Effect of soil moisture and bovine urine on microbial stress

While many studies have examined the cycling of urinary nutrients, few have focused on the effects ruminant urine might have on the soil microbial community. Urine application can cause microbial communities to become stressed, potentially changing community composition and microbial function with subsequent effects on nutrient dynamics. Identification of the factors that stress microbes may assist in explaining ruminant urine effects on nutrient cycling. In this laboratory study bovine urine, with either a high (15.0 g K⁺ l^?1) or low (10.4 g K⁺ l^?1) salt concentration, was added to repacked soil cores maintained at high or low soil moisture contents (70 or 35% water-filled pore space, respectively). Control cores did not receive urine. Microbial stress was measured using phospholipid fatty acid (PLFA) biomarker ratios. Urine addition increased stress as indicated by a decrease in the iso15:0/anteiso15:0 PLFA ratio from >1.35 to <0.95 in both wet and dry soils and by an increase in the 18:1ω9trans/18:1ω9cis PLFA ratio from 1.4 to 1.9 from day 8 onwards in wet soils. Higher stress was indicated by a lower Gram-positive/Gram-negative PLFA ratio in the urine treatments than in the control treatments on day 29 and this may have been a response to the reduction in substrate availability as the experiment progressed. The PLFA biomarkers showed that the salt treatments did not induce stress. Stress induced by urine addition and wet soil treatments was also indicated by principal component analyses and the metabolic quotient for CO₂, respectively. Thus microbial stress was induced by both urine addition and high soil moisture content, but not specifically by increasing the urinary salt concentration.     

The influence of soluble carbon and fertilizer nitrogen on nitric oxide and nitrous oxide emissions from two contrasting agricultural soils

Contradictory effects of simultaneous available organic C and N sources on nitrous oxide (N₂O), carbon dioxide (CO₂) and nitric oxide (NO) fluxes are reported in the literature. In order to clarify this controversy, laboratory experiments were conduced on two different soils, a semiarid arable soil from Spain (soil I, pH=7.5, 0.8%C) and a grassland soil from Scotland (soil II, pH=5.5, 4.1%C). Soils were incubated at two different moisture contents, at a water filled pore space (WFPS) of 90% and 40%. Ammonium sulphate, added at rates equivalent to 200 and 50 kg N ha^?1, stimulated N₂O and NO emissions in both soils. Under wet conditions (90% WFPS), at high and low rates of N additions, cumulative N₂O emissions increased by 250.7 and 8.1 ng N₂O–N g^?1 in comparison to the control, respectively, in soil I and by 472.2 and 2.1 ng N₂O–N g^?1, respectively, in soil II. NO emissions only significantly increased in soil I at the high N application rate with and without glucose addition and at both 40% and 90% WFPS. In both soils additions of glucose together with the high N application rate (200 kg N ha^?1) reduced cumulative N₂O and NO emissions by 94% and 55% in soil I, and by 46% and 66% in soil II, respectively. These differences can be explained by differences in soil properties, including pH, soil mineral N and total and dissolved organic carbon content. It is speculated that nitrifier denitrification was the main source of NO and N₂O in the C-poor Spanish soil, and coupled nitrification–denitrification in the C-rich Scottish soil.     

Rapid estimation of microbial biomass in grassland soils by ultra-violet absorbance

A reliable and simple technique for estimating soil microbial biomass (SMB) is essential if the role of microbes in many soil processes is to be quantified. Conventional techniques are notoriously time-consuming and unreproducible. A technique was investigated that uses the UV absorbance at 280 nm of 0.5 M K₂SO₄ extracts of fumigated and unfumigated soils to estimate the concentrations of carbon, nitrogen and phosphorus in the SMB. The procedure is based on the fact that compounds released after chloroform fumigation from lysed microbial cells absorb in the near UV region. Using 29 UK permanent grassland soils, with a wide range of organic matter (2.9–8.0%) and clay contents (22–68%), it was demonstrated that the increase in UV absorbance at 280 nm after soil fumigation was strongly correlated with the SMB C (r=0.92), SMB N (r=0.90) and SMB P (r=0.89), as determined by conventional methods. The soils contained a wide range of SMB C (412–3412 μg g⁻¹ dry soil), N (57–346 μg g⁻¹ dry soil) and P (31–239 μg g⁻¹ dry soil) concentrations. It was thus confirmed that the UV absorbance technique described was a rapid, simple, precise and relatively inexpensive method of estimating soil microbial biomass.     

