Isolation and characterization of lead-tolerant Ochrobactrum intermedium and its role in enhancing lead accumulation by Eucalyptus camaldulensis

The Roles of Plant-Growth-Promoting Rhizobacteria (PGPR)-Based Biostimulants for Agricultural Production Systems

The application of biostimulants has been proven to be an advantageous tool and an appropriate form of management towards the effective use of natural resources, food security, and the beneficial effects on plant growth and yield. Plant-growth-promoting rhizobacteria (PGPR) are microbes connected with plant roots that can increase plant growth by different methods such as producing plant hormones and molecules to improve plant growth or providing increased mineral nutrition. They can colonize all ecological niches of roots to all stages of crop development, and they can affect plant growth and development directly by modulating plant hormone levels and enhancing nutrient acquisition such as of potassium, phosphorus, nitrogen, and essential minerals, or indirectly via reducing the inhibitory impacts of different pathogens in the forms of biocontrol parameters. Many plant-associated species such as Pseudomonas, Acinetobacter, Streptomyces, Serratia, Arthrobacter, and Rhodococcus can increase plant growth by improving plant disease resistance, synthesizing growth-stimulating plant hormones, and suppressing pathogenic microorganisms. The application of biostimulants is both an environmentally friendly practice and a promising method that can enhance the sustainability of horticultural and agricultural production systems as well as promote the quantity and quality of foods. They can also reduce the global dependence on hazardous agricultural chemicals. Science Direct, Google Scholar, Springer Link, CAB Direct, Scopus, Springer Link, Taylor and Francis, Web of Science, and Wiley Online Library were checked, and the search was conducted on all manuscript sections in accordance with the terms Acinetobacter, Arthrobacter, Enterobacter, Ochrobactrum, Pseudomonas, Rhodococcus, Serratia, Streptomyces, Biostimulants, Plant growth promoting rhizobactera, and Stenotrophomonas. The aim of this manuscript is to survey the effects of plant-growth-promoting rhizobacteria by presenting case studies and successful paradigms in various agricultural and horticultural crops.

Reactive effects of pre-sowing magnetic field exposure on morphological characteristics and antioxidant ability of Brassica juncea in phytoextraction

As magnetic fields constantly act on living and biochemical processes, it is reasonable to hypothesize that magnetic field treatment of plant seeds would enhance the uptake capacity of non-essential elements. To verify this hypothesis, seeds of Brassica juncea were treated with 50, 100, 150, 200, and 400 mT fields, and the dry weight, Cd uptake capacity, ferritin content, antioxidant enzyme activity, and phytoremediation effects of the plant were compared at the end of the experiment. Relative to the control, low- and moderate-intensity fields (50-200 mT) enhanced the dry weight of plant leaves by 15.1%, 24.5%, 35.8%, and 49.1%, respectively, whereas the high-intensity field (400 mT) decreased the biomass yield by 18.9%. The content of Cd in the above-ground tissues of B. juncea enhanced with the increasing field intensity, accompanied by an increase in oxidative damage. The activities of superoxide dismutase (SOD) and ascorbate peroxidase (APX) increased with exposure to low (50 and 100 mT) and moderate (150 and 200 mT) intensities, followed by a reduction at a high intensity (400 mT). Catalase activity (CAT) and ferritin content exhibited an increasing trend with increasing intensity. The Cd decontamination index of B. juncea increased with the increasing magnetic field intensity until it reached a peak at 150 mT, after which the values remained constant. Considering the phytoremediation effect and energy consumption, 150 mT was the optimal scheme for magnetic-field-assisted phytoremediation using B. juncea. This study suggests that a suitable magnetic field can be regarded as an ecologically friendly physical trigger to improve the phytoextraction effect of B. juncea.

Remediation of Pb-diesel fuel co-contaminated soil using nano/bio process: subsequent use of nanoscale zero-valent iron and bioremediation approaches

The effectiveness of the nano/bio process was investigated as a remediation option for co-contaminated soils. Nano/bio process is a hybrid treatment method that may be defined as the use of nanoscale zero-valent iron (nZVI) and bioremediation approaches subsequently/concurrently. Different bioremediation approaches (bioattenuation, biostimulation, and/or bioaugmentation) were performed together with nZVI application to remediate Pb- and diesel fuel-spiked soils. Nutrient (N and P) and activated sludge amendment were made to realize biostimulation and bioaugmentation, respectively. The nZVI application decreased the total percentage of the most mobile and bioavailable soil Pb fractions (exchangeable and carbonate-bound) from 68.3 to 31.7%. The biodegradation levels of nZVI-applied co-contaminated soils were significantly higher than the soils without nZVI indicating the positive effect of the reduced mobility, bioavailability, and toxicity of Pb content. The use of nano/biostimulation or nano/bioaugmentation treatments resulted in higher than 60% total n-alkane degradation, whereas 89.5% degradation was obtained by using nano/biostimulation + bioaugmentation. Hydrocarbon-degrader strains belonging to phyla Actinobacteria, Proteobacteria, or Firmicutes were identified from samples subjected to nano/bio process and the strains from biostimulation and bioaugmentation treatments were different. These results indicate that the stress on the microbial population caused by the co-contamination might be subsided and the biodegradation of alkanes might be improved by using the nano/bio process.

Plant microbe based remediation approaches in dye removal: A review

Increased industrialization demand using synthetic dyes in the newspaper, cosmetics, textiles, food, and leather industries. As a consequence, harmful chemicals from dye industries are released into water reservoirs with numerous structural components of synthetic dyes, which are hazardous to the ecosystem, plants and humans. The discharge of synthetic dye into various aquatic environments has a detrimental effect on the balance and integrity of ecological systems. Moreover, numerous inorganic dyes exhibit tolerance to degradation and repair by natural and conventional processes. So, the present condition requires the development of efficient and effective waste management systems that do not exacerbate environmental stress or endanger other living forms. Numerous biological systems, including microbes and plants, have been studied for their ability to metabolize dyestuffs. To minimize environmental impact, bioremediation uses endophytic bacteria, which are plant beneficial bacteria that dwell within plants and may improve plant development in both normal and stressful environments. Moreover, Phytoremediation is suitable for treating dye contaminants produced from a wide range of sources. This review article proves a comprehensive evaluation of the most frequently utilized plant and microbes as dye removal technologies from dye-containing industrial effluents. Furthermore, this study examines current existing technologies and proposes a more efficient, cost-effective method for dye removal and decolorization on a big scale. This study also aims to focus on advanced degradation techniques combined with biological approaches, well regarded as extremely effective treatments for recalcitrant wastewater, with the greatest industrial potential.

