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Combined use of GIS and environmental indicators for assessment of chemical, physical and biological soil degradation in a Spanish Mediterranean region.

Soil is one of the main non-renewable natural resources in the world. In the Valencian Community (Mediterranean coast of Spain), it is especially important because agriculture and forest biomass exploitation are two of the main economic activities in the region. More than 44% of the total area is under agriculture and 52% is forested. The frequently arid or semi-arid climate with rainfall concentrated in few events, usually in the autumn and spring, scarcity of vegetation cover, and eroded and shallow soils in several areas lead to soil degradation processes. These processes, mainly water erosion and salinization, can be intense in many locations within the Valencian Community. Evaluation of soil degradation on a regional scale is important because degradation is incompatible with sustainable development. Policy makers involved in land use planning require tools to evaluate soil degradation so they can go on to develop measures aimed at protecting and conserving soils. In this study, a methodology to evaluate physical, chemical and biological soil degradation in a GIS-based approach was developed for the Valencian Community on a 1/200,000 scale. The information used in this study was obtained from two different sources: (i) a soil survey with more than 850 soil profiles sampled within the Valencian Community, and (ii) the environmental information implemented in the Geo-scientific map of the Valencian Community digitised on an Arc/Info GIS. Maps of physical, chemical and biological soil degradation in the Valencian Community on a 1/200,000 scale were obtained using the methodology devised. These maps can be used to make a cost-effective evaluation of soil degradation on a regional scale. Around 29% of the area corresponding to the Valencian Community is affected by high to very high physical soil degradation, 36% by high to very high biological degradation, and 6% by high to very high chemical degradation. It is, therefore, necessary to draw up legislation and to establish the policy framework for actions focused on preventing soil degradation and conserving its productive potential.

Agriculture↗

Bioremediation of soil degraded by sewage sludge: effects on soil properties and erosion losses.

Soils in the Mediterranean area are very prone to erosion due to the loss of organic matter and the consequent lack of protective vegetation. In this experiment a Mediterranean degraded soil with a 15% slope was amended at a rate of 250 t ha(-1) wet weight with sewage sludge and with a mixture of sewage sludge and barley straw (70% carbon from sewage sludge and 30% from the straw) in order to study their influence on soil structure recovery and hence the soils's resistance to erosion processes. Both types of organic amendment led to an improvement in several soil properties (physical, biological, and microbiological) as a result of the spontaneous growth plant covering that became evident three months after amendment. This vegetation remained throughout the two years of the experiment and prevented the water erosion processes that normally precede soil degradation. Amendment by sewage sludge alone reduced soil loss by 80% compared with the control soil, while the mixture that included both sewage sludge and barley straw reduced losses by 84%, both reducing runoff by 57%. The amended soils showed increases in the percentage of stable aggregates, the levels of the total and water-soluble C fractions, microbial biomass C, basal respiration, and the activity of the different enzymes involved in the biogeochemical cycles of C, N, and P. The results confirm the usefulness of sewage sludge as an organic amendment for recovering damaged soils.

Biodegradation, Environmental↗

Degradation studies on benzoxazinoids. Soil degradation dynamics of (2R)-2-O-beta-D-glucopyranosyl-4-hydroxy-(2H)- 1,4-benzoxazin-3(4H)-one (DIBOA-Glc) and its degradation products, phytotoxic allelochemicals from Gramineae.

Wheat (Triticum aestivum L.) has been found to possess allelopathic potential and studies have been conduced to apply wheat allelopathy for biological weed control. 2,4-Dihydroxy-(2H)-1,4-benzoxazin-3(4H)-one (DIBOA) is a common product found in wheat, corn, and rye exudates and it can be released to the environment by that way. In this report, the stability of DIBOA is studied in two soils from crop lands of wheat cv. Astron and cv. Ritmo. These varieties were selected by their concentrations of DIBOA and 2,4-dihydroxy-7-methoxy-(2H)-1,4-benzoxazin-3(4H)-one (DIMBOA) from aerial parts and by the bioactivities of their aqueous extracts in the growth of wheat coleoptile sections. The degradation rate of DIBOA in these soils was measured in laboratory tests during 90 h by high-pressure liquid chromatography methods. These analyses demonstrate that DIBOA was transformed primarily into 2-benzoxazolinone (BOA). This transformation was similar in both soil types with an average half-life of 43 h. The degradation studies for BOA show its biotransformation to 2-aminophenoxazin-3-one (APO) with a half-life of 2.5 days. Therefore, BOA is an intermediate product in the biotransformation from DIBOA to APO in these wheat crop soils and is consistent with previous findings. APO was not degraded after three months in soil, suggesting that its degradation rate in soil is very slow.