Climatic influences on active fractions of soil organic matter

Biologically active fractions of soil organic matter are important in understanding decomposition potential of organic materials, nutrient cycling dynamics, and biophysical manipulation of soil structure. We evaluated the quantitative relationships among potential C and net N mineralization, soil microbial biomass C (SMBC), and soil organic C (SOC) under four contrasting climatic conditions. Mean SOC values were 28±11 mg g⁻¹ (n=24) in a frigid–dry region (Alberta/British Columbia), 25±5 mg g⁻¹ (n=12) in a frigid–wet region (Maine), 11±4 mg g⁻¹ (n=117) in a thermic–dry region (Texas), and 12±5 mg g⁻¹ (n=131) in a thermic–wet region (Georgia). Higher mean annual temperature resulted in consistently greater basal soil respiration (1.7 vs 0.8 mg CO₂–C g⁻¹ SOC d⁻¹ in the thermic compared with the frigid regions, P<0.001), greater net N mineralization (2.8 vs 1.3 mg inorganic N g⁻¹ SOC 24 d⁻¹, P<0.001), and greater SMBC (53 vs 21 mg SMBC g⁻¹ SOC, P<0.001). Specific respiratory activity of SMBC was, however, consistently lower in the thermic than in the frigid regions (29 vs 34 mg CO₂–C g⁻¹ SMBC d⁻¹, P<0.01). Higher mean annual precipitation resulted in consistently lower basal soil respiration (1.1 vs 1.3 mg CO₂–C g⁻¹ SOC d⁻¹ in the wet compared with the dry regions, P<0.01) and lower SMBC (31 vs 43 mg SMBC g⁻¹ SOC, P<0.001), but had inconsistent effects on net N mineralization that depended upon temperature regime. Specific respiratory activity of SMBC was consistently greater in the wet than the dry regions (≈33 vs 29 mg CO₂–C g⁻¹ SMBC d⁻¹, P<0.01). Although the thermic regions were not able to retain as high a level of SOC as the frigid regions, due likely to high annual decomposition rates, biologically active soil fractions were as high per mass of soil and even 2–3-times greater per unit of SOC in the thermic compared with the frigid regions. These results suggest that macroclimate has a large impact on the portion of soil organic matter that is potentially active, but a relatively small impact on the specific respiratory activity of SMBC.     

Differences in soil enzyme activities,microbial community structure and short-term nitrogen mineralisation resulting from farm management history and organic matter amendments

Changes in soil microbial biomass, enzyme activities, microbial community structure and nitrogen (N) dynamics resulting from organic matter amendments were determined in soils with different management histories to gain better understanding of the effects of long- and short-term management practices on soil microbial properties and key soil processes. Two soils that had been under either long-term organic or conventional management and that varied in microbial biomass and enzyme activity levels but had similar fertility levels were amended with organic material (dried lupin residue, Lupinus angustifolius L.) at amounts equivalent to 0, 4 and 8 t dry matter lupin ha^?1. Microbial biomass C and N, arginine deaminase activity, fluorescein diacetate hydrolysis, dehydrogenase enzyme activity and gross N mineralisation were measured in intervals over an 81-day period. The community structure of eubacteria and actinomycetes was examined using PCR–DGGE of 16S rDNA fragments. Results suggested that no direct relationships existed between microbial community structure, enzyme activities and N mineralisation. Microbial biomass and activity changed as a result of lupin amendment whereas the microbial community structure was more strongly influenced by farm management history. The addition of 4 t ha^?1 of lupin was sufficient to stimulate the microbial community in both soils, resulting in microbial biomass growth and increased enzyme activities and N mineralisation regardless of past management. Amendment with 8 t lupin ha^?1 did not result in an increase proportional to the extra amount added; levels of soil microbial properties were only 1.1–1.7 times higher than in the 4 t ha^?1 treatment. Microbial community structure differed significantly between the two soils, while no changes were detected in response to lupin amendment at either level during the short-term incubation. Correlation analyses for each treatment separately, however, revealed differences that were inconsistent with results obtained for soil biological properties suggesting that differences might exist in the structure or physiological properties of a microbial component that was not assessed in this study.     

