and/or biochar. After 77 days Lumbricus terrestris L. earthworms were added to the treatment remediated with both compost and biochar, and left for 28 days. L. terrestris was not able to survive in the biochar, compost or unamended treatments. A germination and growth bioassay, using Agrostis capillaris (Common Bent) was then run on all treatments for 28 days.The combination of biochar and compost decreased water soluble Cu (from 5.6 to 0.2 mg kg^?1), Pb (from 0.17 to less than 0.007 mg kg^?1) and Zn (from 3.3 to 0.05 mg kg^?1) in the contaminated soil and increased the pH from 2.7 to 6.6. The addition of L. terrestris to this treatment had no effect on the concentration of the water soluble metals in the remediated soil.The compost was the only treatment that resulted in germination and growth of A. capillaris suitable for re-vegetation purposes. However, the combination of compost and biochar (with or without L. terrestris) produced the lowest concentrations of Cu (8 mg kg^?1) and Zn (36 mg kg^?1) in the aboveground biomass, lower than the compost treatment (15 mg Cu kg^?1 and 126 mg Zn kg^?1).The addition of biochar and compost both separately and as co-amendments was effective in reducing the mobility and availability of metals. The addition of L. terrestris did not re-mobilise previously sequestered metals.     

Mercury affects the distribution of culturable species of Pseudomonas in soil

Pseudomonas bacteria isolated during 52 days on Gould's S1 agar from soil spiked with 0, 3.5 and 15 mg Hg(II) kg soil⁻¹ were characterised to reveal whether mercury affected them differently. Isolates from the treatments with 0 and 15 mg Hg kg⁻¹ were characterised using FT-IR characterisation and subsequent 16S rDNA partial sequencing of representative isolates. To verify the selectivity of Gould's S1 agar and the FT-IR characterisation, all 450 isolates were subjected to the following tests: Gram-determination, catalase and oxidase activity, pigment production on PDA and growth at different temperatures. Furthermore, the isolates were tested for their ability to grow on agar amended with 10 mg Hg kg⁻¹ as an indication of mercury resistance. We found that up to 80% of the isolates in soil amended with 15 mg Hg kg⁻¹ were mercury-resistant, whereas only up to 20% were resistant in the treatments with 0 and 3.5 mg Hg kg⁻¹. We found two groups of Pseudomonas, which probably represent non-described species since they did not group closely with any known species of Pseudomonas in the dendrogram. Hg-enhanced isolates were closely related to P. frederiksbergensis. Furthermore, Hg resistance was almost exclusively restricted to P. frederiksbergensis and P. migulae groups. We conclude that Hg caused a shift in the dominating species of culturable Pseudomonas.     

Structural and functional diversity of bacterial community in soil treated with the herbicide napropamide estimated by the DGGE,CLPP and r/K-strategy approaches

Napropamide is one of the most commonly used herbicide in agricultural practice and can exhibit toxic effect to soil microorganisms. Therefore, the main objective of this study was to examine the genetic and functional diversity of microbial communities in soil treated with napropamide at field rate (FR, 2.25 mg kg⁻¹ of soil) and 10 times the FR (10 × FR, 22.5 mg kg⁻¹ of soil) by the denaturing gradient gel electrophoresis (DGGE) and the community level physiological profile (CLPP) methods. In addition, the r/K-strategy approach was used to evaluate the effect of this herbicide on the community structure of the culturable soil bacteria. DGGE patterns revealed that napropamide affected the structure of microbial community; however, the richness (S) and genetic diversity (H) values indicated that the FR dosage of napropamide experienced non-significant changes. In turn, the 10 × FR dosage of herbicide caused significant changes in the S and H values of dominant soil bacteria. DGGE profiles suggest an evolution of bacteria capable of degrading napropamide among indigenous microflora. Analysis of the CLPPs indicated that the catabolic activity of microbial community expressed as AWCD (average well-color development) was temporary positively affected after napropamide application and resulted in an increase of the substrate richness (S_R) as well as functional biodiversity (H) values. Analysis of the bacterial growth strategy revealed that napropamide affected the r- or K-type bacterial classes (ecotypes). In treated-soil samples K-strategists dominated the population, as indicated by the decreased ecophysiological (EP) index. Napropamide significantly affected the physiological state of culturable bacteria and caused a reduction in the rate of colony formation as well as a prolonged time of growth rate. Obtained results indicate that application of napropamide may poses a potential risk for soil functioning.     

