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Here, we present our collective musings on soil research challenges and opportunities and, in particular, the points raised by Philippe Baveye (Baveye, 2020a, 2020b) and Johan Bouma (Bouma, 2020) on I bypass i and I hyperbole i in soil science. Furthermore, developing a healthy and constructive post-publication peer-review system, where bypasses and hyperbolic approaches can be identified and discussed, would ultimately boost publication quality and contribute to a more open discourse in soil science. [Extracted from the article]

Over the last 60 years, soil microbiologists have accumulated a wealth of experimental data showing that the bulk, macroscopic parameters (e.g., granulometry, pH, soil organic matter, and biomass contents) commonly used to characterize soils provide insufficient information to describe quantitatively the activity of soil microorganisms and some of its outcomes, like the emission of greenhouse gasses. Clearly, new, more appropriate macroscopic parameters are needed, which reflect better the spatial heterogeneity of soils at the microscale (i.e., the pore scale) that is commensurate with the habitat of many microorganisms. For a long time, spectroscopic and microscopic tools were lacking to quantify processes at that scale, but major technological advances over the last 15 years have made suitable equipment available to researchers. In this context, the objective of the present article is to review progress achieved to date in the significant research program that has ensued. This program can be rationalized as a sequence of steps, namely the quantification and modeling of the physical-, (bio)chemical-, and microbiological properties of soils, the integration of these different perspectives into a unified theory, its upscaling to the macroscopic scale, and, eventually, the development of new approaches to measure macroscopic soil characteristics. At this stage, significant progress has been achieved on the physical front, and to a lesser extent on the (bio)chemical one as well, both in terms of experiments and modeling. With regard to the microbial aspects, although a lot of work has been devoted to the modeling of bacterial and fungal activity in soils at the pore scale, the appropriateness of model assumptions cannot be readily assessed because of the scarcity of relevant experimental data. For significant progress to be made, it is crucial to make sure that research on the microbial components of soil systems does not keep lagging behind the work on the physical and (bio)chemical characteristics. Concerning the subsequent steps in the program, very little integration of the various disciplinary perspectives has occurred so far, and, as a result, researchers have not yet been able to tackle the scaling up to the macroscopic level. Many challenges, some of them daunting, remain on the path ahead. Fortunately, a number of these challenges may be resolved by brand new measuring equipment that will become commercially available in the very near future. [ABSTRACT FROM AUTHOR]

Mining activities generate a large amount of solid waste and acid drains that contain heavy metals in high concentrations. In wastewater of gold mines from Southern Ecuador (Portovelo), arsenic concentrations between 4.8 and 27.5 μg/L have been detected. In this context, the objective of this study is to prepare a technosol, which was used in the capture of arsenic dissolved in the acid drains. Technosol was elaborated using a clay-silty soil (iron-rich soil), collected in the mining area, and iron nanoparticles synthetized with the extract of orange peel. The technosol was experimentally characterized using adsorption isotherms and uptake kinetics. Besides, a mathematical model was developed using Vensim® to scale the process and predict the dynamic behavior of the adsorbent. Results indicate that adsorption behavior of technosol can be fitted to Langmuir isotherms (R2 > 0.9), with 95% of adsorption of As from an input of 4.5 mg/L. The model will be useful to predict the time needed to remedy contaminated water and the duration of the adsorbent (until its saturation). [ABSTRACT FROM AUTHOR]

Bioremediation of polluted soils is a promising technique with low environmental impact, which uses soil organisms to degrade soil contaminants. In this study, 19 bacterial strains isolated from a diesel-contaminated soil were screened for their diesel-degrading potential, biosurfactant (BS) production, and biofilm formation abilities, all desirable characteristics when selecting strains for re-inoculation into hydrocarbon-contaminated soils. Diesel-degradation rates were determinedin vitroin minimal medium with diesel as the sole carbon source. The capacity to degrade diesel range organics (DROs) of strains SPG23 (Arthobactersp.) and PF1 (Acinetobacter oleivorans) reached 17–26% of total DROs after 10 days, and 90% for strain GK2 (Acinetobacter calcoaceticus). The amount and rate of alkane degradation decreased significantly with increasing carbon number for strains SPG23 and PF1. Strain GK2, which produced BSs and biofilms, exhibited a greater extent, and faster rate of alkane degradation compared to SPG23 and PF1. Based on the outcomes of degradation experiments, in addition to BS production, biofilm formation capacities, and previous genome characterizations, strain GK2 is a promising candidate for microbial-assisted phytoremediation of diesel-contaminated soils. These results are of particular interest to select suitable strains for bioremediation, not only presenting high diesel-degradation rates, but also other characteristics which could improve rhizosphere colonization. [ABSTRACT FROM PUBLISHER]