Micro-topographic patterns unravel controls of soil water and temperature on soil respiration in three Siberian tundra systems

Spatial and temporal patterns of soil respiration rates and controlling factors were investigated in three wet arctic tundra systems. In situ summer season carbon dioxide fluxes were measured across a range of micro-topographic positions in tussock tundra, wet sedge tundra, and low-centre polygonal tundra, at two different latitudes on the Taimyr Peninsular, central Siberia. Measurements were carried out by means of a multi-channel gas exchange system operating in continuous-flow mode.Measured soil respiration rates ranged from 0.1 g CO₂-C m^?2 d^?1 to 3.9 g CO₂-C m^?2 d^?1 and rate differences between neighbouring sites in the micro-topography (microsites) were larger than those observed between different tundra systems. Statistical analysis identified position of the water table and soil temperature at shallow depths to be common controls of soil respiration rates across all microsites, with each of these two factors explaining high proportions of the observed variations.Modelling of the response of soil respiration to soil temperature and water table for individual microsites revealed systematic differences in the response to the controlling factors between wet and drier microsites. Wet microsites – with a water table position close to the soil surface during most of the summer – showed large soil respiration rate changes with fluctuations of the water table compared to drier microsites. Wet microsites also showed consistently higher temperature sensitivity and a steeper increase of temperature sensitivity with decreasing temperatures than drier sites. Overall, Q₁₀ values ranged from 1.2 to 3.4. The concept of substrate availability for determining temperature sensitivity is applied to reconcile these systematic differences. The results highlight that soil respiration rates in wet tundra are foremost controlled by water table and only secondarily by soil temperature. Wet sites have a larger potential for changes in soil respiration rates under changing environmental conditions, compared to drier sites.It is concluded that understanding and forecasting gaseous carbon losses from arctic tundra soils and its implication for ecosystem-scale CO₂ fluxes and soil organic matter dynamics require good knowledge about temporal and spatial patterns of soil water conditions. The water status of tundra soils can serve as a control on the temperature sensitivity of soil respiration.     

Nitrogen mineralization in the ruderal sub-alpine communities in Mount Uludağ, Turkey

Nitrogen mineralization and nitrification in the soil of sub-alpine ruderal community of Mount Uludağ, Bursa, Turkey was measured for 1 year, under field conditions with Verbascum olympicum and Rumex olympicus being the dominant pioneer species under dry and wet sites, respectively. Seasonal fluctuations were observed in N mineralization and nitrification. The net N mineralization and nitrification were high in early summer and winter, due to high moisture. The annual net N mineralization rate (for the 0–15 cm soil layer) was higher under R. olympicus (188 kg N ha⁻¹ yr⁻¹) than under V. olympicum (96 kg N ha⁻¹ yr⁻¹). A significant positive correlation between net N mineralization and soil organic C (r² = 0.166), total N (r² = 0.141) and water content (r² = 0.211) was found. Our results indicate that N mineralization rate is high in soils of ruderal communities on disturbed sites and varies with dominant species and, a difference in net N mineralization rate can be attributed to organic C, total N and moisture content of soils.     

Recovery of soil organic matter,organic matter turnover and nitrogen cycling in a post-mining forest rehabilitation chronosequence

Recovery of soil organic matter, organic matter turnover and mineral nutrient cycling is critical to the success of rehabilitation schemes following major ecosystem disturbance. We investigated successional changes in soil nutrient contents, microbial biomass and activity, C utilisation efficiency and N cycling dynamics in a chronosequence of seven ages (between 0 and 26 years old) of jarrah (Eucalyptus marginata) forest rehabilitation that had been previously mined for bauxite. Recovery was assessed by comparison of rehabilitation soils to non-mined jarrah forest references sites. Mining operations resulted in significant losses of soil total C and N, microbial biomass C and microbial quotients. Organic matter quantity recovered within the rehabilitation chronosequence soils to a level comparable to that of non-mined forest soil. Recovery of soil N was faster than soil C and recovery of microbial and soluble organic C and N fractions was faster than total soil C and N. The recovery of soil organic matter and changes to soil pH displayed distinct spatial heterogeneity due to the surface micro-topography (mounds and furrows) created by contour ripping of rehabilitation sites. Decreases in the metabolic quotient with rehabilitation age conformed to conceptual models of ecosystem energetics during succession but may have been more indicative of decreasing C availability than increased metabolic efficiency. Net ammonification and nitrification rates suggested that the low organic C environment in mound soils may favour autotrophic nitrifier populations, but the production of nitrate (NO₃^?) was limited by the low gross N ammonification rates (≤1 μg N g^?1 d^?1). Gross N transformation rates in furrow soils suggested that the capacity to immobilise N was closely coupled to the capacity to mineralise N, suggesting NO₃^? accumulation in situ is unlikely. The C:N ratio of the older rehabilitation soils was significantly lower than that of the non-mined forest soils. However, variation in ammonification rates was best explained by C and N quantity rather than C:N ratios of whole soil or soluble organic matter fractions. We conclude that the rehabilitated ecosystems are developing a conservative N cycle as displayed by non-mined jarrah forests. However, further investigation into the control of nitrification dynamics, particularly in the event of further ecosystem disturbance, is warranted.     