Surface soil responses to silage cropping intensity on a Typic Kanhapludult in the piedmont of North Carolina

Although reduced tillage itself is beneficial to soil quality and farm economics, the amount of crop residues returned to the soil will likely alter the success of a particular conservation tillage system within a farm operation. We investigated the impact of three cropping systems (a gradient in silage cropping intensity) on selected soil physical, chemical, and biological properties in the Piedmont of North Carolina, USA. Cropping systems were: (1) maize (Zea mays L.) silage/barley (Hordeum vulgare L.) silage (high silage intensity), (2) maize silage/winter cover crop (medium silage intensity), and (3) maize silage/barley grain—summer cover crop/winter cover crop (low silage intensity). There was an inverse relationship between silage intensity and the quantity of surface residue C and N contents. With time, soil bulk density at a depth of 0–3 cm became lower and total and particulate C and N fractions, and stability of macroaggregates became higher with lower silage intensity as a result of greater crop residue returned to soil. Soil bulk density at 0–3 cm depth was initially 0.88 Mg m⁻³ and increased to 1.08 Mg m⁻³ at the end of 7 years under high silage intensity. Total organic C at 0–20 cm depth was initially 11.7 g kg⁻¹ and increased to 14.3 g kg⁻¹ at the end of 7 years under low silage intensity. Stability of macroaggregates at 0–3 cm depth at the end of 7 years was 99% under low silage intensity, 96% under medium silage intensity, and 89% under high silage intensity. Soil microbial biomass C at 0–3 cm depth at the end of 7 years was greater with low silage intensity (1910 mg kg⁻¹) than with high silage intensity (1172 mg kg⁻¹). Less intensive silage cropping (i.e., greater quantities of crop residue returned to soil) had a multitude of positive effects on soil properties, even in continuous no-tillage crop production systems. An optimum balance between short-term economic returns and longer-term investments in improved soil quality for more sustainable production can be achieved in no-tillage silage cropping systems.     

Species richness and phylogenetic diversity comparisons of soil microbial communities affected by nickel-mining and revegetation efforts in New Caledonia

In order to understand the impact of human activities on soil microbial diversity, we investigated bacterial communities in samples recovered from four New Caledonia environments that have been disturbed by varying degrees of nickel mining associated activities: an undisturbed area with natural soil (characterized by pristine vegetation), a mine spoil (devoid of vegetation), two revegetated mine spoils by endemic plants. For each sample, total DNA was extracted and 16S rDNA clone library were constructed. 442 clones were sequenced and analyzed. Using these clones, diversity was estimated not only in terms of species richness (non-parametric estimators) and evenness (Reciprocal of Simpson's index), but also in terms of phylogenetic diversity (LIBSHUFF program). Statistically significant differences were detected in phylogenetic composition between mine spoils and natural soil (p = 0.001), between revegetated soils and natural soil (p = 0.001), and between revegetated soils and mine spoils (p = 0.001). On the other hand, no significant differences in species richness were observed between the different environmental samples.These findings provide insights into the response of bacterial community following environmental perturbations caused by nickel-mining activities and revegetation efforts.     