Plant growth promoting (PGP) bacterial strains possess different mechanisms to improve plant development under common environmental stresses, and are therefore often used as inoculants in soil phytoremediation processes. The aims of the present work were to study the effects of a collection of plant growth promoting bacterial strains on plant development, antioxidant enzyme activities and nutritional status of Cytisus striatus and/or Lupinus luteus plants a) growing in perlite under non-stress conditions and b) growing in diesel-contaminated soil. For this, two greenhouse experiments were designed. Firstly, C. striatus and L. luteus plants were grown from seeds in perlite, and periodically inoculated with 6 PGP strains, either individually or in pairs. Secondly, L. luteus seedlings were grown in soil samples of the A and B horizons of a Cambisol contaminated with 1.25% (w/w) of diesel and inoculated with best PGP inoculant selected from the first experiment. The results indicated that the PGP strains tested in perlite significantly improved plant growth. Combination treatments provoked better growth of L. luteus than the respective individual strains, while individual inoculation treatments were more effective for C. striatus . L. luteus growth in diesel-contaminated soil was significantly improved in the presence of PGP strains, presenting a 2-fold or higher increase in plant biomass. Inoculants did not provoke significant changes in plant nutritional status, with the exception of a subset of siderophore-producing and P-solubilising bacterial strains that resulted in significantly modification of Fe or P concentrations in leaf tissues. Inoculants did not cause significant changes in enzyme activities in perlite experiments, however they significantly reduced oxidative stress in contaminated soils suggesting an improvement in plant tolerance to diesel. Some strains were applied to non-host plants, indicating a non-specific performance of their plant growth promotion. The use of PGP strains in phytoremediation may help plants to overcome contaminant and other soil stresses, increasing phytoremediation efficiency. [ABSTRACT FROM AUTHOR]

The association of plants and rhizospheric bacteria provides a successful strategy to clean up contaminated soils. The purpose of this work was to enhance diesel degradation in Lupinus luteus rhizosphere by inoculation with selected bacterial strains: a diesel degrader (D), plant growth-promoting (PGP) strains, or a combination (D+PGP). Plants were set up in pots with the A or B horizon of an umbric Cambisol (ACamb and BCamb) spiked with diesel (1.25%, w/w). After 1 mo, the dissipation of diesel range organics (DRO) with respect to t = 0 (i.e., 1 wk after preparing the pots with the seedlings) concentration was significantly higher in inoculated than in noninoculated (NI) pots: The highest DRO losses were found in ACamb D+PGP pots (close to 15-20% higher than NI) and in BCamb D pots (close to 10% higher). The water-extractable DRO fraction was significantly higher at t = 30 d (15-25%) compared with t = 0 (<5%), probably due to the effects of plant root exudates and biosurfactants produced by the degrader strain. The results of this experiment reflect the importance of the partnerships between plants and bacterial inoculants and demonstrate the relevance of the effect of bacterial biosurfactants and plant root exudates on contaminant bioavailability, a key factor for enhancing diesel rhizodegradation. The association of lupine with D and PGP strains resulted in a promising combination for application in the rhizoremediation of soils with moderate diesel contamination. [ABSTRACT FROM AUTHOR]

The aim of the present study was to determine the effect of fuel-contaminated soils on the germination, survival, and early growth of six crop plants, viz.Brassicaoleracea,Trifolium repens,Lactuca sativa,Avena sativa,Pisum sativum, andZea mays, grown on Cambisol A and B horizons contaminated with gasoline and diesel (0%, 1.25%, 2.5%, 5%, and 10%, w/w). Fuel toxicity was more evident in the B horizon than in the A horizon, and diesel was more toxic than gasoline, probably due to the higher evaporation rate of the latter. Fuels affected the germination and survival of small-seeded plants to a higher extent, reflecting the importance of the seed coat and nutrient reserves for successful plant development in fuel-contaminated soils. In general, root growth was more strongly affected than shoot growth, and plant biomass was more strongly affected than elongation, leading to a less plant branching in the presence of fuel. The findings of this study can be useful for selecting the least fuel-tolerant species as soil contamination bioindicator and for determining the risks of fuel contamination. Due to the low residence time of gasoline components in soil, this phytotoxicity test resulted in an unsuitable bioassay to assess gasoline toxicity. [ABSTRACT FROM AUTHOR]