Thermophilic Composting of Human Feces: Development of Bacterial Community Composition and Antimicrobial Resistance Gene Pool

In times of climate change, practicing sustainable, climate-resilient, and productive agriculture is of primordial importance. Compost from different resources, now treated as wastes, could be one form of sustainable fertilizer creating a resilience of agriculture to the adverse effects of climate change. However, the safety of the produced compost regarding human pathogens, pharmaceuticals, and related resistance genes must be considered. We have assessed the effect of thermophilic composting of dry toilet contents, green cuttings, and straw, with and without biochar, on fecal indicators, the bacterial community, and antibiotic resistance genes (ARGs). Mature compost samples were analyzed regarding fecal indicator organisms, revealing low levels of Escherichia coli that are in line with German regulations for fertilizers. However, one finding of Salmonella spp. exceeded the threshold value. Cultivation of bacteria from the mature compost resulted in 200 isolates with 36.5% of biosafety level 2 (BSL-2) species. The majority is known as opportunistic pathogens that likewise occur in different environments. A quarter of the isolated BSL-2 strains exhibited multiresistance to different classes of antibiotics. Molecular analysis of total DNA before and after composting revealed changes in bacterial community composition and ARGs. 16S rRNA gene amplicon sequencing showed a decline of the two most abundant phyla Proteobacteria (start: 36-48%, end: 27-30%) and Firmicutes (start: 13-33%, end: 12-16%), whereas the abundance of Chloroflexi, Gemmatimonadetes, and Planctomycetes rose. Groups containing many human pathogens decreased during composting, like Pseudomonadales, Bacilli with Bacillus spp., or Staphylococcaceae and Enterococcaceae. Gene-specific PCR showed a decline in the number of detectable ARGs from 15 before to 8 after composting. The results reveal the importance of sufficiently high temperatures lasting for a sufficiently long period during the thermophilic phase of composting for reducing Salmonella to levels matching the criteria for fertilizers. However, most severe human pathogens that were targeted by isolation conditions were not detected. Cultivation-independent analyses also indicated a decline in bacterial orders comprising many pathogenic bacteria, as well as a decrease in ARGs. In summary, thermophilic composting could be a promising approach for producing hygienically safe organic fertilizer from ecological sanitation.

Morphological and structural response of Bacillus sp. SFC 500-1E after Cr(VI) and phenol treatment

Bacillus sp. SFC 500-1E, a bacterial strain isolated from tannery sediments, is able to remove Cr(VI) and simultaneously tolerate high concentrations of phenol. In this study, we used high-resolution microscopies, fluorescence polarization techniques, and several biochemical approaches to improve our understanding about the adaptive mechanisms of this strain to survive in the presence of Cr(VI) and phenol, both individually and simultaneously. Among adaptive strategies developed by Bacillus sp. SFC 500-1E, an increase in bacterial size, such as length, width, and height, and ultrastructural alterations, such as electron-dense precipitates, the presence of exopolymers, and cell lysis, are noteworthy. The exopolymers observed were consistent with the extensive biofilm formation and exopolysaccharides and extracellular protein quantification. At the cell membrane level, a rapid rigidity was induced in Cr(VI) + phenol treatment. This effect was counteracted after 16 h by changes at the level of phospholipids, mainly in the composition of fatty acids (FAs); in particular, an increase in the unsaturated fatty acid/saturated fatty acid ratio was detected. This study shows evidence of some adaptive responses displayed by Bacillus sp. SFC 500-1E, which allows it to survive in stressful conditions.

Characterization of novel thorium tolerant Ochrobactrum intermedium AM7 in consort with assessing its EPS-Thorium binding

Currently, radioactive waste is disposed primarily by burial in a deep geological repository. Microorganisms thriving in such contaminated environment show tolerance to radionuclides. In the present study the bacterial flora, from soil sample collected from an area around atomic power station exposed to radionuclides and heavy metals, was cultivated and assessed for thorium (Th) tolerance. Of all the isolates, strain AM7 identified as O. intermedium was selected since it could thrive at high levels of Th (1000 mg L^-1). AM7 was characterized physico-chemically and its culture medium was optimized using central composite design of response surface methodology for assessing its growth properties in presence of Th. The strain also showed exceptional exopolysaccharide (EPS) production and its yield was further analyzed using one factor study to investigate the influence of each medium component. On supplementing the EPS medium with Th, no significant decrease in yield was observed. FTIR spectroscopy revealed the functional groups of EPS involved in EPS-Th binding. To the best of our knowledge, this is the first report showing exceptional Th-tolerance by any bacteria. Such study will help other researchers to strategize an environment-friendly way of radwaste disposal.

Mechanism and performance of trace metal removal by continuous-flow constructed wetlands coupled with a micro-electric field

Constructed wetlands coupled with a micro-electric field (CW-MEF) is a novel and efficient water treatment technology. The objective of this study was to investigate the mechanism and performance of trace metals (TMs) removal for CW-MEF systems during summer and winter. The mass distribution of TMs in plants and biofilms, physiological indices of wetland plants, and bacterial community structures on electrodes and in the rhizospheres were analyzed as well as to explore further the TM removal mechanism. Results show that the electric field intensities (EFI) of 100 and 200 mV cm^-1 had a significantly promoting effect on TM removal. Maximum removal efficiencies for Cu, Zn, Cd, Co, Ni and Pb were 95.6, 80.1, 74.0, 67.1, 69.8 and 99.6%, respectively, in summer with a 5d-hydraulic retention time (HRT). An EFI of 100 mV cm^-1 could alleviate the oxidative damage in plant cells by promoting the synthesis of reduced glutathione and an activity increase of catalase, thus increasing the phytoextraction for Cu, Zn and Cd. For biofilms, the MEF caused shifts in the bacterial community structures, and an EFI of 50 to 200 mV cm^-1 significantly promoted the enrichment of Cu, Zn, Cd and Co by biofilms. Moreover, microorganisms related to TM tolerance and enrichment exhibited a high abundance with an EFI of 100 and 200 mV cm^-1. It can be concluded that introducing MEF to CWs could intensify the TMs removal via the biological process and result in more efficient purification for TM-containing wastewater.