Benzoxazines↗

Degradation studies on benzoxazinoids. Soil degradation dynamics of 2,4-dihydroxy-7-methoxy-(2H)-1,4-benzoxazin-3(4H)-one (DIMBOA) and its degradation products, phytotoxic allelochemicals from gramineae.

Benzoxazinoids have been described as important allelochemicals from Gramineae as well as Acanthaceae, Rannunculaceae, and Scrophulariaceae plants. Several bioactivities have been described and evaluated for these compounds, including fungistatic, antifeedant, and phytotoxic. In ongoing studies about allelochemicals as natural herbicide models, the description of soil dynamics in phytotoxic agents has high importance, because the possible biotransformations developed by soil microorganisms could yield compounds with modified biological properties, affecting the overall allelopathic capability of the producer plant in a direct manner. Thus, a complete degradation study has been carried out for 2,4-dihydroxy-7-methoxy-(2H)-1,4-benzoxazin-3(4H)-one (DIMBOA) and 6-methoxybenzoxazolin-2(3H)-one (MBOA) in two soils cultivated with Triticum aestivum L. varieties (cv. Astron and cv. Ritmo). The main purpose was to identify degradation products and to elucidate biotransformation dynamics. Results show DIMBOA to degrade rapidly, yielding MBOA in both studied soils at different doses (t(1/2) = 31 +/- 1 h, n = 12) and reaching high conversions (80 +/- 4 h, n = 42). MBOA, an intermediate in the degradation pathway from DIMBOA to 2-amino-7-methoxy-3H-phenoxazin-3-one (AMPO), was more resistant toward biodegradation (t(1/2) = 5 +/- 1 days, n = 6). MBOA showed maximum conversions at a dose of 250 mg/kg of soil (36 +/- 3 days, n = 6). Soil belonging to T. aestivum cv. Ritmo crops showed higher degradation capacity than cv. Astron soil. AMPO was the final degradation product observed for DIMBOA in the soils and experimental conditions selected. Consequences for activity and stability of these compounds in relation to allelopathy are discussed.

Benzoxazines↗

Chlorflurenol-methyl in soil: degradation, leaching, and effects on microbiological processes.

Tests were conducted with the synthetic growth regulator chlorflurenol-methyl to investigate its rate of degradation in soil, leaching behavior, and possible side-effects on the soil microflora and on soil physiological processes. With two sandy soils (Ct = 1.0 and 2.58%) which were treated with 11.35 mg kg-1 chlorflurenol-methyl (congruent to 2.8 kg a.i. ha-1), over 90% of the compound disappeared within 4 to 8 days. The degradation products were 2-chloro-9-hydroxyfluorene-9-carboxylic acid and 2-chlorofluorenone, which undergo further decomposition. In leaching tests with three sandy soils (Ct = 0.69, 1.0 and 2.58%), chlorflurenol-methyl was not washed from the soil; however, with one soil (0.69% C), very small residues were observed in the effluent identified as 2-chlorofluorenone. In side-effects experiments with a parabrown (Ct = 1.26%) and a chernozem soil (Ct = 2.3%), which were treated with 1 and 10 mg kg-1 chlorflurenolmethyl, no persistent inhibition of anaerobic or aerobic nitrogen fixation (C2H2-reduction) was detected. Ammonification, nitrification, and mineralization of soluble starch were also not influenced. The mineralization of cellulose in compost soil (Ct = 13.59%) was temporarily delayed; however, this delay was later compensated for by a higher mineralization rate. The colonization density of fungi on soil particles and the numbers of bacteria, actinomycetes, and fungi were not negatively influenced. Chlorflurenol-methyl does not significantly influence these microbiological processes and populations in the soil.

Actinomycetales↗

Data organization for soil metabolism and soil degradation studies with microsoft Excel spreadsheets.