Vegetation and its associated microorganisms play an important role in the behaviour of soil contaminants. One of the most important elements is root exudation, since it can affect the mobility, and therefore, the bioavailability of soil contaminants. In this study, we evaluated the influence of root exudates on the mobility of fuel derived compounds in contaminated soils. Samples of humic acid, montmorillonite, and an A horizon from an alumi-umbric Cambisol were contaminated with volatile contaminants present in fuel: oxygenates (MTBE and ETBE) and monoaromatic compounds (benzene, toluene, ethylbenzene and xylene). Natural root exudates obtained fromHolcus lanatusandCytisus striatusand ten artificial exudates (components frequently found in natural exudates) were added to the samples, individually and as a mixture, to evaluate their effects on contaminant mobility. Fuel compounds were analyzed by headspace-gas chromatography-mass spectrometry. In general, the addition of natural and artificial exudates increased the mobility of all contaminants in humic acid. In A horizon and montmorillonite, natural or artificial exudates (as a mixture) decreased the contaminant mobility. However, artificial exudates individually had different effects: carboxylic components increased and phenolic components decreased the contaminant mobility. These results established a base for developing and improving phytoremediation processes of fuel-contaminated soils. [ABSTRACT FROM AUTHOR]

• Polluted areas can persist in soils after land reclamation. • We investigated earthworm behaviour in response to different pollution scenarios. • Earthworms showed avoidance and pollutants affected burrowing and casting activity. • Earthworm responses varied with species and large polluted zones had greater effects. • Heterogeneous pollution could impact earthworms and soil functions in the ecosystem. Large amounts of chemicals are released into soil environments due to human activities, thereby harming organisms and their habitats. Earthworms are important bioindicators for chemical risk assessments of soil ecosystems, but the question remains of how they respond to different patterns of pollution. Laboratory experiments in soil mesocosms were carried out to observe changes in the burrowing behaviour of two earthworm species (Aporrectodea caliginosa and Lumbricus terrestris) with regard to different spatial distributions of benzo(a)pyrene, cadmium and copper, using X-ray computed microtomography (μCT). This is, to our knowledge, the first contribution of μCT to study earthworm behaviour in heterogeneously multi-polluted soils. Columns (14 × 30 cm) were filled with a silt loam soil and packed to represent two scenarios of heterogeneous pollution: a) 'binary', containing polluted soil in the low half part and unpolluted soil on top; and b) 'patches', containing small portions of polluted soil randomly placed into an unpolluted matrix. Earthworms were introduced individually in the columns and left in climatic chambers for 7 weeks. μCT images revealed that earthworms avoided the polluted zones differently (e.g. A. caliginosa > L. terrestris , 'binary' configuration). Individuals of L. terrestris that entered polluted areas showed a lower burrowing activity (volume and length of the burrow system) than those that did not enter. The presence of 'patches' of polluted soil did not cause a reduction of the burrowing activity such as that found in the 'binary' columns, although earthworms showed avoidance. Our results indicate that pollutants had a greater effect on earthworms' burrowing behaviour in the presence of larger portions of contaminated soil compared with small random ones. The more evident avoidance behaviour of A. caliginosa pinpoints its usefulness in toxicity bioassays based on avoidance patterns, but questions its use in assays based on bioaccumulation of pollutants in tissues, for which L. terrestris may perform better. [ABSTRACT FROM AUTHOR]

Plants and their associated microbiota can have a significant impact on the behaviour of soil contaminants. Particularly, root exudation is one of the most important plant-associated processes in this respect, as it may have a substantial effect on the bioavailability of soil contaminants, specially of hydrophobic contaminants strongly sorbed by soil. The aim of the present study was to evaluate the effect of root exudates (natural and artificial) on the desorption of α-, β-, δ- and γ-isomers of hexachlorocyclohexane (HCH) from contaminated soil, using batch experiments. Natural root exudates were obtained from Holcus lanatus plants growing in the same (contaminated) area. Fifteen compounds (mainly organic acids and phenolic compounds) usually found in root exudates were also tested, individually or as mixtures (1 and 10 mM). Both natural and artificial exudates favoured the mobilization of sorbed HCH in soil. The effect was highly significant for α-, β- and γ-HCH isomers, for which the desorption rates increased by 23.0, 26.8 and 15.5% in the presence of natural root exudates and by 40.1, 25.9 and 25.6% in the presence of the artificial mixture (at 10 mM). The δ-HCH desorption rates increased by less than 10%. The effect of individual exudate components was very variable, but increased with the carbon content, reflecting the significance of hydrophobic interactions between the exudates and HCH molecules in the desorption of these last from soil. These findings indicate that plants may significantly influence the bioavailability of persistent contaminants, with major implications for improving phyto- and bioremediation procedures. • HCH desorption from aged soil generally increased in the presence of root exudates. • The effect was more significant for the most hydrophobic isomers (α, β and γ-HCH). • The desorption effect increased with the carbon content of exudate components. • Root exudation may be crucial to increase HCH bioavailability in the rhizosphere. [ABSTRACT FROM AUTHOR]

