Native rhizobia from Zn mining soil promote the growth of Leucaena leucocephala on contaminated soil

Isolation of cadmium-resistance and siderophore-producing endophytic bacteria and their potential use for soil cadmium remediation

Endophyte-assisted phytoremediation is an emerging technique for soil heavy metals (HMs) remediation and has become a research focus in the world because of the benefits of endophytes on plant growth and uptake of HMs. In this study, multifunctional endophytic bacteria strains were isolated and screened, and the feasibility of these strains for soil cadmium (Cd) remediation was investigated by soil incubation experiments and pot experiments. All endophytic bacteria were isolated from the roots of woody plants grown on Cd-contaminated soil. Seven endophytic bacteria strains had capacities to tolerate Cd toxicity and produce siderophores, and sequence analysis of the 16S rRNA gene classified these strains as belonging to the genera Burkholderia, Pseudomonas, Pantoea, and Herbaspirillum. All strains were able to produce hydroxamate siderophores (32.40%-91.49%) and had three or more plant growth promoting properties such as phosphorus solubilization, nitrogen fixation, indole acetic acid and 1-aminocyclopropane-1-carboxylate deaminase production. They were all strongly resistant to Cd2+ toxicity, with the minimum inhibitory concentration in LB medium ranging from 1.5 mM to 9.0 mM. Except for strain Burkholderia contaminans JLS17, other strains showed decreasing removal rates within continuously elevated Cd2+ concentration of 10-100 mg L-1. Compared with the uninoculated treatment, the inoculation of strains B.contaminans JLS17, Pseudomonas lurida JLS32, and Pantoea endophytica JLS50 effectively increased the concentration of acid-soluble Cd and decreased the concentration of reducible, oxidizable, and residual Cd in the soils of different Cd contamination levels. In pot experiments, inoculation of strains JLS17 and YTG72 significantly (p < 0.05) promoted the growth of above-ground parts and root system of slash pine (Pinus elliottii) under Cd stress. This study provides a valuable biological resource for endophyte-assisted phytoremediation and a theoretical basis for the application of endophytic bacteria for remediation of Cd-contaminated soil.

Root development in Leucaena leucocephala (Lam.) de Wit enhances copper accumulation

Potentially toxic elements (PTE) in soil like copper (Cu) have been common in agricultural and mining areas worldwide. The sustainable remediation of these areas has been shown to have high socio-environmental relevance and phytoremediation is one of the green technologies to be considered. The challenge is to identify species that are tolerant to PTE, and to assess their phytoremediation potential. The objective of this study was to evaluate the physiological response of Leucaena leucocephala (Lam.) de Wit and to determine the species tolerance and phytoremediation potential to concentrations of Cu in the soil (100, 200, 300, 400 and 500 mg/dm3). The photosynthetic rate was not affected, while the content of chlorophylls decreased as Cu concentrations increased. There was an increased in stomatal conductance and water use efficiency from the treatment of 300. The root biomass and the length were bigger than the shoots, in the treatments above 300. Cu accumulation was greater in the roots than in the shoot of the plants, thus, the Cu translocation index to the shoot was lower. The ability to absorb and accumulate, mainly, Cu in the roots, allowed the development and growth of plants, since the parameters of photosynthesis and biomass accumulation were not affected by the Cu excess. This accumulation in the roots is characterized as a strategy for the phytostabilization of Cu. Therefore, L. leucocephala is tolerant to the Cu concentrations evaluated and has a potential phytoremediation of Cu in the soil.

Could nitrogen compounds be indicators of tolerance to high doses of Cu and Fe in the cultivation of Leucaena leucocephala?

Nitrogen metabolism and the production of primary and secondary metabolites vary according to biotic and abiotic factors such as trace elements (TE) stress, and can, therefore, be considered biomarkers. The present study evaluated the effect of copper (Cu) and iron (Fe) TE, separately, on the metabolism of nitrogen compounds and biomass production, partitioned into shoot and roots of Leucaena leucocephala (Lam.) de Wit., and identified possible defense mechanisms linked to nitrogen metabolism. At 120 days of cultivation, the biomass production of L. leucocephala was higher when exposed to excess Fe than Cu. Nonetheless, the biomass gain (%) of plants exposed to Cu was higher, especially the biomass gains in roots. The tolerance and biomass production of L. leucocephala is related to the regulation of nitrogen metabolism and production of secondary metabolites. The biochemistry of plant metabolism against the excess of Cu and Fe TE manifested similarly, but with some specifics regarding the chemical nature of each metal. There was a reduction in the content of ureides and proteins and an increase in amino acids in the roots in relation to the increase in Cu and Fe concentrations. There was low accumulation of proline in the roots in treatments 400 and 500 mg/dm³ compared to the control for both TE. On the other hand, the total phenolic compounds in the roots increased. Our results indicate that the increased synthesis of amino acids and the accumulation of phenolic compounds is involved in the tolerance of L. leucocephala to Cu and Fe.