What are the limits of the drilosphere? An incubation experiment using Metaphire posthuma

The near infrared reflectance spectroscopy (NIRS) method was used in the present study to compare earthworm-made soil aggregates to aggregates found in the surrounding bulk soil. After initially assessing the daily cast production of Metaphire posthuma, boxes with soil incubated with M. posthuma and control soils were subjected to wetting in order to reorganize the soil structure. After two months of incubation, soil aggregates produced by earthworms (casts and burrows), soil aggregates that were appeared to be unaffected by earthworms (bulk soil without visible trace of earthworm bioturbation from the earthworm treatment) and soil aggregates that were entirely unaffected by earthworms (control – no earthworm – treatment) were sampled and their chemical signatures analyzed by NIRS. The production of below-ground and surface casts reached 14.9 g soil g worm^?1 d^?1 and 1.4 g soil g worm^?1 d^?1, respectively. Soil aggregates from the control soils had a significantly different NIRS signature from those sampled from boxes with earthworms. However, within the earthworm incubation boxes the NIRS signature was similar between cast and burrow aggregates and soil aggregates from the surrounding bulk soil. We conclude that the high cast production by M. posthuma and the regular reorganization of the soil structure by water flow in and through the soil lead to a relatively homogenous soil structure. Given these results, we question the relevance of considering the bulk soil that has no visible activity of earthworm activity as a control to determine the effect of earthworms on soil functioning.     

Formation and use of microbial residues after adding sugarcane sucrose to a heated soil devoid of soil organic matter

A 67-day incubation experiment was carried out with a soil initially devoid of any organic matter due to heating, which was amended with sugarcane sucrose (C₄-sucrose with a δ¹³C value of ?10.5‰), inorganic N and an inoculum for recolonisation and subsequently at day 33 with C₃-cellulose (δ¹³C value of ?23.4‰). In this soil, all organic matter is in the microbial biomass or in freshly formed residues, which makes it possible to analyse more clearly the role of microbial residues for decomposition of N-poor substrates. The average δ¹³C value over the whole incubation period was ?10.7‰ in soil total C in the treatments without C₃-cellulose addition. In the CO₂ evolved, the δ¹³C values decreased from ?13.4‰ to ?15.4‰ during incubation. In the microbial biomass, the δ¹³C values increased from ?11.5‰ to ?10.1‰ at days 33 and 38. At day 67, 36% of the C₄-sucrose was left in the treatment without a second amendment. The addition of C₃-cellulose resulted in a further 7% decrease, but 4% of the C₃-cellulose was lost during the second incubation period. Total microbial biomass C declined from 200 μg g^?1 soil at day 5 to 70 μg g^?1 soil at day 67. Fungal ergosterol increased to 1.5 μg g^?1 soil at day 12 and declined more or less linearly to 0.4 μg g^?1 soil at day 67. Bacterial muramic acid declined from a maximum of 35 μg g^?1 soil at day 5 to a constant level of around 16 μg g^?1 soil. Glucosamine showed a peak value at day 12. Galactosamine remained constant throughout the incubation. The fungal C/bacterial C ratio increased more or less linearly from 0.38 at day 5 to 1.1 at day 67 indicating a shift in the microbial community from bacteria to fungi during the incubation. The addition of C₃-cellulose led to a small increase in C₃-derived microbial biomass C, but to a strong increase in C₄-derived microbial biomass C. At days 45 and 67, the addition of N-free C₃-cellulose significantly decreased the C/N ratio of the microbial residues, suggesting that this fraction did not serve as an N-source, but as an energy source.     

Emission of nitrous oxide from hydrocarbon contaminated soil amended with waste water sludge and earthworms