Certain steps for soil metabolism and soil degradation studies are repetitive and must transpire for each study. These steps are the data on initial combustion of soil, the extraction data, volatile-recovery data, and postextraction soil combustion data. A summary page that includes all these data has been developed and used successfully to document all the raw data associated with these steps on one form. Weights, volumes, and liquid scintillation data can then be entered into an Excel spreadsheet formatted to accept and process these raw data to provide the calculated data required for reporting. This information is centrally located for each sampling time period, which facilitates and streamlines quality assurance (QA) review of this study file. An explanation of the process and examples of the forms is provided.

Data Collection↗

Cloning and sequencing of two tandem genes involved in degradation of 2,3-dihydroxybiphenyl to benzoic acid in the polychlorinated biphenyl-degrading soil bacterium Pseudomonas sp. strain KKS102.

Two genes involved in the degradation of biphenyl were isolated from a gene library of a polychlorinated biphenyl-degrading soil bacterium, Pseudomonas sp. strain KKS102, by using a broad-host-range cosmid vector, pKS13. When a 3.2-kilobase (kb) PstI fragment of a 29-kb cosmid DNA insert was subcloned into pUC18 at the PstI site downstream of the lacZ promoter, Escherichia coli cells carrying this recombinant plasmid expressed 2,3-dihydroxybiphenyl dioxygenase activity. Nucleotide sequencing of the 3.2-kb PstI fragment revealed that there were two open reading frames (ORFI [882 base pairs] and ORFII [834 base pairs], in this gene order). Results of analysis of Tn5 insertion mutants and unidirectional deletion mutants suggested that the ORFI coded for 2,3-dihydroxybiphenyl dioxygenase. When the sequence of ORFI was compared with that of bphC of Pseudomonas pseudoalcaligenes KF707 (K. Furukawa, N. Arima, and T. Miyazaki, J. Bacteriol. 169:427-429, 1987), the homology was 68%, with both strains having the same Shine-Dalgarno sequence. The result of gas chromatography-mass spectrometry analysis of the metabolic product suggested that the ORFII had meta cleavage compound hydrolase activity to produce benzoic acid. DNA sequencing suggested that these two genes were contained in one operon.

Amino Acid Sequence↗

[Microbial characteristics of straw-amended degraded soils in central Tibet and its effect on soil fertility].

This paper studied the dynamics of microbial communities in degraded soils of central Tibet under straw amendment and its effect on soil fertility. The results showed that straw amendment, and soil covering with spring highland barley (Hordeum vulgare var. nudum) straw in particular, could supply a beneficial soil environment for the relatively balanced growth of soil microbes, e.g., reduced water evaporation, appropriate temperature, and increased content of organic matter and nutrients. All the results demonstrated the possibility of straw amendment in recovering soil fertility and in reconstructing of soil structure in a relatively short period.

Carbon↗

Microcosm enrichment of 1,3-dichloropropene-degrading soil microbial communities in a compost-amended soil.

AIMS: A microcosm-enrichment approach was used to investigate bacterial populations that may represent 1,3-dichloropropene (1,3-D)-degrading micro-organisms in compost-amended soil. METHODS AND RESULTS: After 8 weeks of incubation, with repeated application of 1,3-D, volatilization fluxes were much lower for compost-amended soil (CM) than with the unamended soils, indicating accelerated degradation due to addition of compost, or development of new microbial populations with enhanced degradation capacity. Denaturing gradient gel electrophoresis (DGGE) profiles of the PCR-amplified region of 16S rDNA genes were used to identify dominant bacterial populations in the fumigant-degrading soil. The DGGE results indicated that specific bacterial types had been enriched, and a more diverse fingerprint was observed in the community derived from the compost-amended soil compared with the unamended soil. Fragments from 16 different DGGE bands were cloned, sequenced and compared with published 16S rDNA sequences. Two clones, designated E1 and E4, were unique to all soils to which compost was added, and corresponded to strains of Pseudomonas and Actinomadura, respectively. CONCLUSIONS: The results show that the addition of compost to soil increases specific microbial populations and results in the accelerated degradation of fumigants. SIGNIFICANCE AND IMPACT OF THE STUDY: Application of compost manure to soil can help degrade soil fumigants at a faster rate.

Allyl Compounds↗

In-situ enumeration and probing of pyrene-degrading soil bacteria.