Heavy metals multi-tolerant Bradyrhizobium isolated from mercury mining region in Algeria

Heavy metals accumulation in the environment has led to a decrease in the capacity of ecosystems to sustain life as human, animal and plant health is threatened. To remedy this problem, rhizoremediation has been suggested as a solution. Legumes and rhizobia symbiotic association has captivated attention due to its involvement in the restoration of heavy-metal-contaminated sites. Thus, the aim of this study was to isolate and characterize the strains nodulating Calicotome spinosa plant that naturally occurred in two Algerian mercury mines. Fifty-four bacterial strains were isolated, then grouped into sixteen distinct BOX-PCR patterns and were genetically identified as belonging to the Bradyrhizobium genus. The studied strains were able to induce nodules on Retama monosperma, R. reatam, Lupinus albus, while no nodulation was observed in Glycine max, their symbiotic capacity was confirmed by amplifying the nodC gene. The phylogenetic analysis based on the nodC has grouped this Bradyrhizobium strains to either symbiovar genistearum or retamae. The isolates revealed diversity in terms of NaCl; pH tolerance, and phosphate solubilization. Production of siderophores was negative for these strains. All the isolated Bradyrhizobium were tolerant to both Zn and Pb in contrast they were sensitive to Cu and Cd. Interestingly, 43% of strains were tolerant to high Hg levels. Hence, some strains displayed multiple tolerances to heavy metals. Therefore, this is the first time we identify Bradyrhizobium strains originating from a North African mercury mine. This study could help to select mercury and other heavy metal-tolerant rhizobia showing an interesting potential to be used as inoculants to remediate the heavy metal soil accumulation.

Bradyrhizobium sp. sv. retamae nodulates Retama monosperma grown in a lead and zinc mine tailings in Eastern Morocco

The aim of this work was to characterize and identify some bacteria isolated from the root nodules of Retama monosperma grown in Sidi Boubker lead and zinc mine tailings. Very few root nodules were obtained on the root nodules of R. monosperma grown in these soils. The three bacteria isolated from the root nodules were tolerant in vitro to different concentrations of heavy metals, including lead and zinc. The rep-PCR experiments showed that the three isolates have different molecular fingerprints and were considered as three different strains. The analysis of their 16S rRNA gene sequences proved their affiliation to the genus Bradyrhizobium. The analysis and phylogeny of the housekeeping genes atpD, glnII, gyrB, recA, and rpoB confirmed that the closest species was B. valentinum with similarity percentages of 95.61 to 95.82%. The three isolates recovered from the root nodules were slow-growing rhizobia capable to renodulate their original host plant in the presence of Pb-acetate. They were able to nodulate R. sphaerocarpa and Lupinus luteus also but not Glycine max or Phaseolus vulgaris. The phylogeny of the nodA and nodC nodulation genes as well as the nifH gene of the three strains showed that they belong to the symbiovar retamae of the genus Bradyrhizobium. The three strains isolated could be considered for use as inoculum for Retama plants before use in phytoremediation experiments.

Mercury-Tolerant Ensifer medicae Strains Display High Mercuric Reductase Activity and a Protective Effect on Nitrogen Fixation in Medicago truncatula Nodules Under Mercury Stress