The effect of lead pollution on nutrient solution pH and concomitant changes in plant physiology of two contrasting Solanum melongena L. cultivars

Lead (Pb) is highly toxic to plants because it severely affects physiological processes by altering nutrient solution pH. The current study elucidated Pb-induced changes in nutrient solution pH and its effect on physiology of two Solanum melongena L. cultivars (cv. Chuttu and cv. VRIB-13). Plants were grown in black plastic containers having 0, 15, 20, and 25 mg L^-1 PbCl₂ in nutrient solutions with starting pH of 6.0. pH changes by roots of S. melongena were continuously monitored for 8 days, and harvested plants were analyzed for physiological and biochemical attributes. Time scale studies revealed that cv. Chuttu and cv. VRIB-13 responded to Pb stress by causing acidification and alkalinization of growth medium during the first 48 h, respectively. Both cultivars increased nutrient solution pH, and maximum pH rise of 1.21 units was culminated by cv. VRIB-13 at 15 mg L^-1 Pb and 0.8 units by cv. Chuttu at 25 mg L^-1 Pb treatment during the 8-day period. Plant biomass, photosynthetic pigments, ascorbic acid, total amino acid, and total protein contents were significantly reduced by Pb stress predominantly in cv. Chuttu than cv. VRIB-13. Interestingly, chlorophyll contents of cv. VRIB-13 increased with increasing Pb levels. Pb contents of roots and shoots of both cultivars increased with applied Pb levels while nutrient (Ca, Mg, K, and Fe) contents decreased predominately in cv. Chuttu. Negative correlations were identified among Pb contents of eggplant roots and shoots and plant biomasses, leaf area, and free anthocyanin. Taken together, growth medium alkalinization, lower root to shoot Pb translocation, and optimum balance of nutrients (Mg and Fe) conferred growth enhancement, ultimately making cv. VRIB-13 auspicious for tolerating Pb toxicity as compared with cv. Chuttu. The research outcomes are important for devising metallicolous plant-associated strategies based on plant pH modulation response and associated metal uptake to remediate Pb-polluted soil.

Comparative Analyses of the Microbial Communities Inhabiting Coal Mining Waste Dump and an Adjacent Acid Mine Drainage Creek

Microbial communities inhabiting the acid mine drainage (AMD) have been extensively studied, but the microbial communities in the coal mining waste dump that may generate the AMD are still relatively under-explored. In this study, we characterized the microbial communities within these under-explored extreme habitats and compared with those in the downstream AMD creek. In addition, the interplay between the microbiota and the environmental parameters was statistically investigated. A Random Forest ensemble model indicated that pH was the most important environmental parameter influencing microbial community and diversity. Parameters associated with nitrogen cycling were also critical factors, with positive effects on microbial diversity, while S-related parameters had negative effects. The microbial community analysis also indicated that the microbial assemblage was driven by pH. Various taxa were enriched in different pH ranges: Sulfobacillus was the indicator genus in samples with pH < 3 while Acidobacteriaceae-affiliated bacteria prevailed in samples with 3 < pH < 3.5. The detection of some lineages that are seldom reported in mining areas suggested the coal mining dumps may be a reservoir of phylogenetic novelty. For example, potential nitrogen fixers, autotrophs, and heterotrophs may form diverse communities that actively self-perpetuate pyrite dissolution and acidic waste generation, suggesting unique ecological strategies adopted by these innate microorganisms. In addition, co-occurrence network analyses suggest that members of Acidimicrobiales play important roles in interactions with other taxa, especially Fe- and S-oxidizing bacteria such as Sulfobacillus spp.

Membrane Rigidity and Phosphatidic Acid (PtdOH) Signal: Two Important Events in Acinetobacter guillouiae SFC 500-1A Exposed to Chromium(VI) and Phenol

The remodeling of membrane lipids is a mechanism that allows microorganisms to survive in unfavorable environments such as industrial effluents, which often contain inorganic and organic pollutants, like chromium and phenol. In the present work, we evaluated the effect of Cr(VI) and phenol on the membrane of Acinetobacter guillouiae SFC 500-1A, a bacterial strain isolated from tannery sediments where such pollutants can be found. The presence of lipid kinases and phospholipases and the changes in their activities under exposure to these pollutants were determined. Cr(VI) and Cr(VI) + phenol caused the membrane to become more rigid for up to 16 h after exposure. This could be due to an increase in cardiolipin (Ptd₂ Gro) and a decrease in phosphatidylethanolamine (PtdEtn), which are indicative of more order and rigidity in the membrane. Increased phospholipase A activity (PLA, EC 3.1.1.4) could be responsible for the decrease in PtdEtn levels. Moreover, our results indicate that Cr(VI) and Cr(VI) + phenol trigger the phosphatidic acid (PtdOH) signal. The finding of significantly increased phosphatidylinositol-4-phosphate (PtdIns-4-P) levels means this is likely achieved via PtdIns-PLC/DGK. This report provides the first evidence that A. guillouiae SFC 500-1A is able to sense Cr(VI) and phenol, transduce this signal through changes in the physical state of the membrane, and trigger lipid-signaling events.