Inferences about which microorganisms degrade polycyclic aromatic hydrocarbons in contaminated soils have largely been obtained using culture-based techniques, despite the low percentage of microorganisms in soil that are believed to be culturable. We used a substrate-responsive direct viable count method to identify and quantify potential polycyclic aromatic hydrocarbon-degrading bacteria in a soil containing petroleum wastes. Bacteria were extracted and their response to substrates determined in the presence of DNA gyrase inhibitors, which cause viable and active cells to elongate. When yeast extract, a widely used carbon source, was added as a growth substrate, together with nalidixic acid, piromidic acid and ciprofloxacin, a significant increase in elongated cells to 47%, 37% and 22%, respectively, was observed within 24 h. With pyrene as the main substrate, 10 mg L(-1) of nalidixic acid or piromidic acid caused 18-22% and 8-12%, respectively, of the cells to elongate within 24 h; whereas the effect of 0.5 mg L(-1) ciprofloxacin was not significant until 53 h later. Enlarged cells were identified and enumerated by fluorescent in situ hybridization, using Alpha-, Beta- and Gammaproteobacteria, and domain Bacteria-specific probes. The Bacteria-specific probe detected 35-71% of the total microorganisms detected by the DNA-binding dye 4,6-diamidino-2-phenylindole. Initially, 44%, 13% and 5% of the total bacteria in the soil extract were Alpha-, Beta- and Gammaproteobacteria, respectively. Without pyrene or a gyrase inhibitor, these subgroups decreased to 30% of the total population but were predominant with piromidic acid or unchanged with ciprofloxacin when pyrene was the main substrate. The proportion of elongated Alpha- and Betaproteobacteria (potential pyrene degraders) increased significantly (P<0.05). This approach links phylogenetic information with physiological function in situ without the conventional cultivation of bacteria and can be used to probe and enumerate degradative groups at even a finer level of discrimination.

Anti-Bacterial Agents↗

Plant community tolerant to trace elements growing on the degraded soils of São Domingos mine in the south east of Portugal: environmental implications.

The selection of trace element tolerant species is a key factor to the success of remediation of degraded mine soils. Mining activities generate a large amount of waste rocks and tailings, which get deposited at the surface. The degraded soils, the waste rocks and tailings are often very unstable and will become sources of pollution. The direct effects will be the loss of cultivated land, forest or grazing land, and the overall loss of production. The indirect effects will include air and water pollution and siltation of rivers. These will eventually lead to the loss of biodiversity, amenity and economic wealth. Restoration of a vegetation cover can fulfil the objectives of stabilization, pollution control, visual improvement and removal of threats to human beings. Thus, remediation of mine spoils/tailings and biogeochemical prospecting would rely on the appropriate selection of plant species. Plant community responds differently on their ability to uptake or exclude a variety of metals. In this work, plant species were sampled from all populations established in an abandoned copper mine of São Domingos, SE Portugal. Plants belonging to 24 species, 16 genera and 13 families were collected from the degraded copper mine of São Domingos. Plant samples were analysed for total Ag, As, Cu, Ni, Pb, and Zn. The highest concentrations of metals in soils dry matter were 11217.5 mg Pb kg(-1), 1829 mg Cu kg(-1), 1291 mg As kg(-1), 713.7 mg Zn kg(-1), 84.6 mg Cr kg(-1), 54.3 mg Co kg(-1), 52.9 mg Ni kg(-1) and 16.6 mg Ag kg(-1). With respect to plants, the higher concentrations of Pb and As were recorded in the semi-aquatic species Juncus conglomeratus with 84.8 and 23.5 mg kg(-1) dry weight (DW), Juncus efusus with 22.4 and 8.5 mg kg(-1) DW, and Scirpus holoschoenus with 51.7 and 8.0 mg kg(-1) DW, respectively. Thymus mastichina also showed high content of As in the aboveground parts, 13.6 mg kg(-1) DW. Overall, the results indicate accumulation of various metals by different plant species, with some of these metals being partitioned to the shoots. Environmental implications of these observations are discussed.

Copper↗

Isocratic high-performance liquid chromatographic separation and multiple-wavelength ultraviolet detection of aldicarb and its soil degradation products. Optimization of stationary phase selectivity.