Mercury (Hg) is extremely toxic for all living organisms. Hg-tolerant symbiotic rhizobia have the potential to increase legume tolerance, and to our knowledge, the mechanisms underlying Hg tolerance in rhizobia have not been investigated to date. Rhizobial strains of Ensifer medicae, Rhizobium leguminosarum bv. trifolii and Bradyrhizobium canariense previously isolated from severely Hg-contaminated soils showed different levels of Hg tolerance. The ability of the strains to reduce mercury Hg²⁺ to Hg⁰, a volatile and less toxic form of mercury, was assessed using a Hg volatilization assay. In general, tolerant strains displayed high mercuric reductase activity, which appeared to be inducible in some strains when grown at a sub-lethal HgCl₂ concentration. A strong correlation between Hg tolerance and mercuric reductase activity was observed for E. medicae strains, whereas this was not the case for the B. canariense strains, suggesting that additional Hg tolerance mechanisms could be playing a role in B. canariense. Transcript abundance from merA, the gene that encodes mercuric reductase, was quantified in tolerant and sensitive E. medicae and R. leguminosarum strains. Tolerant strains presented higher merA expression than sensitive ones, and an increase in transcript abundance was observed for some strains when bacteria were grown in the presence of a sub-lethal HgCl₂ concentration. These results suggest a regulation of mercuric reductase in rhizobia. Expression of merA genes and mercuric reductase activity were confirmed in Medicago truncatula nodules formed by a sensitive or a tolerant E. medicae strain. Transcript accumulation in nodules formed by the tolerant strain increased when Hg stress was applied, while a significant decrease in expression occurred upon stress application in nodules formed by the Hg-sensitive strain. The effect of Hg stress on nitrogen fixation was evaluated, and in our experimental conditions, nitrogenase activity was not affected in nodules formed by the tolerant strain, while a significant decrease in activity was observed in nodules elicited by the Hg-sensitive bacteria. Our results suggest that the combination of tolerant legumes with tolerant rhizobia constitutes a potentially powerful tool in the bioremediation of Hg-contaminated soils.

Prospect of phytoremediation combined with other approaches for remediation of heavy metal-polluted soils

Accumulation of heavy metals in agricultural soils due to human production activities-mining, fossil fuel combustion, and application of chemical fertilizers/pesticides-results in severe environmental pollution. As the transmission of heavy metals through the food chain and their accumulation pose a serious risk to human health and safety, there has been increasing attention in the investigation of heavy metal pollution and search for effective soil remediation technologies. Here, we summarized and discussed the basic principles, strengths and weaknesses, and limitations of common standalone approaches such as those based on physics, chemistry, and biology, emphasizing their incompatibility with large-scale applications. Moreover, we explained the effects, advantages, and disadvantages of the combinations of common single repair approaches. We highlighted the latest research advances and prospects in phytoremediation-chemical, phytoremediation-microbe, and phytoremediation-genetic engineering combined with remediation approaches by changing metal availability, improving plant tolerance, promoting plant growth, improving phytoextraction and phytostabilization, etc. We then explained the improved safety and applicability of phytoremediation combined with other repair approaches compared to common standalone approaches. Finally, we established a prospective research direction of phytoremediation combined with multi-technology repair strategy.

Phytoremediation of Cd and Pb interactive polluted soils by switchgrass (Panicum virgatum L.)

Using phytoremediation as an efficient technique to remove heavy metals from contaminated soils is a current research hotspot. This study used an orthogonal matrix experimental design with three factors (Cd, Pb, and pH) and five levels (Cd at 9.45, 30, 60, 90, and 110.46 µg/g; Pb at 195.4, 400, 700, 1000, and 1204.6 µg/g; and pH at 3, 4.1, 5.8, 7.5, and 8.6) to investigate the phytoremediation potential of Panicum virgatum L. for soils polluted with cadmium (Cd) and lead (Pb). The results indicated that there was a significant decrease in belowground biomass in plants exposed to the stresses compared to the control. Superoxide dismutase (SOD) activity, peroxidase (POD) activity, and malondialdehyde (MDA) content were affected. Interaction of Cd with Pb in the soil had an antagonistic effect on the Cd bioaccumulation factor, whereas the interaction of pH with Cd or Pb had synergistic effects on the Cd bioaccumulation factor. When exposed to the three stressors, switchgrass plants could grow in soil that had a Cd concentration of a 46.68 µg/g, Pb concentration of 568.75 µg/g and pH of 5.34, which is a mildly acidic condition. Switchgrass, used as a phytoremediation plant, was more efficient in Cd-contaminated than in Pb-contaminated soil.

Antioxidant responses of edible and model plant species subjected to subtoxic zinc concentrations