Soils in Mexico are often contaminated with hydrocarbons and addition of waste water sludge and earthworms accelerates their removal. However, little is known how contamination and subsequent bioremediation affects emissions of N₂O and CO₂. A laboratory study was done to investigate the effect of waste water sludge and the earthworm Eisenia fetida on emission of N₂O and CO₂ in a sandy loam soil contaminated with the polycyclic aromatic hydrocarbons (PAHs): phenanthrene, anthracene and benzo(a)pyrene. Emissions of N₂O and CO₂, and concentrations of inorganic N (ammonium (NH₄⁺), nitrite (NO₂^?) nitrate (NO₃^?)) were monitored after 0, 5, 24, 72 and 168 h. Adding E. fetida to the PAHs contaminated soil increased CO₂ production rate significantly 2.0 times independent of the addition of sludge. The N₂O emission rate from unamended soil expressed on a daily base was 5 μg N kg^?1 d^?1 for the first 2 h and increased to a maximum of 325 μg N kg^?1 d^?1 after 48 h and then decreased to 10 μg N kg^?1 d^?1 after 168 h. Addition of PAHs, E. fetida or PAHs + E. fetida had no significant effect on the N₂O emission rate. Adding sludge to the soil sharply increased the N₂O emission rate to >400 μg N kg^?1 d^?1 for the entire incubation with a maximum of 1134 μg N kg^?1 d^?1 after 48 h. Addition of E. fetida, PAHs or PAHs + E. fetida to the sludge-amended soil reduced the N₂O emission rate significantly compared to soil amended with sludge after 24 h. It was found that contaminating soil with PAHs and adding earthworms had no effect on emissions of N₂O. Emission of N₂O, however, increased in sludge-amended soil, but addition of earthworms to this soil and contamination reduced it.     

The temperature dependence of dicyandiamide (DCD) degradation in soils: A data synthesis

Dicyandiamide (DCD, C₂H₄N₄) is a nitrification inhibitor that has been studied for more than 80 years. However, there are few papers that have examined the use of DCD on dairy farms where cattle graze pasture and where urine is the primary form of nitrogen (N) deposited onto soils. After DCD was applied (10 kg DCD ha^?1) with bovine urine (700–1200 kg N ha^?1) to five soils throughout New Zealand, the reduction in direct nitrous oxide (N₂O) emissions was significant and remarkably consistent (71 ± 8%, average ± standard error). The application of DCD to these soils occurred in autumn and winter; daily average soil temperature (T) was reported but these data were not further analysed. Perusal of the literature suggested no consensus on the temperature dependence of DCD degradation in soils. Based on published data from controlled-environment studies of soils sampled in four countries, we quantified the relation between T and the time for DCD concentration in soils to decline to half its application value (t_½) as t_½ (T) = 168e^?0.084T with parameter standard errors of ±16 d and ±0.011 d^?1, respectively (n = 16). For example, at 5 °C a 1 °C increase in T reduced t_½ from 110 to 101 d whereas at 25 °C the reduction was 20–19 d. Analysing T data from the New Zealand trials using our t_½ (T) function, over 43–89 d when direct N₂O emissions from treated plots became indistinguishable from the controls, the estimated percentage of applied DCD remaining in the soil averaged 43 ± 10%. These calculations suggested the apparently remaining DCD was ineffective with respect to direct N₂O emissions. In the absence of measurements, explanations for this interpretation included vertical displacement of the DCD and sorption onto organic matter in soils. The consistent DCD efficacy from these trials corresponded with T generally <10 °C, so it is suggested as an application criteria for the reduction of direct N₂O emissions from pastoral soils subjected to urine excretion by grazing cattle.     

Detection and quantification of the nematophagous fungus Hirsutella minnesotensis in soil with real-time PCR

A real-time PCR assay was developed to quantify in soil the fungus Hirsutella minnesotensis, an important parasite of secondary-stage juvenile (J2) of the soybean cyst nematode. A primer pair 5′-GGGAGGCCCGGTGGA-3′ and 5′-TGATCCGAGGTCAACTTCTGAA-3′ and a TaqMan probe 5′-CGTCCGCCGTAAAACGCCCAAC-3′ were designed based on the sequence of the ITS region of the rRNA gene. The primers were highly species-specific. The PCR reaction system was very sensitive and able to detect as few as 4 conidia g^?1 soil. Regression analysis showed similar slopes and efficiency on DNA from pure culture (y = ?3.587x + 41.017, R² = 0.9971, E = 0.9055) and from Log conidia g^?1 soil (y = ?3.855x + 37.669, R² = 0.9139, E = 0.8172), indicating that the real-time PCR protocol can reliably quantify H. minnesotensis in the soil. The real-time PCR assay was applied to 20 soil samples from soybean fields, and compared with a parasitism assay. The real-time PCR assay detected H. minnesotensis in six of the soils, whereas the parasitism assay detected H. minnesotensis in the same six soils and three additional soils. The real-time PCR assay was weakly correlated (R² = 0.49) with the percentage of parasitized J2 in the six soils, indicating that different types of soil may interfere the efficiency of the real-time PCR assay, possibly due to the effect of soil types on efficacy of DNA extraction. The parasitism assay appeared to be more sensitive than real-time PCR in detecting presence of H. minnesotensis, but real-time PCR was much faster and less costly and provided a direct assessment of fungal biomass. Using the two assays in combination can obtain more complete information about the fungus in soil than either assay alone. Hirsutella parasitism was widespread and detected in 13 of the 20 field soils, indicating that these fungi may contribute to suppressiveness of soybean cyst nematode in nature and likely have high biological control potential for the nematode.     