Characterization of iron-metabolizing communities in soils contaminated by acid mine drainage from an abandoned coal mine in Southwest China

Acid mine discharge (AMD) has been demonstrated to have significant impacts on microbial community composition in the surrounding soil environment. However, their effect on adjacent soil has not been extensively studied. In this study, microbial community composition of 20 AMD-contaminated soil samples collected from an abandoned coal mine along an AMD creek was characterized using high-throughput sequencing. All samples were characterized as extremely low in pH (< 3) and relatively enriched in HCl-extractable Fe species. The dominant phylotypes were belonging to genera Ochrobactrum, Acidiphilium, Staphylococcus, Brevibacterium, and Corynebacterium. Canonical correspondence analysis results revealed that the HCl-extractable Fe(III) had a strong impact on the soil microbial assemblage. Co-occurrence network analysis revealed that Aquicella, Acidobacteriaceae, Ochrobactrum, Enhydrobacter, Sphingomonas, and Legionellales were actively correlated with other taxa. As expected, most of the abundant taxa have been reported as acidophilic Fe-metabolizing bacteria. Hence, a co-occurring sub-network and a phylogenetic tree related to microbial taxa responsible for Fe metabolism were constructed and described. The biotic interaction showed that Dechloromonas exhibited densely connections with Fe(III)-reducing bacteria of Comamonas, Burkholderia, Shewanella, Stenotrophomonas, Acidithiobacillus, and Pseudomonas. These results demonstrated that Fe-metabolizing bacteria could have an important role in the Fe biogeochemical cycling.

Characterization of three Pb-resistant fungi and their potential Pb2+ ions adsorption capacities

Bioremediation is preferred in heavy metal remediation, and the high-performance microbe is of prime importance. In the present research, three Pb-resistant microbes were isolated and growth characteristics and adsorption capacities were evaluated. The results showed that R. oryzae SD-1, T. asperellum SD-5, and M. irregularis SD-8 can grow well under 100 mg L^-1 Pb²⁺ ions stress. There is a higher minimum inhibitory concentration (MIC) of Pb but lower MICs of Cd and Zn in T. asperellum SD-5. However, there were similar MICs of Cu among the three microbes. R. oryzae SD-1 exhibited a higher adsorption capacity and removal rate relative to the other two microbes under various Pb²⁺ ion levels. The Langmuir equation was fitted for the adsorption capacity of T. asperellum SD-5 and M. irregularis SD-8, and their maximum adsorption capacities were approximately 456.62 mg g^-1 and 93.62 mg g^-1. Moreover, the Elovich equation and the double constant equation can describe the adsorption process of Pb²⁺ ions in Pb-resistant microbes well. The strongest adsorption capacity under lower Pb²⁺ ion level was observed in M. irregularis SD-8, while the strongest adsorption capacities under higher Pb²⁺ ion levels were seen in R. oryzae SD-1 and T. asperellum SD-5. Therefore, three novel Pb-resistant microbes may be used as efficient, easily cultivated materials for Pb-contaminated soil remediation.

Identification and analysis of 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene from glyphosate-resistant Ochrobactrum intermedium Sq20

BACKGROUND

Glyphosate is a herbicide that acts by inhibition of the enzyme, 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS), involved in the catalysis of an essential step in the biosynthesis of aromatic amino acids. The objective of this study was the isolation of glyphosate-resistant bacterial strains and subsequent characterization of the gene(s) encoding glyphosate resistance in these isolates. Using an enrichment culture technique, a glyphosate-resistant bacterium, Ochrobactrum intermedium Sq20 was isolated from glyphosate-contaminated indigenous soil and characterized.

RESULTS

An open reading frame (ORF) comprising of 1353 bp potentially encoding aroAO. intermediumSq20 was amplified from O. intermedium Sq20. It showed 97% homology with aroA genes from other Ochrobactrum spp. Physicochemical characterization revealed that aroAO. intermediumSq20 encodes a polypeptide of 450 amino acids with a calculated molecular mass of 48.9782 kDa and an isoelectric point of 5.21. Secondary structure prediction of AroAO. intermediumSq20 demonstrated a high percentage of random coils and α helices. Methodical optimization and validation of the protein structure helped to build a reliable protein model indicating the presence of 91.8% amino acid residues in most favoured regions. In addition, strain Sq20 was found to be capable of complete degradation of glyphosate at 500 mg L-1 initial concentration as the sole carbon and energy source within 4 days.

CONCLUSION

A glyphosate-resistant bacterial strain O. intermedium Sq20 was discovered. Sequence analysis and structure modelling demonstrated that AroAO. intermediumSq20 closely resembles class II EPSPS and possesses high glyphosate resistance. This provides a good foundation for functional analysis of experimentally derived crystal structures. The cloning and characterization of AroAO. intermediumSq20 will further help in understanding its role at the molecular level and its potential use in the production of glyphosate-resistant transgenic crops. © 2017 Society of Chemical Industry.

Competitive Traits Are More Important than Stress-Tolerance Traits in a Cadmium-Contaminated Rhizosphere: A Role for Trait Theory in Microbial Ecology

Understanding how biotic and abiotic factors govern the assembly of rhizosphere-microbial communities is a long-standing goal in microbial ecology. In phytoremediation research, where plants are used to remediate heavy metal-contaminated soils, a deeper understanding of rhizosphere-microbial ecology is needed to fully exploit the potential of microbial-assisted phytoremediation. This study investigated whether Grime's competitor/stress-tolerator/ruderal (CSR) theory could be used to describe the impact of cadmium (Cd) and the presence of a Cd-accumulating plant, Carpobrotus rossii (Haw.) Schwantes, on the assembly of soil-bacterial communities using Illumina 16S rRNA profiling and the predictive metagenomic-profiling program, PICRUSt. Using predictions based on CSR theory, we hypothesized that Cd and the presence of a rhizosphere would affect community assembly. We predicted that the additional resource availability in the rhizosphere would enrich for competitive life strategists, while the presence of Cd would select for stress-tolerators. Traits identified as competitive followed CSR predictions, discriminating between rhizosphere and bulk-soil communities whilst stress-tolerance traits increased with Cd dose, but only in bulk-soil communities. These findings suggest that a bacterium's competitive attributes are critical to its ability to occupy and proliferate in a Cd-contaminated rhizosphere. Ruderal traits, which relate to community re-colonization potential, were synergistically decreased by the presence of the rhizosphere and Cd dose. Taken together this microcosm study suggests that the CSR theory is broadly applicable to microbial communities. Further work toward developing a simplified and robust strategy for microbial CSR classification will provide an ecologically meaningful framework to interpret community-level changes across a range of biomes.