The unique selectivities which can be generated through optimization of stationary/mobile phase combinations have been applied to the development of an isocratic, reversed-phase high-performance liquid chromatographic method for the separation of aldicarb and its primary soil degradation products. The method utilizes a cyanopropyl bonded stationary phase and water-acetonitrile mobile phase and is capable of separating aldicarb and its various sulfoxide, sulfone and oxime derivatives in less than 10 min. When combined with multiple-wavelength UV detection and an appropriate preconcentration step, this method can in principle be applied to the routine monitoring of aldicarb and its soil derivatives in water at concentrations less than 1 microgram/l.

Aldicarb↗

Use of sewage sludge compost as the restoration agent on the degraded soil of Tatarstan.

One of the characteristics of soils in Tatarstan is their low organic matter content. The decrease in soil organic matter is paralleled by declines in soil fertility. One method to reverse this degradation in soil quality is the addition of organic matter. The use of sewage sludge on soils intended for growing of plant seedlings provides an alternative for sewage sludge disposal. Therefore, the evaluation of the feasibility of using compost from the municipal sewage sludge produced in Kazan for the soil restoration and growth of Pinus silvestris seedlings was carried out. The grey forest soil (Haplic Greyzem) was amended with compost at application rate 30, 60 and 90 Mg ha(-1) on a dry matter basis. Organic matter content increased with the increase in sludge amendment. The concentrations of individual heavy metal were below the current limits established for Russia and European countries. Sludge amendments enhanced the germination and the number of the seedlings and the increase were more obvious for the soil with highest sludge treatment. The application of composted sludge to soil was followed by the increase in microbial biomass and basal respiration.

Biomass↗

Pencycuron application to soils: degradation and effect on microbiological parameters.

Clay loam soil from agricultural fields of alluvial (AL) soil (typic udifluvent) and coastal saline (CS) soil (typic endoaquept) were investigated for the degradation and effect of pencycuron application at field rate (FR), 2-times FR (2FR) and 10-times FR (10FR) with and without decomposed cow manure (DCM) on soil microbial variables under laboratory conditions. Pencycuron degraded faster in CS soil and in soil amended with DCM. Pencycuron spiking at FR and 2FR resulted in a short-lived (in case of 10FR slightly longer) and transitory toxic effect on soil microbial biomass-C (MBC), ergosterol content and fluorescein diacetate hydrolyzing activity (FDHA). Amendment of DCM did not seem to have any counteractive effect of the toxicity of pencycuron on the microbial variables. The ecophysiological status of the soil microbial communities as expressed by microbial metabolic quotient (qCO2) and microbial respiration quotient (Q(R)) changed, but for a short period, indicating pencycuron induced disturbance. The duration of this disturbance was slightly longer at 10FR. Pencycuron was more toxic to the metabolically activated soil microbial populations, specifically the fungi. It is concluded that side effects of pencycuron at 10FR on the microbial variables studied were only short-lived and probably of little ecological significance.

Agriculture↗

Characterization of polycyclic aromatic hydrocarbons degradative soil Pseudomonas.

Nine Pseudomonas strains, able to degrade polycycle aromatic hydrocarbons (PAHs), were isolated from enriched cultures with naphthalene, as carbon source, and soil samples from a land farming process applied on oil sludge, as inocula. Degradative tests showed that all the strains were capable to catabolize naphthalene (Nah) and phenanthrene (Phn). U2 strain transferred the selected function (Nah) to P. aeruginosa T1 (Hgr Oct+), however some of the transconjugants lost the Oct character, suggesting that it is of plasmidic nature. T1 derivatives as well the wild strains U28 and U31 transferred Nah function to P. putida AC165. All of the examined transconjugants also catabolized phenanthrene, suggesting that Nah and Phn functions in U2, U28, and U31 strains are linked and probably encoded by transferable plasmids.

Biodegradation, Environmental↗

Watering, fertilization, and slurry inoculation promote recovery of biological crust function in degraded soils.