Influence of drip and furrow irrigation systems on nitrogen oxide emissions from a horticultural crop

Irrigation management has an important influence on emissions of nitrous oxide (N₂O) and nitric oxide (NO) from irrigated agricultural soils. In order to develop strategies to reduce the emission of these gases, a field experiment was carried out to compare the influence of different irrigation systems: furrow (FI) and drip-irrigation (DI), on N₂O and NO emissions from a soil during the melon crop season. Two fertilizer treatments were evaluated for each irrigation regime: ammonium sulphate (AS) as a mineral N fertilizer, at a rate of 175 kg N ha^?1; and a control without any N fertilizer (Control). On plots where the AS treatment was applied, drip irrigation reduced total N₂O and NO emissions (by 70% and 33% respectively) with respect to values for furrow irrigation. This was probably due to the lower amount of water applied and the different soil wetting pattern associated with DI. Dry areas of the drip-irrigated plots emitted a similar amount of N₂O to the wet areas (0.45 kg N₂O-N ha^?1) in the Control and greater quantities in the AS treatment (0.92 kg N₂O-N ha^?1 for dry and 0.70 kg N₂O-N ha^?1 for wet areas). We suggest that the N oxide pulses observed throughout the irrigation period on DI plots could have been the result of frequent increases in the soil wetting volume after the addition of water. Denitrification losses (from depths of 0–10 cm) were estimated at 11.44 kg N₂O- N ha^?1 for the AS treatment under FI and at 4.96 kg N₂O-N ha^?1 for DI. Under DI, nitrification was an important source of N₂O, whereas denitrification was the most important source under FI. The addition of NH₄⁺ and the use of DI enhanced the N₂O/N₂ ratio of gases produced through denitrification. The quantity of dissolved organic C (DOC) in the soil generally decreased with addition of NH₄⁺.This work showed that, in comparison with furrow irrigation, drip irrigation is a method that can be used to save water and mitigate emissions of the atmospheric pollutants NO and N₂O.     

Accumulation of As,Pb, Zn,Cd and Cu and arbuscular mycorrhizal status in populations of Cynodon dactylon grown on metal-contaminated soils

Metal(loid) accumulation and arbuscular mycorrhizal (AM) status of the dominant plant species, Cynodon dactylon, growing at four multi-metal(loid)s-contaminated sites and an uncontaminated site of China were investigated. Up to 94.7 As mg kg^?1, 417 Pb mg kg^?1, 498 Zn mg kg^?1, 5.8 Cd mg kg^?1 and 27.7 Cu mg kg^?1 in shoots of C. dactylon were recorded. The plant was colonized consistently by AM fungi (33.0–65.5%) at both uncontaminated site and metal-contaminated sites. Based on morphological characteristics, fourteen species of AM fungi were identified in the rhizosphere of C. dactylon, with one belonging to the genus of Acaulospora and the other thirteen belonging to the genus of Glomus. Glomus etunicatum was the most common species associated with C. dactylon growing at metal-contaminated sites. Spore abundance in the rhizosphere of C. dactylon growing at the metal-contaminated soils (22–82 spores per 25 g soil) was significantly lower than that of the uncontaminated soils (371 spores per 25 g soil). However, AM fungal species diversity in the metal-contaminated soils was significantly higher than that in the uncontaminated soils. This is the first report of AM status in the rhizosphere of C. dactylon, the dominant plant survival in metal-contaminated soils. The investigation also suggests that phytorestoration of metal-contaminated sites might be facilitated using the appropriate plant with the aid of tolerant AM fungi.     