Influence of carbon amendments on soil denitrifier abundance in soil microcosms

It is known that carbon (C) amendments increase microbial activity in anoxic soil microcosm studies, however the effects on abundance of total and denitrifier bacterial communities is uncertain. Quantitative PCR was used to target the 16S rRNA gene for the total bacterial community, the nosZ functional gene to reflect a broad denitrifier community, and functional genes from narrow denitrifier communities represented by Pseudomonas mandelii and related species (cnorB_P) and Bosea/Bradyrhizobium/Ensifer spp. (cnorB_B). Repacked soil cores were amended with varying amounts of glucose and red clover plant tissue (0–1000 mg C kg^? 1 of soil) and incubated for 96 h. Carbon amendment significantly increased respiration as measured by cumulative CO₂ emissions. Inputs of red clover or glucose at 1000 mg C kg^? 1 of soil caused increased abundance in the total bacteria under the conditions used. There was about an approximate 2-fold increase in the abundance of bacteria bearing the nosZ gene, but only in treatments receiving 500 or 1000 mg C kg^? 1 of soil of glucose or red clover, respectively. Additions of ≥ 500 mg C kg^? 1 soil of red clover and ≥ 250 mg C kg^? 1 of glucose increased cnorB_P-gene bearing denitrifiers. Changes in abundance of the targeted communities were related to C availability in soil, as indicated by soil respiration, regardless of C source. Applications of C amendments at rates that would occur in agricultural soils not only increase microbial activity, but can also induce changes in abundance of total bacterial and denitrifier communities in studies of anoxic soil microcosms.     

Integrated soil fertility management enhances population and effectiveness of indigenous cowpea rhizobia in semi-arid eastern Kenya

Legume biological nitrogen fixation is an environmentally friendly and economical means that can reduce low resource farmer dependence on expensive chemical nitrogen (N) fertilizers. We investigated the effect of two cowpea (Vigna unguiculata (L.) Walp) varieties (IT95K-52-34, an international variety from IITA and Kang’au, a local variety) under an integrated soil fertility management trial on indigenous symbiotic rhizobia in a semi-arid farmer's field in eastern Kenya. The ox-ploughed field trial had the following treatments: an unamended control, manure applied at 2.5 t ha⁻¹, triple superphosphate (TSP as (P₂O₅, 0:46:0) at 15 kg ha⁻¹; and a combination of manure and TSP applied at the single rates. Soil samples were collected from each treatment during planting and harvesting of the cowpea crop and used in most probable number (MPN) plant infection assays with the two cowpea varieties as traphosts in Leonard jar growth systems and grown under glasshouse conditions. Generally, soil amendments enhanced cowpea rhizobial populations which varied from 4.89 × 10² rhizobia g⁻¹ soil to 1.074 × 10³ rhizobia g⁻¹ soil. The highest shoot biomass accumulation occurred on cowpea variety IT95K-52-34 plants inoculated with soils from the manure applied plots. We isolated 150 fast- and slow-growing cowpea rhizobia. Contrary to most previous studies, the bulk (97%) of the isolates was fast growing which grouped into 9 types on the growth characteristics on yeast extract agar (YEMA). The study indicated that ISFM was important for rhizobia population build up over a cowpea-growing season.     

Life-history traits and population growth rate in the laboratory of the earthworm Dendrobaena octaedra cultured in copper-contaminated soil

A study on the widespread earthworm Dendrobaena octaedra was conducted to determine which individual life history traits were the most sensitive to copper and to determine the contribution of changes in individual traits to changes in the population growth rate (λ). The study showed that the effect of copper on population growth rate mirrored the effects seen on growth, maturation and reproductive output, with stimulation at the lowest concentrations and inhibition at the highest concentration. A decomposition analysis showed that the mean change in λ was mainly driven by time between consecutive cocoon productions, except at the highest copper concentration (200 mg/kg dry soil) where decreased production of fertile cocoons also contributed to the reductions in λ. The highest population growth rate (λ = 1.18 week⁻¹) occurred at 80 mg Cu/kg dry soil. At higher concentrations λ became gradually smaller, and was almost 1 week⁻¹ (where no population increase or decrease occurs) at the highest exposure concentration of 200 mg Cu/kg dry soil suggesting that extinction would occur if a population of D. octaedra were to be exposed to copper concentrations only slightly higher than this level.     