Ochrobactrum sp. MPV1 from a dump of roasted pyrites can be exploited as bacterial catalyst for the biogenesis of selenium and tellurium nanoparticles

Background

Bacteria have developed different mechanisms for the transformation of metalloid oxyanions to non-toxic chemical forms. A number of bacterial isolates so far obtained in axenic culture has shown the ability to bioreduce selenite and tellurite to the elemental state in different conditions along with the formation of nanoparticles—both inside and outside the cells—characterized by a variety of morphological features. This reductive process can be considered of major importance for two reasons: firstly, toxic and soluble (i.e. bioavailable) compounds such as selenite and tellurite are converted to a less toxic chemical forms (i.e. zero valent state); secondly, chalcogen nanoparticles have attracted great interest due to their photoelectric and semiconducting properties. In addition, their exploitation as antimicrobial agents is currently becoming an area of intensive research in medical sciences.

Results

In the present study, the bacterial strain Ochrobactrum sp. MPV1, isolated from a dump of roasted arsenopyrites as residues of a formerly sulfuric acid production near Scarlino (Tuscany, Italy) was analyzed for its capability of efficaciously bioreducing the chalcogen oxyanions selenite (SeO₃²⁻) and tellurite (TeO₃²⁻) to their respective elemental forms (Se⁰ and Te⁰) in aerobic conditions, with generation of Se- and Te-nanoparticles (Se- and TeNPs). The isolate could bioconvert 2 mM SeO₃²⁻ and 0.5 mM TeO₃²⁻ to the corresponding Se⁰ and Te⁰ in 48 and 120 h, respectively. The intracellular accumulation of nanomaterials was demonstrated through electron microscopy. Moreover, several analyses were performed to shed light on the mechanisms involved in SeO₃²⁻ and TeO₃²⁻ bioreduction to their elemental states. Results obtained suggested that these oxyanions are bioconverted through two different mechanisms in Ochrobactrum sp. MPV1. Glutathione (GSH) seemed to play a key role in SeO₃²⁻ bioreduction, while TeO₃²⁻ bioconversion could be ascribed to the catalytic activity of intracellular NADH-dependent oxidoreductases. The organic coating surrounding biogenic Se- and TeNPs was also characterized through Fourier-transform infrared spectroscopy. This analysis revealed interesting differences among the NPs produced by Ochrobactrum sp. MPV1 and suggested a possible different role of phospholipids and proteins in both biosynthesis and stabilization of such chalcogen-NPs.

Conclusions

In conclusion, Ochrobactrum sp. MPV1 has demonstrated to be an ideal candidate for the bioconversion of toxic oxyanions such as selenite and tellurite to their respective elemental forms, producing intracellular Se- and TeNPs possibly exploitable in biomedical and industrial applications.

An indoleacetic acid-producing Ochrobactrum sp. MGJ11 counteracts cadmium effect on soybean by promoting plant growth

AIMS

To analyse whether some indoleacetic acid (IAA)-secreting plant growth-promoting bacteria can alleviate cadmium (Cd) stress, the role of an Ochrobactrum sp. MGJ11 from rhizosphere of soybean in promoting plant growth, and to evaluate the counteracting Cd effects on soybean.

METHODS AND RESULTS

Ochrobactrum sp. MGJ11 produced 121·2 mg l-1 of IAA. MGJ11 increased soybean root length, shoot length and biomass by 30·1, 30·8 and 13·4% respectively. In liquid medium, no IAA production was detected in Cd concentration of 100 mg l-1 . In soil with 20-80 mg kg-1 Cd, MGJ11 promoted soybean root elongation (29·4-161·4%) and increased the shoot length (up to 52·7%) and biomass (up to 87·2%). After growing for 38 days, Cd concentrations in the roots of inoculated soybean were lower than in those of noninoculated plants. Only a little Cd (2·6-16·9 μg g-1 ) was translocated from the root to shoot.

CONCLUSIONS

Ochrobactrum sp. MGJ11 secretes IAA and shows tolerance against Cd. MGJ11 inoculation improves the root length, shoot length and biomass of soybean in both vermiculite and Cd vermiculite, and decreases Cd concentration of soybean root. The characteristics of MGJ11 suggest that it could be used for promoting soybean growth and lowering bioavailability of soil Cd for soybean root.

SIGNIFICANCE AND IMPACT OF THE STUDY

In this study, we isolated a plant growth-promoting Ochrobactrum with the activity of mitigating Cd toxicity to plant roots. The Ochrobactrum can be considered as a potential bioaugmentation agent that promotes plant growth, especially in some agricultural systems, or that helps in the phytoremediation of Cd-contaminated soil.

Isolation and characterization of a crude oil degrading bacteria from formation water: comparative genomic analysis of environmental Ochrobactrum intermedium isolate versus clinical strains

In this study, we isolated an environmental clone of Ochrobactrum intermedium, strain 2745-2, from the formation water of Changqing oilfield in Shanxi, China, which can degrade crude oil. Strain 2745-2 is aerobic and rod-shaped with optimum growth at 42 °C and pH 5.5. We sequenced the genome and found a single chromosome of 4 800 175 bp, with a G+C content of 57.63%. Sixty RNAs and 4737 protein-coding genes were identified: many of the genes are responsible for the degradation, emulsification, and metabolizing of crude oil. A comparative genomic analysis with related clinical strains (M86, 229E, and LMG3301(T)) showed that genes involved in virulence, disease, defense, phages, prophages, transposable elements, plasmids, and antibiotic resistance are also present in strain 2745-2.