Production of carbon dioxide and nitrous oxide in alkaline saline soil of Texcoco at different water contents amended with urea: A laboratory study

Soil of the former lake Texcoco is alkaline saline with pH often >10 and electrolytic conductivity (EC) >70 dS m^?1 with rapidly changing water contents. Little is known how fertilizing this area with urea to vegetate the soil would affect emissions of carbon dioxide (CO₂) and dynamics of N. Texcoco soil with electrolytic conductivity (EC) 2.3 dS m^?1 and pH 8.5 (TEXCOCO A soil), EC 2.0 dS m^?1 and pH 9.0 (TEXCOCO B soil) and 200 dS m^?1 and pH 11.2 (TEXCOCO C soil) was amended with or without urea and incubated at 40% of water holding capacity (WHC), 60% WHC, 80% WHC and 100% WHC, while emissions of nitrous oxide (N₂O) and CO₂ and dynamics of ammonium (NH₄⁺), nitrite (NO₂^?) and nitrate (NO₃^?) were monitored for 7 days. An agricultural soil served as control (ACOLMAN soil). The emission of CO₂ increased in the urea amended soil 1.5 times compared to the unamended soil, it was inhibited in TEXCOCO C soil and was >1.2 larger in soil incubated at 40%, 60% and 80% WHC compared to soil incubated at 100% WHC. The emission of N₂O increased in soil added with urea compared to the unamended soil, was similar in TEXCOCO A and B soils, but was <0.2 mg N kg^?1 soil day^?1 in TEXCOCO C soil and generally larger in soil incubated at 60% and 80% WHC compared to soil incubated at 40% and 100% WHC. The water content of the soil had no significant effect on the mean concentration of NH₄⁺, but addition of urea increased it in all soils. The concentration of NO₂^? was not affected by the water content and the addition of urea except in TEXCOCO A soil where it increased to values ranging between 20 and 40 mg N kg^?1. The concentration of NO₃^? increased in the ACOLMAN, TEXCOCO A and TEXCOCO B soil amended with urea compared to the unamended soil, but not in the TEXCOCO C soil. It decreased with increased water content, but not in TEXCOCO C soil. It was found that the differences in soil characteristics, i.e. soil organic matter content, pH and EC between the soils had a profound effect on soil processes, but even small changes affected the dynamics of C and N in soil amended with urea.     

Depth-specific distribution and importance of nitrite-dependent anaerobic ammonium and methane-oxidising bacteria in an urban wetland

Anaerobic ammonium oxidation (anammox) and nitrite-dependent anaerobic methane oxidation (n-damo) are two recently discovered processes in the nitrogen cycle that are catalysed by anammox bacteria and n-damo bacteria, respectively. Here, the depth-specific distribution and importance of anammox bacteria and n-damo bacteria were studied in an urban wetland, Xixi Wetland, Zhejiang Province (China). Anammox bacteria related to Candidatus Brocadia, Candidatus Kuenenia and Candidatus Anammoxoglobus, and n-damo bacteria related to “Candidatus Methylomirabilis oxyfera” were present in the collected soil samples. The abundance of anammox bacteria (2.6–8.6 × 10⁶ copies g⁻¹ dry soil) in the shallow soils (0–10 cm and 20–30 cm) was higher than that (2.5–9.8 × 10⁵ copies g⁻¹ dry soil) in the deep soils, whereas the abundance of n-damo bacteria (0.6–1.3 × 10⁷ copies g⁻¹ dry soil) in the deep soils (50–60 cm and 90–100 cm) was higher than that (3.4–4.5 × 10⁶ copies g⁻¹ dry soil) in the shallow soils. Anammox activity was detected at all depths, and higher potential rates (12.1–21.4 nmol N₂ g⁻¹ dry soil d⁻¹) were observed at depths of 0–10 cm and 20–30 cm compared with the rates (3.5–8.7 nmol N₂ g⁻¹ dry soil d⁻¹) measured at depths of 50–60 and 90–100 cm. In contrast, n-damo was mainly occurred at depths of 50–60 cm and 90–100 cm with potential rates of 0.7–5.0 nmol CO₂ g⁻¹ dry soil d⁻¹. This study suggested the niche segregation of the anammox bacteria and n-damo bacteria in wetland soils, with anammox bacteria being active primarily in deep soils and n-damo bacteria being active primarily in shallow soils.     

N2O emissions from humid tropical agricultural soils: effects of soil moisture,texture and nitrogen availability