Tolerance,growth and degradation of phenanthrene and benzo[a]pyrene by Rhizobium tropici CIAT 899 in liquid culture medium

Polycyclic aromatic hydrocarbons (PAH) are ubiquitous pollutants that are toxic and recalcitrant to degradation by bacteria. This research evaluated the toxicity of different concentrations [10, 20, 40, 60, 80 and 100 μg mL⁻¹] of phenanthrene (PHE) or benzo[a]pyrene (BaP) on the growth of Rhizobium tropici CIAT899 under in vitro conditions as well as the potential degradation of PHE and BaP by this bacterium. At 24 h, a 40% decrease in Rhizobium growth was observed when exposed to 40 μg mL⁻¹ of either PHE or BaP. Furthermore, bacterial growth was completely inhibited by PHE or BaP applied in 80 and 100 μg mL⁻¹. After 96 h, the growth of R. tropici at 40 μg PHE mL⁻¹ or 60 μg BaP mL⁻¹ was similar to those treatments without PAH. To evaluate R. tropici degrading capabilities, supernatants of cultures with 40 μg PHE mL⁻¹ or 60 μg BaP mL⁻¹ were analyzed by gas chromatography coupled to mass spectrophotometer (GC–MS). R. tropici was able to degrade either PHE or BaP diminishing its concentration in 20% and 25% during the first 24 h, degradation obtained at 120 h was 50% and 45% for PHE or BaP, respectively. This research shows for the first time that R. tropici CIAT 899 grows in liquid culture medium contaminated with PAH, and moreover is able to growth and to degrade either PHE or BaP.     

Influence of microorganisms on arsenic mobilization and speciation in a submerged contaminated soil: Effects of citrate

Batch-type leaching experiments were performed on polluted soil contaminated by pyrite cinders to evaluate the effect of indigenous bacteria on arsenic mobilization. The bacteria, under submerged conditions using citrate as the carbon source, enhanced the solubilization of arsenic, iron and manganese. At the same time, 85 mg kg⁻¹ of copper were abiotically released. Iron reduction significantly (p < 0.05) enhanced the release of arsenic. During 7 days of incubation at high redox potential, the arsenite content increased suggesting aerobic arsenic-resistant bacteria bearing arsC genes as key players for arsenate reduction. Arsenate became prevalent in consequence of arsenic liberation from iron oxides and the lowering of redox potential, driven by citrate, inhibited the growth and activity of arsenate-resistant bacteria. Populations of Bacillus, Pseudomonas, and Geobacter were stimulated by the addition of citrate as evidenced by denaturing gradient gel electrophoresis analysis of 16S rRNA genes. Putative ars genes were retrieved in isolates of Bacillus and Pseudomonas. These isolates were able to reduce 2 mmol l⁻¹ of arsenate in liquid cultures. These results confirm that microorganisms play an important role in As cycling in soils and highlight the complex role of citrate on biotic and abiotic transformations of inorganic contaminants. The environmental dispersion of arsenic can be retarded by resorption or coprecipitation processes occurring during flooding. Nevertheless, periodic flooding can be a crucial factor for the groundwater quality and the soil–water–plant systems.     