Characterization of Cu(II) and Cd(II) resistance mechanisms in Sphingobium sp. PHE-SPH and Ochrobactrum sp. PHE-OCH and their potential application in the bioremediation of heavy metal-phenanthrene co-contaminated sites

Soil that is co-contaminated with heavy metals (HMs) and polycyclic aromatic hydrocarbons (PAHs) is difficult to bioremediate due to the ability of toxic metals to inhibit PAH degradation by bacteria. We demonstrated the resistance mechanisms to Cu(II) and Cd(II) of two newly isolated strains of Sphingobium sp. PHE-SPH and Ochrobactrum sp. PHE-OCH and further tested their potential application in the bioremediation of HM-phenanthrene (PhA) co-contaminated sites. The PHE-SPH and PHE-OCH strains tolerated 4.63 and 4.34 mM Cu(II) and also showed tolerance to 0.48 and 1.52 mM Cd(II), respectively. Diverse resistance patterns were detected between the two strains. In PHE-OCH cells, the maximum accumulation of Cu(II) occurred in the cell wall, while the maximum accumulation was in the cytoplasm of PHE-SPH cells. This resulted in a sudden suppression of growth in PHE-OCH and a gradual inhibition in PHE-SPH as the concentration of Cu(II) increased. Organic acid production was markedly higher in PHE-OCH than in PHE-SPH, which may also have a role in the resistance mechanisms, and contributes to the higher Cd(II) tolerance of PHE-OCH. The factors involved in the absorption of Cu(II) or Cd(II) in PHE-SPH and PHE-OCH were identified as proteins and carbohydrates by Fourier transform infrared (FT-IR) spectroscopy. Furthermore, both strains showed the ability to efficiently degrade PhA and maintained this high degradation efficiency under HM stress. The high tolerance to HMs and the PhA degradation capacity make Sphingobium sp. PHE-SPH and Ochrobactrum sp. PHE-OCH excellent candidate organisms for the bioremediation of HM-PhA co-contaminated sites.

High potential of symbiotic interactions between native mycorrhizal fungi and the exotic tree Eucalyptus camaldulensis for phytostabilization of metal-contaminated arid soils

Waste dumps generated by mining activities contain heavy metals that are dispersed into areas leading to significant environmental contamination. The objectives of this study were (i) to survey native plants and their associated AM fungal communities from waste soils in a Moroccan mine site and (ii) to follow Eucalyptus growth in soil collected from the waste-mine. AM spores from native plant species were collected from the mining site and the surrounding uncontaminated areas were multiplied and inoculated onto Eucalyptus camaldulensis. The results showed that (i) the native plant species recorded in the waste did not show an active metal uptake, (ii) the selected native plant species are associated with AM mycorrhizal fungi and (iii) the use of AM fungi adapted to these drastic conditions can improve the growth of the fast-growing tree, E. camaldulensis and its tolerance to high soil Cu content. In conclusion, it is suggested that in order to define efficient low-cost phytostabilization processes, the use of native resources (i.e., mixtures of native mycorrhizal fungi) in combination with fast-growing tree species such as Eucalyptus, could be used to optimize the establishment of a permanent cover plant in contaminated areas.

Assessment of physiological and biochemical responses, metal tolerance and accumulation in two eucalypt hybrid clones for phytoremediation of cadmium-contaminated waters

Eucalyptus is a promising species for ecological restoration but plant performances under environmental constraints need to be better investigated. In particular, the toxic effects of metals on this plant species are poorly described in the literature. In this work, morpho-physiological and biochemical responses to cadmium were analysed in two eucalypt genotypes (hybrid clones of Eucalyptus camaldulensis × Eucalyptus globulus ssp. bicostata J.B. Kirkp named Velino ex 7 and Viglio ex 358) exposed for 3 weeks to 50 μM CdSO4 under hydroponics. The two eucalypt clones showed a different sensitivity to the metal. The growth reduction caused by cadmium was less than 30% in clone Velino and about 50% in clone Viglio. Cadmium mostly accumulated in plant roots and, to a lesser extent, in stem, as highlighted by the low translocation factor (Tf) measured in both clones. Net photosynthesis measurement, chlorophyll fluorescence images, transpiration values and chlorophyll content revealed a cadmium-induced impairment of physiological processes at the leaf level, which was more evident in clone Viglio. Metal binding and antioxidative compound content was differentially affected by cadmium exposure in the two eucalypt clones. Particularly, the content of thiols like cysteine and glutathione, organic acids like oxalate and citrate, and polyamines were markedly modulated in plant organs by metal treatment and highlighted different defence responses between the clones. Cadmium tolerance and accumulation ability of the eucalypt clones were evaluated and the potential of E. camaldulensis for the reclamation of metal polluted-waters is discussed.

Changes in chemical forms, subcellular distribution, and thiol compounds involved in Pb accumulation and detoxification in Athyrium wardii (Hook.)

Athyrium wardii is one of the dominant plant species flourishing on the Pb-Zn mine tailings in Sichuan Province, China. A greenhouse pot experiment was conducted to evaluate the chemical forms, subcellular distribution, and thiol compounds in A. wardii under different Pb treatments. The results showed that plants of the mining ecotype (ME) of A. wardii were more tolerant to Pb than those of the non-mining ecotype (NME) in spite of accumulation of higher Pb concentrations. The Pb concentrations in shoots and roots of the ME were 3.2∼8.6 times and 3.0∼24.6 times higher than those of the NME, respectively. The ME was more efficient in Pb uptake than the NME. Moreover, 27.8∼39.0% of the total Pb in ME was sodium chloride (NaCl) extractable and 38.0∼48.5% was acetic acid (HAc) extractable, whereas only a minority of total Pb was in ethanol and H2O extractable. In subcellular level, 77.4∼88.8% of total Pb was stored in the cell walls of ME and 9.0∼18.9% in soluble fractions. Increasing Pb concentrations enhanced sequestration of Pb into the cell walls and soluble fractions of ME tissues to protect organelles against Pb. Synthesis of non-protein thiols (NP-SH) and phytochelatins (PCs) in roots of ME significantly enhanced in response to Pb stress, and significant increases in glutathione (GSH) were observed in shoots of ME. Higher levels of NP-SH, GSH, and PCs were observed in roots of the ME comparing with NME, especially under high Pb treatments. The results indicated that Pb was localized mainly in cell wall and soluble fraction of ME plants with low biological activity by cell wall deposition and vacuolar compartmentalization, which might be the important adapted Pb detoxification mechanisms of ME.