Zinc (Zn) is a common heavy metal in polluted soils, as it is a widespread pollutant deriving both from natural sources and anthropogenic activities. The antioxidant tolerance/defence mechanisms against oxidative stress induced by subtoxic concentrations of Zn (50 and 150 μM ZnSO4) were studied in a widespread edible plant (lettuce; Lactuca sativa L.) and in an important model plant (Arabidopsis thaliana (L.) Heynh.). After 10 days (Arabidopsis) and 20 days (lettuce) of Zn exposure, Zn uptake/translocation was evaluated in both roots and shoots, while indicators of oxidative stress and stress intensity, total antioxidant capacity, and enzymatic and non-enzymatic antioxidative defence were measured in leaves. From an overall comparison of the two species, Zn root uptake in Arabidopsis subjected to 50 and 150 μM ZnSO4 was approximately 3- and 5-fold lower than in lettuce, while Zn translocation from roots to apical leaves was more efficient in Arabidopsis (23.7 vs 21.3% at 50 μM ZnSO4 and 19.3 vs 12.9% at 150 μM ZnSO4). Generally, a higher degree of Zn-induced oxidative stress (863.8 vs 21.3 μg g-1 FW H2O2 and 1.33 vs 0.75 μM g-1 FW MDAeq at 150 μM ZnSO4) and antioxidant response (441.2 vs 258.5 mM g-1 FW TEAC and 91.0 vs 54.9% RSA at 150 μM ZnSO4) were found in lettuce. The aim of this study is understanding (a) if subtoxic Zn levels can affect Zn uptake and translocation in the studied species and (b) if this eventual Zn absorption can influence plant oxidative status/antioxidant response. Considering that soil contamination by Zn can affect crop production and quality, the results of this research could be important for environmental, nutritional and human health issues.

Leguminosae native nodulating bacteria from a gold mine As-contaminated soil: Multi-resistance to trace elements, and possible role in plant growth and mineral nutrition

Efficient N₂-fixing Leguminosae nodulating bacteria resistant to As may facilitate plant growth on As-contaminated sites. In order to identify bacteria holding these features, 24 strains were isolated from nodules of the trap species Crotalaria spectabilis (12) and Stizolobium aterrimum (12) growing on an As-contaminated gold mine site. 16S rRNA gene sequencing revealed that most of the strains belonged to the group of α-Proteobacteria, being representatives of the genera Bradyrhizobium, Rhizobium, Inquilinus, Labrys, Bosea, Starkeya, and Methylobacterium. Strains of the first four genera showed symbiotic efficiency with their original host, and demonstrated in vitro specific plant-growth-promoting (PGP) traits (production of organic acids, indole-3-acetic-acid and siderophores, 1-aminocyclopropane-1-carboxylate deaminase activity, and Ca₃(PO₄)₂ solubilization), and increased resistance to As, Zn, and Cd. In addition, these strains and some type and reference rhizobia strains exhibited a wide resistance spectrum to β-lactam antibiotics. Both intrinsic PGP abilities and multi-element resistance of rhizobia are promising for exploiting the symbiosis with different legume plants on trace-element-contaminated soils.

Alleviation of Heavy Metal Stress in Plants and Remediation of Soil by Rhizosphere Microorganisms

Increasing concentration of heavy metals (HM) due to various anthropogenic activities is a serious problem. Plants are very much affected by HM pollution particularly in contaminated soils. Survival of plants becomes tough and its overall health under HM stress is impaired. Remediation of HM in contaminated soil is done by physical and chemical processes which are costly, time-consuming, and non-sustainable. Metal–microbe interaction is an emerging but under-utilized technology that can be exploited to reduce HM stress in plants. Several rhizosphere microorganisms are known to play essential role in the management of HM stresses in plants. They can accumulate, transform, or detoxify HM. In general, the benefit from these microbes can have a vast impact on plant’s health. Plant–microbe associations targeting HM stress may provide another dimension to existing phytoremediation and rhizoremediation uses. In this review, applied aspects and mechanisms of action of heavy metal tolerant-plant growth promoting (HMT-PGP) microbes in ensuring plant survival and growth in contaminated soils are discussed. The use of HMT-PGP microbes and their interaction with plants in remediation of contaminated soil can be the approach for the future. This low input and sustainable biotechnology can be of immense use/importance in reclaiming the HM contaminated soils, thus increasing the quality and yield of such soils.

Taxonomy and systematics of plant probiotic bacteria in the genomic era

Recent decades have predicted significant changes within our concept of plant endophytes, from only a small number specific microorganisms being able to colonize plant tissues, to whole communities that live and interact with their hosts and each other. Many of these microorganisms are responsible for health status of the plant, and have become known in recent years as plant probiotics. Contrary to human probiotics, they belong to many different phyla and have usually had each genus analysed independently, which has resulted in lack of a complete taxonomic analysis as a group. This review scrutinizes the plant probiotic concept, and the taxonomic status of plant probiotic bacteria, based on both traditional and more recent approaches. Phylogenomic studies and genes with implications in plant-beneficial effects are discussed. This report covers some representative probiotic bacteria of the phylum Proteobacteria, Actinobacteria, Firmicutes and Bacteroidetes, but also includes minor representatives and less studied groups within these phyla which have been identified as plant probiotics.