Complementarity of bioassays and microbial activity measurements for the evaluation of hydrocarbon-contaminated soils quality

In order to describe a soil polluted with hydrocarbons, the complementarity of bioassays and microbial activities measurements was studied. The samples of soil were taken from a site which had received oil tank residues over 50 years. Five zones were sampled. Each sample was characterized by chemical analyses, the measurement of dehydrogenase, phosphatase, hydrolysis of FDA and urease activities, soil respiration, and Microtox and Metplate bioassays. The chemical analyses revealed different levels of total hydrocarbon concentrations (from 1.5 to 78.8 mg/kg of dry soil) but also relatively high quantities of nickel (from 14.5 to 841.6 mg/kg of dry soil) and lead (30.9–355.4 mg/kg of dry soil) or cadmium (0–1.2 mg/kg of dry soil) in the different zones. Urease and dehydrogenase were sensitive to the presence of metals (31% inhibition of urease and 50% inhibition of dehydrogenase in the most contaminated soil). Measurements of Substrate Induced Respiration showed that the soil microflora were stressed in the presence of the pollutants. In the zone containing the highest concentration of metals, the microbial activities were low and the bioassays revealed a high potential toxicity (e.g. IC50 for Microtox obtained with a 15% dilution of soil, 90% inhibition of β-galactosidase activity). In the other zones, the soil microbial activities were not depressed in comparison to the reference zone whereas the bioassays revealed the presence of toxic compounds extracted with the solvent used.     

Plant growth promoting potential of Pontibacter niistensis in cowpea (Vigna unguiculata (L.) Walp.)

During the past couple of decades, understanding of rhizosphere biology has progressed with the discovery of a special group of microorganisms known as plant growth promoting rhizobacteria (PGPR) and its application for sustainable agriculture has increased tremendously in various parts of the world. The search for microorganisms that improve soil fertility and enhance plant nutrition has continued to attract attention due to the increasing cost of fertilizers and some of their negative environmental impacts. In this study we demonstrated, a novel bacterial species Pontibacter niistensis NII-0905 isolated from forest soil in Western ghat forest soil with potential plant growth promoting ability (PGP) such as phosphate solubilization, indole acetic acid (IAA), siderophore and hydrogen cyanide (HCN) production. The activity varies with different growth temperatures, strain solubilize 28.5 ± 0.9, 48.02 ± 1.9 and 65.07 ± 2.1 μg mL⁻¹ at 4, 15 and 30 °C respectively and produced 24.8 μg mL⁻¹ day⁻¹ of indole acetic acid (IAA) in tryptophan amended media. Qualitative detection of siderophore production and HCN were also detected at all temperature tested. At a lower temperature (4 °C) strain NII-0905 retained all the plant growth promotion attributes. A significant increase in the growth of cow pea was recorded with inoculations of strain NII-0905 in pot experiments. Scanning electron microscopic study revealed the root colonization on cow pea seedlings against the untreated one. These results demonstrate that, the isolate NII-0905 has the promising PGPR attributes for both in cold as well as in humid condition. It has potential as a biofertilizer to enhance soil fertility and promote the plant growth.     

Design of riparian buffer strips affects soil quality parameters

Vegetated buffer strips alongside watercourses are commonly used to counteract diffuse pollution from agricultural activities. If properly designed, they can provide multiple environmental benefits by increasing wildlife habitats and biodiversity. Little attention has been paid to the effects of buffer strips on soil quality. This study was conducted to determine the impact of different buffer designs on soil biochemical parameters and to define relevant quality parameters for soil monitoring. We compared four buffer arrangements: 3 m wide grass buffer; 3 m grass with one tree row; 6 m grass with one tree row; 6 m grass with two tree rows; plus two controls: an adjacent maize crop field and a plot without buffer. Buffers were established 13 years ago at the Padua University Experimental Farm in the Po Valley, north-east Italy. Studied parameters included soil organic matter composition and soil microbial and enzymatic assays. As expected, control plots showed the lowest values for all the studied parameters. Among buffer designs, 3 m grass and 3 m grass with 1 tree row buffers gave the highest values. Multivariate analysis demonstrated that the increase of soil organic carbon content distinguished buffers from controls, whereas soil humic carbon quality parameters such as humic compounds apparent molecular weight, together with acetyl esterase (fluorescein test) enzyme activity, were discriminatory in separating buffer designs. These results are an important contribution to the knowledge base and can help to improve the management of these systems.