The effects of arbuscular mycorrhizal fungi on sex-specific responses to Pb pollution in Populus cathayana

Using fast-growing trees to remediate soils polluted by heavy metals (HMs) has received increasingly more attention, especially for recalcitrant Pb, as one of the most seriously toxic HMs. However, little is known about the responses of plants to a diffused level of Pb pollution, and a more combined phytoremediation technique is needed to explore. In this study, an arbuscular mycorrhizal fungus (AMF), i.e., Funneliformis mosseae, isolated from Populus euphratica distributed in a tailing of Pb/Zn ore, was introduced to investigate its effects on sex-specific responses of P. cathayana in morphology, physiology, and Pb phytoremediation capacity, when exposed to a diffused level of Pb pollution (100mg Pb(2+) kg(-1) dry soil). Symbiosis with exotic AMF did not significantly affect growth of both sexes and biomass allocation. However, when inoculated with AMF, both sexes absorbed more P, but not N in the roots, especially when exposed to the exogenous addition of Pb. The improvement of nutrient status under such conditions might be associated with a further increase in activity of antioxidant enzymes (particularly for superoxide dismutase (SOD) and catalase (CAT)), and the mitigation of oxidation stress induced by excessive reactive oxygen species (ROS). We also observed that exotic AMF could promote the uptake and accumulation of Pb in roots of females, but not in that of males. Therefore, under this diffused pollution level, the infected females might be more suitable for remediation of this metal than infected males, due to the higher capacity of HM accumulation without obvious negative effects on growth and physiological traits. Moreover, field surveys are needed to testify our experimental results, due to diversity of soil microbial community and complexities of their interaction.

Effects of exogenous glutathione and cysteine on growth, lead accumulation, and tolerance of Iris lactea var. chinensis

Effects of exogenous reduced glutathione (GSH) and cysteine (Cys) on growth, lead (Pb) accumulation, and nonprotein thiol (NPT) contents of Iris lactea var. chinensis under 100 and 500 mg L(-1) Pb stress were studied. Our results showed that 500 mg L(-1) Pb stress caused a dramatical decline in fresh weights, while the reduction of aboveground biomass was alleviated by exogenous GSH and Cys even though keeping higher Pb contents in roots and shoots. Exogenous GSH and Cys could enhance Pb accumulation in the shoots and roots compared with single Pb treatment. The promoting effect of GSH to Pb accumulation was larger than the effect of Cys, and the Pb contents in the shoots and roots treated with 500 mg L(-1) Pb + GSH reached 1,712 and 14,603 mg kg(-1), about 4.19 and 2.78 times of single 500 mg L(-1) Pb treatment, respectively. Microscopic imaging of Pb in roots and leaves showed that higher intensive fluorescence was observed in cell wall of root epidermis, stele, vascular tissues of the roots, and sclerenchyma cells of leaves treated with 500 mg L(-1) Pb + GSH and treated with 500 mg L(-1) Pb + Cys. Exogenous GSH had an apparent promoting effect on root and shoot GSH synthesis, while exogenous Cys reduced the synthesis of cellular GSH in shoot and increased Cys contents. Pb only induced the synthesis of phytochelatin (PC)2 in roots, and the PC2 content declined in GSH- and Cys-treated plant roots. These results suggested that GSH synthesis was a more effective approach to improve Pb accumulation and translocation of I. lactea var. chinensis. Further analysis of protein expression in plants by exogenous GSH and buthionine sulfoximine (BSO) application showed that the proteins regulated by GSH and BSO may constitute various enzymes involved in GSH biosynthesis and play certain roles in Pb accumulation and tolerance of I. lactea var. chinensis.

Effects of lead on the morphology and structure of the nucleolus in the root tip meristematic cells of Allium cepa L

To study the toxic mechanisms of lead (Pb) in plants, the effects of Pb on the morphology and structure of the nucleolus in root tip meristematic cells of Allium cepa var. agrogarum L. were investigated. Fluorescence labeling, silver-stained indirect immunofluorescent microscopy and western blotting were used. Fluorescence labeling showed that Pb ions were localized in the meristematic cells and the uptake and accumulation of Pb increased with treatment time. At low concentrations of Pb (1-10 μM) there were persistent nucleoli in some cells during mitosis, and at high concentration (100 μM) many of the nucleolar organizing regions were localized on sticky chromosomes in metaphase and anaphase cells. Pb induced the release of particles containing argyrophilic proteins to be released from the nucleus into the cytoplasm. These proteins contained nucleophosmin and nucleolin. Pb also caused the extrusion of fibrillarin from the nucleus into the cytoplasm. Western blotting demonstrated the increased expression of these three major nucleolar proteins under Pb stress.

Niches, population structure and genome reduction in Ochrobactrum intermedium: clues to technology-driven emergence of pathogens

Ochrobactrum intermedium is considered as an emerging human environmental opportunistic pathogen with mild virulence. The distribution of isolates and sequences described in literature and databases showed frequent association with human beings and polluted environments. As population structures are related to bacterial lifestyles, we investigated by multi-locus approach the genetic structure of a population of 65 isolates representative of the known natural distribution of O. intermedium. The population was further surveyed for genome dynamics using pulsed-field gel electrophoresis and genomics. The population displayed a clonal epidemic structure with events of recombination that occurred mainly in clonal complexes. Concerning biogeography, clones were shared by human and environments and were both cosmopolitan and local. The main cosmopolitan clone was genetically and genomically stable, and grouped isolates that all harbored an atypical insertion in the rrs. Ubiquitism and stability of this major clone suggested a clonal succes in a particular niche. Events of genomic reduction were detected in the population and the deleted genomic content was described for one isolate. O. intermedium displayed allopatric characters associated to a tendancy of genome reduction suggesting a specialization process. Considering its relatedness with Brucella, this specialization might be a commitment toward pathogenic life-style that could be driven by technological selective pressure related medical and industrial technologies.