We studied soil moisture dynamics and nitrous oxide (N₂O) fluxes from agricultural soils in the humid tropics of Costa Rica. Using a split-plot design on two soils (clay, loam) we compared two crop types (annual, perennial) each unfertilized and fertilized. Both soils are of andic origin. Their properties include relatively low bulk density and high organic matter content, water retention capacity, and hydraulic conductivity. The top 2–3 cm of the soils consists of distinct small aggregates (dia. <0.5 cm). We measured a strong gradient of bulk density and moisture within the top 7 cm of the clay soil. Using automated sampling and analysis systems we measured N₂O emissions at 4.6 h intervals, meteorological variables, soil moisture, and temperature at 0.5 h intervals. Mean daily soil moisture content at 5 cm depth ranged from 46% water filled pore space (WFPS) on clay in April 1995 to near saturation on loam during a wet period in February 1996. On both soils the aggregated surface layer always remained unsaturated. Soils emitted N₂O throughout the year. Mean N₂O fluxes were 1.04±0.72 ng N₂O-N cm⁻² h⁻¹ (mean±standard deviation) from unfertilized loam under annual crops compared to 3.54±4.31 ng N₂O-N cm⁻² h⁻¹ from the fertilized plot (351 days measurement). Fertilization dominated the temporal variation of N₂O emissions. Generally fluxes peaked shortly after fertilization and were increased for up to 6 weeks (‘post fertilization flux’). Emissions continued at a lower rate (‘background flux’) after fertilization effects faded. Mean post-fertilization fluxes were 6.3±6.5 ng N₂O-N cm⁻² h⁻¹ while the background flux rate was 2.2±1.8 ng N₂O-N cm⁻² h⁻¹. Soil moisture dynamics affected N₂O emissions. Post fertilization fluxes were highest from wet soils; fluxes from relatively dry soils increased only after rain events. N₂O emissions were weakly affected by soil moisture during phases of low N availability. Statistical modeling confirmed N availability and soil moisture as the major controls on N₂O flux. Our data suggest that small-scale differences in soil structure and moisture content cause very different biogeochemical environments within the top 7 cm of soils, which is important for net N₂O fluxes from soils.     

Enzyme activities and diuron persistence in soil amended with vermicompost derived from spent grape marc and treated with urea

Mineral fertilizers, organic amendments, and pesticides are inputs commonly used in conventional farming practices. The aim of this study was to evaluate the effects of single or combined applications of spent grape marc-vermicompost, urea, and/or diuron on soil-enzyme activities and the persistence of this herbicide in soils with low organic carbon content. The application of vermicompost enhanced dehydrogenase (DHase) enzyme activity over time but altered soil urease activity to a very limited extent. The reduction in diuron concentrations and the increase in DHase activity indicated that the soil microorganisms were capable of degrading the ureic herbicide. Treatment with vermicompost and diuron had a stimulatory effect on soil microbial activity. On the whole, the application of diuron and urea to the vermicompost-amended soil raised DHase and urease activity to maximum levels (>3 μg INTF g^?1 h^?1 and >47 μg NH₄⁺ g^?1 h^?1, respectively). The application of urea to the unamended and vermicompost-amended soil decreased diuron persistence from 18.8 and 33 d to 12.5 and 15 d, respectively. Our findings show that although vermicompost additions reduce diuron availability, this boosts diuron degradation when combined with urea. These additions, under different soil management conditions, minimize the bioavailability and persistence of diuron and consequently the risk of leaching and seepage into aquifers. Compared with untreated soils, these types of treated soils could also improve agricultural sustainability and the quality of the environment.     

The fate and toxicity of the flavonoids naringenin and formononetin in soil

The flavonoid class of plant secondary metabolites play a multifunctional role in below-ground plant–microbe interactions with their best known function as signals in the nitrogen fixing legume–rhizobia symbiosis. Flavonoids enter rhizosphere soil as a result of root exudation and senescence but little is known about their subsequent fate or impacts on microbial activity. Therefore, the present study examined the sorptive behaviour, biodegradation and impact on dehydrogenase activity (as determined by iodonitrotetrazolium chloride reduction) of the flavonoids naringenin and formononetin in soil. Organic carbon normalised partition coefficients, log K_oc, of 3.12 (formononetin) and 3.19 (naringenin) were estimated from sorption isotherms and, after comparison with literature log K_oc values for compounds whose soil behaviour is better characterised, the test flavonoids were deemed to be moderately sorbed. Naringenin (spiked at 50 μg g^?1) was biodegraded without a detectable lag phase with concentrations reduced to 0.13±0.01 μg g^?1 at the end of the 96 h time course. Biodegradation of formononetin proceeded after a lag phase of ～24 h with concentrations reduced to 4.5±1% of the sterile control after 72 h. Most probable number (MPN) analysis revealed that prior to the addition of flavonoids, the soil contained 5.4×10⁶ MPN g^?1 (naringenin) and 7.9×10⁵ MPN g^?1 (formononetin) catabolic microbes. Formononetin concentration had no significant (p>0.05) effect on soil dehydrogenase activity, whereas naringenin concentration had an overall but non-systematic impact (p=0.045). These results are discussed with reference to likely total and bioavailable concentrations of flavonoids experienced by microbes in the rhizosphere.