Biological soil crusts are very sensitive to human-induced disturbances and are in a degraded state in many areas throughout their range. Given their importance in the functioning of arid and semiarid ecosystems, restoring these crusts may contribute to the recovery of ecosystem functionality in degraded areas. We conducted a factorial microcosm experiment to evaluate the effects of inoculation type (discrete fragments vs slurry), fertilization (control vs addition of composted sewage sludge), and watering frequency (two vs five times per week) on the cyanobacterial composition, nitrogen fixation, chlorophyll content, and net CO2 exchange rate of biological soil crusts inoculated on a semiarid degraded soil from SE Spain. Six months after the inoculation, the highest rates of nitrogen fixation and chlorophyll a content were found when the biological crusts were inoculated as slurry, composted sewage sludge was added, and the microcosms were watered five times per week. Net CO2 exchange rate increased when biological crusts were inoculated as slurry and the microcosms were watered five times per week. Denaturing gradient gel electrophoresis fingerprints and phylogenetic analyses indicated that most of the cyanobacterial species already present in the inoculated crust had the capability to spread and colonize the surface of the surrounding soil. These analyses showed that cyanobacterial communities were less diverse when the microcosms were watered five times per week, and that watering frequency (followed in importance by the addition of composted sewage sludge and inoculation type) was the treatment that most strongly influenced their composition. Our results suggest that the inoculation of biological soil crusts in the form of slurry combined with the addition of composted sewage sludge could be a suitable technique to accelerate the recovery of the composition and functioning of biological soil crusts in drylands.

Acetylene↗

Short-term effects of biosolid and municipal solid waste applications on heavy metals distribution in a degraded soil under a semi-arid environment.

Digested biosolid (SS) and municipal solid waste (MSW) were surface-applied to a degraded carbonated soil, under semi-arid environment, at rates of 0 and 80 Mg/ha, to determine the changes in organic matter and in the distribution of heavy metals in the topsoil, 1 year after its application. Waste application slightly increased the organic matter content and improved the composition of humic fractions in the treated soils, mainly in the MSW amended plots. A sequential extraction method (Tessier et al., 1979) was used to determine the distribution of Cd, Cr, Cu, Ni, Pb and Zn in both the waste and the amended.soils. Waste application had little effect on the total concentration of Ni and Cr in the treated soils as a consequence of the low availability of these metals in the wastes. A considerable increase of Cd, Cu, Pb and Zn was observed as a consequence of the high content and/or high availability of these metals in the wastes. The more labile fraction (exchangeable fraction) of all metals studied increased slightly (< 1.5 mg/kg) when SS and MSW were added. However, a remarkable increase in the Fe/Mn oxide fraction of Cd, Cu and Pb and in the organic fraction of Zn were noted in treated plots, this increase being higher in the MSW treated soils.

Climate↗

Use of field-based stable isotope probing to identify adapted populations and track carbon flow through a phenol-degrading soil microbial community.

The goal of this field study was to provide insight into three distinct populations of microorganisms involved in in situ metabolism of phenol. Our approach measured 13CO2 respired from [13C]phenol and stable isotope probing (SIP) of soil DNA at an agricultural field site. Traditionally, SIP-based investigations have been subject to the uncertainties posed by carbon cross-feeding. By altering our field-based, substrate-dosing methodologies, experiments were designed to look beyond primary degraders to detect trophically related populations in the food chain. Using gas chromatography-mass spectrometry (GC/MS), it was shown that (13)C-labeled biomass, derived from primary phenol degraders in soil, was a suitable growth substrate for other members of the soil microbial community. Next, three dosing regimes were designed to examine active members of the microbial community involved in phenol metabolism in situ: (i) 1 dose of [13C]phenol, (ii) 11 daily doses of unlabeled phenol followed by 1 dose of [13C]phenol, and (iii) 12 daily doses of [13C]phenol. GC/MS analysis demonstrated that prior exposure to phenol boosted 13CO2 evolution by a factor of 10. Furthermore, imaging of 13C-treated soil using secondary ion mass spectrometry (SIMS) verified that individual bacteria incorporated 13C into their biomass. PCR amplification and 16S rRNA gene sequencing of 13C-labeled soil DNA from the 3 dosing regimes revealed three distinct clone libraries: (i) unenriched, primary phenol degraders were most diverse, consisting of alpha-, beta-, and gamma-proteobacteria and high-G+C-content gram-positive bacteria, (ii) enriched primary phenol degraders were dominated by members of the genera Kocuria and Staphylococcus, and (iii) trophically related (carbon cross-feeders) were dominated by members of the genus Pseudomonas. These data show that SIP has the potential to document population shifts caused by substrate preexposure and to follow the flow of carbon through terrestrial microbial food chains.

Alphaproteobacteria↗