Assessing the ecological risk of combined pollution, especially from a holistic perspective with the consideration of the overarching functions of soil ecosystem, is crucial and beneficial to the improvement of ecological risk assessment (ERA) framework. In this study, four soils with similar physicochemical properties but contrasting heavy metals contamination levels were selected to explore changes in the integrated functional sensitivity (MSI), resistance (MRS) and resilience (MRL) of soil microbial communities subjected to herbicide siduron, based on which the ecological risk of the accumulation of siduron in the four studied soils were evaluated. The results suggested that the microbial biomass carbon, activity of denitrification enzyme and nitrogenase were indicative of MSI and MRS, and the same three parameters plus soil basal respiration were indicative of MRL. Significant dose-effect relationships between siduron residues in soils and MSI, MRS and MRL under combined pollution were observed. Heavy metal polluted soils showed higher sensitivity and lower resistance to the additional disturbance of herbicide siduron due to the lower microbial biomass, while the resilience of heavy metal polluted soils was much higher due to the pre-adaption to the chemical stresses. The quantifiable indicator microbial functional stability was incorporated in the framework of ERA and the results showed that the accumulation of siduron in the studied soils could exhibit potential harm to the integrated functional stability of soil microbial community. Thus, this work provides insights into the application of integrated function of soil microbial community into the framework of ERA. Image 1 • The integrated index method is efficient at assessing combined effects of contaminant mixtures. • Heavy metal polluted soils show lower resistance but higher resilience ability to siduron stress. • The accumulation of siduron in soil exhibits potential harm to microbial functional stability. • MSI, MRS, MRL are applicable endpoints to assess the toxic effect of pollutants at community level. [ABSTRACT FROM AUTHOR]

• The loss of biodiversity caused by heavy metals did not affect microbial functional stability. • The decrease of the GP/GN ratio trigged by heavy metals increased microbial functional stability. • Soil organic matter, Cd, C/N were crucial factors governing microbial functional stability. • Microbial functional stability can be a feasible indicator in ecological risk assessment. The functional stability (FS) of soil microbial communities contributes in a fundamental way to maintaining soil ecosystem functioning and services, when environmental disturbances, e.g. contamination arise. While, the mechanisms enabling soil microbial communities to remain stable under stresses are not clear. Thus, this work aims at investigating changes in integrated microbial FS under long-term stress of heavy metals (FS HM) and subsequent herbicide siduron (FS sid). A second objective is to determine which factors affect the FS of microbial communities. The results show that the overall function, alpha diversity, and composition of microbial communities are affected significantly by the presence of heavy metals and herbicide siduron. The loss of biodiversity induced by heavy metal does not appear to impair the functions of microbial communities or their functional stability in response to the additional stress of siduron. Whereas, the change of microbial community composition, e.g., the decrease of the gram positive/gram negative ratio triggered by the adaption and tolerance process to the pre-disturbance of heavy metals, is the central factor governing FS. Soil organic matter content, the concentration of heavy metals and the C/N value are the dominant abiotic factors affecting FS through direct effect on microbial activities involved in functional processes and indirect effect on microbial community composition. Our study highlights that the structural composition of soil microbial community is more important than the diversity of microbial species to explain the functional stability of microbial communities under chemical stresses, and that a number of soil properties and the disturbance history also play a decisive role. Thus, the functional stability of soil microbial community can be used as a feasible and pragmatic indicator to assess the overarching responses to environmental stresses at ecological system level. [ABSTRACT FROM AUTHOR]

The association of plants and rhizospheric bacteria provides a successful strategy to clean up contaminated soils. The purpose of this work was to enhance diesel degradation in rhizosphere by inoculation with selected bacterial strains: a diesel degrader (D), plant growth-promoting (PGP) strains, or a combination (D+PGP). Plants were set up in pots with the A or B horizon of an umbric Cambisol (A and B) spiked with diesel (1.25%, w/w). After 1 mo, the dissipation of diesel range organics (DRO) with respect to = 0 (i.e., 1 wk after preparing the pots with the seedlings) concentration was significantly higher in inoculated than in noninoculated (NI) pots: The highest DRO losses were found in A D+PGP pots (close to 15-20% higher than NI) and in B D pots (close to 10% higher). The water-extractable DRO fraction was significantly higher at = 30 d (15-25%) compared with = 0 (<5%), probably due to the effects of plant root exudates and biosurfactants produced by the degrader strain. The results of this experiment reflect the importance of the partnerships between plants and bacterial inoculants and demonstrate the relevance of the effect of bacterial biosurfactants and plant root exudates on contaminant bioavailability, a key factor for enhancing diesel rhizodegradation. The association of lupine with D and PGP strains resulted in a promising combination for application in the rhizoremediation of soils with moderate diesel contamination., (Copyright © by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America, Inc.)