Characterization of bacteria in the rhizosphere soils of Polygonum pubescens and their potential in promoting growth and Cd, Pb, Zn uptake by Brassica napus

Microbe-enhanced phytoremediation has been considered as a promising measure for the remediation of metal-contaminated soils. In this study, two bacterial strains JYX7 and JYX10 were isolated from rhizosphere soils of Polygonum pubescens grown in metal-polluted soil and identified as of Enterobacter sp. and Klebsiella sp. based on 16S rDNA sequences, respectively. JYX7 and JYX10 showed high Cd, Pb and Zn tolerance and increased water-soluble Cd, Pb and Zn concentrations in culture solution and metal-added soils. Two isolates produced plant growth-promoting substances such as indole acetic acid, siderophore, 1-aminocyclopropane-1-carboxylic deaminase, and solubilized inorganic phosphate. Based upon their ability in metal tolerance and solubilization, two isolates were further studied for their effects on growth and accumulation of Cd, Pb, and Zn in Brassica napus (rape) by pot experiments. Rapes inoculated with JYX7 and JYX10 had significantly higher dry weights, concentrations and uptakes of Cd, Pb, Zn in both above-ground and root tissues than those without inoculation grown in soils amended with Cd (25 mg kg(-1)), Pb (200 mg kg(-1)) or Zn (200 mg kg(-1)). The present results demonstrated that JYX7 and JYX10 are valuable microorganism, which can improve the efficiency of phytoremediation in soils polluted by Cd, Pb, and Zn.

Lead tolerance in plants: strategies for phytoremediation

Lead (Pb) is naturally occurring element whose distribution in the environment occurs because of its extensive use in paints, petrol, explosives, sludge, and industrial wastes. In plants, Pb uptake and translocation occurs, causing toxic effects resulting in decrease of biomass production. Commonly plants may prevent the toxic effect of heavy metals by induction of various celular mechanisms such as adsorption to the cell wall, compartmentation in vacuoles, enhancement of the active efflux, or induction of higher levels of metal chelates like a protein complex (metallothioneins and phytochelatins), organic (citrates), and inorganic (sulphides) complexes. Phyotochelains (PC) are synthesized from glutathione (GSH) and such synthesis is due to transpeptidation of γ-glutamyl cysteinyl dipeptides from GSH by the action of a constitutively present enzyme, PC synthase. Phytochelatin binds to Pb ions leading to sequestration of Pb ions in plants and thus serves as an important component of the detoxification mechanism in plants. At cellular level, Pb induces accumulation of reactive oxygen species (ROS), as a result of imbalanced ROS production and ROS scavenging processes by imposing oxidative stress. ROS include superoxide radical (O2(.-)), hydrogen peroxide (H2O2) and hydroxyl radical ((·)OH), which are necessary for the correct functioning of plants; however, in excess they caused damage to biomolecules, such as membrane lipids, proteins, and nucleic acids among others. To limit the detrimental impact of Pb, efficient strategies like phytoremediation are required. In this review, it will discuss recent advancement and potential application of plants for lead removal from the environment.

Development of a bioreactor for remediation of textile effluent and dye mixture: a plant-bacterial synergistic strategy

The objective of the present work was to develop a plant-bacterial synergistic system for efficient treatment of the textile effluents. Decolorization of the dye Scarlet RR and a dye mixture was studied under in vitro conditions using Glandularia pulchella (Sweet) Tronc., Pseudomonas monteilii ANK and their consortium. Four reactors viz. soil, bacteria, plant and consortium were developed that were subjected for treatment of textile effluents and dye mixture. Under in vitro conditions G. pulchella and P. monteilii showed decolorization of the dye Scarlet RR (SRR) by 97 and 84%, within 72 and 96 h respectively, while their consortium showed 100% decolorization of the dye within 48 h. In case of dye mixture G. pulchella, P. monteilii and consortium-PG showed an ADMI removal of 78, 67 and 92% respectively within 96 h. During decolorization of SRR G. pulchella showed induction in the activities of enzymes lignin peroxidase and DCIP reductase while P. monteilii showed induction of laccase, DCIP reductase and tyrosinase, indicating their involvement in the dye metabolism. High Performance Liquid Chromatography (HPLC), Fourier Transform Infra Red Spectroscopy (FTIR) and High Performance Thin Layer Chromatography (HPTLC) confirmed the biotransformation of SRR and dye mixture into different metabolites. Soil, bacteria, plant and consortium reactors performed an ADMI removal of 42, 46, 62 and 93% in the first decolorization cycle while it showed an average ADMI removal of 21, 27, 59 and 93% in the next three (second, third and fourth) decolorization cycles respectively for the dye mixture within 24 h. Consortium reactor showed an average ADMI removal of 95% within 48 and 60 h for textile effluents A and B respectively for three decolorization cycles, while it showed an average TOC, COD and BOD removal of 74, 70 and 70%, 66, 72 and 67%, and 70, 70 and 66% for three decolorization cycles of the dye mixture (second, third and fourth decolorization cycles), effluent A and effluent B respectively. Degradation of the textile effluents and dye mixture into different metabolites by the consortium reactor was confirmed using HPLC and FTIR. Phytotoxicity studies revealed the non-toxic nature of the metabolites of degradation of dye mixture, effluents A and B by consortium reactor. The developed consortial reactor system performed efficient treatment of the dye mixture and textile effluents, and can be used for treating large amounts of textile effluents when implemented as a constructed wetland by proper engineering approach.

Uptake of cadmium by hydroponically grown, mature Eucalyptus camaldulensis saplings and the effect of organic ligands

The potential suitability of Eucalyptus camaldulensis for Cd phytoextraction was tested in a hydroponic study. Saplings were exposed to 4.5 and 89 microM Cd for one month, with and without EDTA and s,s-EDDS at 0.1, 1, and 5 mM. The saplings' growth was not affected at the 4.5 microM Cd concentration, yet it decreased 3-fold at 89 microM, and almost all the Cd taken up was immobilized in the roots, reaching 360 and 5300 mg Cd kg(-1), respectively (approximately 75% of which was non-washable in acid). The respective Cd root-to-shoot translocation factors were 0.14 and approximately 5*10(-4). At 0.1 mM concentration, EDTA and EDDS had no effect or even a positive effect on the saplings growth. This was reversed at 1 mM, and the chelants became lethal at the 5 mM concentration. At 89 microM Cd in the growth medium, 0.1 mM EDTA increased Cd translocation into the shoots by almost 10-fold, however it strongly reduced Cd content inside the roots. This hydroponic study indicates the feasibility of E. camaldulensis use for cleanup Cd-contaminated soils at environmental concentrations, both for site stabilization (phytostabilization) and gradual remediation (phytoextraction). EDTA was shown to be much more efficient in enhancing Cd translocation than s,s-EDDS.