Arbuscular mycorrhizas increased tomato biomass and nutrition but did not affect local soil P availability or 16S bacterial community in the field.

While interest in arbuscular mycorrhizal (AM) fungal effects on soil phosphorus (P) have recently increased, field experiments on this topic are lacking. While microcosm studies provided valuable insights, the lack of field studies represents a knowledge gap. Here, we present a field study in which we grew a mycorrhiza-defective tomato (Solanum lycopersicum L.) genotype (named rmc) and its mycorrhizal wild-type progenitor (named 76R) with and without additional fertiliser, using a drip-irrigation system to examine the impacts of the AM symbiosis on soil P availability and plant growth and nutrition. AM effects on fruit biomass and nutrients, soil nutrient availability, soil moisture and the soil bacterial community were examined. At the time of harvest, the AM tomato plants without fertiliser had the same early season fruit biomass and fruit nutrient concentrations as plants that received fertiliser. The presence of roots reduced the concentration of available soil P, ammonium and soil moisture in the top 10 cm soil layer. Arbuscular mycorrhizas did not significantly affect soil P availability, soil moisture, or 16S bacterial community composition. These findings suggest an indirect role for AM fungi in tomato production but not necessarily a direct role in determining soil physicochemical traits, during the one season that this experiment was conducted. While longer-term field studies may be required in the future, the present study provides new insights into impacts of AM fungi on P availability and uptake in a field soil system.

Correction to: Constraining the carbonate system in soils via testing the internal consistency of pH, pCO2 and alkalinity measurements.

The original version of this article unfortunately contained a mistake. The presentation of Fig. 4 was incorrect. That is, in Fig. 4, the bottom graph in the figure should be removed.

Effect of land use on organic matter composition in density fractions of contrasting soils: A comparative study using 13C NMR and DRIFT spectroscopy.

13C CP-MAS nuclear magnetic resonance (NMR) and diffuse reflectance infrared Fourier transform (DRIFT) spectroscopies were compared for evaluating their potential to characterise the influence of land use change on organic carbon (OC) chemistry of particulate organic matter (POM) and mineral associated OM (MOM) fractions of different soil types. Surface soil samples of Ferralsol, Luvisol, Vertisol and Solonetz were collected from native and crop lands and isolated into different density fractions. NMR and DRIFT showed distinct OC composition for all the soil fractions of two land uses. In NMR spectra, greater proportion of carbohydrate and aromatic C was observed in POM, while MOM fractions were rich in carbohydrate, amino groups and aliphatic C. DRIFT spectra showed greater carboxylic, aromatic C and amide N in MOM than corresponding POM. NMR spectroscopy detected charred aromatic C in both fractions, which was not feasible with DRIFT. The overall effect of land use in both techniques appeared similar on the composition of POM- OC, i.e., increased aromaticity and decreased alkyl C:O-alkyl C ratio. However, differences of land use impact were observed in MOM-OC, e.g., overall decreased aromaticity and increased alkyl C:O-alkyl C for all soils in NMR, and in DRIFT, it varied with soil type (aromaticity: Ferralsol, Vertisol > Luvisol, Solonetz). However, these trends were inconsistent and indistinct among fractions of four soils. Discrepancy in NMR and DRIFT results was ascribed to the sensitivity limitations of the two techniques in characterising soil OM in mineral rich fractions, and sample pre-treatment effect in NMR. We conclude that combination of NMR and DRIFT spectroscopy, preferably supplemented by other techniques e.g., mass spectroscopy and XPS, would improve the proficiency in elucidating small changes in soil OM composition with land use conversion.

Constraining the carbonate system in soils via testing the internal consistency of pH, pCO2 and alkalinity measurements.

Inorganic carbon exists in various dissolved, gaseous and solid phase forms in natural waters and soils. It is important to accurately measure and model these forms to understand system responses to global climate change. The carbonate system can, in theory, be fully constrained and modelled by measuring at least two of out of the following four parameters: partial pressure (pCO2), total alkalinity (TA), pH and dissolved inorganic carbon (DIC) but this has not been demonstrated in soils. In this study, this "internal consistency" of the soil carbonate system was examined by predicting pH of soil extracts from laboratory measurement of TA through alkalinity titration for solutions in which pCO2 was fixed through equilibrating the soil solution with air with a known pCO2. This predicted pH (pHCO2) was compared with pH measured on the same soil extracts using spectrophotometric and glass electrode methods (pHspec and pHelec). Discrepancy between measured and calculated pH was within 0.00-0.1 pH unit for most samples. However, more deviation was observed for those sample with low alkalinity (≤ 0.5 meq L-1). This is likely attributable to an effect of dissolved organic matter, which can contribute alkalinity not considered in the thermodynamic carbonate model calculations; further research is required to resolve this problem. The effects of increasing soil pCO2 was modelled to illustrate how internally consistent models can be used to predict risks of pH declines and carbonate mineral dissolution in some soils.

Effects of plant roots and arbuscular mycorrhizas on soil phosphorus leaching.

While the impact of arbuscular mycorrhizal fungi (AMF) on phosphorus (P) uptake is well understood, the mechanism(s) of how these fungi affect P leaching from soil is still unclear. Here we present results of a study in which we grew a mycorrhiza-defective tomato (Solanum lycopersicum L.) genotype (named rmc) and its mycorrhizal wild-type progenitor (named 76R) in microcosms containing non-sterile soil, to examine the influence of roots and AMF on P leaching. More P was leached from the planted microcosms as compared to the plant-free controls. Further, although there was more plant biomass and greater P uptake in the mycorrhizal plant treatments, these treatments were associated with the most leaching of total P, reactive P, and dissolved organic carbon (DOC). There was a strong correlation between the total P and DOC leached, suggesting that root and fungal exudates may have affected P leaching. These findings provide new insights into the impact of roots and AMF on nutrient leaching in soils.

Soil Microbial Community Responses After Amendment with Thermally Altered Pinus radiata Needles.

Post-fire litter layers are composed of leaves and woody debris that predominantly fall during or soon after the fire event. These layers are distinctly different to pre-fire litters due to their common origin and deposition time. However, heterogeneity can arise from the variable thermal conditions in the canopy during fire. Therefore, in this study, we used thermally altered pine needles (heated to 40 °C, 150 °C, 260 °C and 320 °C for 1 h) in a laboratory incubation study for 43 days. These samples were measured for respiration throughout and extracted for DNA at the experiment's end; soil ribosomal RNA was analysed using Illumina sequencing (16S and internal transcribed spacer amplicons). The addition of pine needles heated to 40 °C or 150 °C caused a substantial shift in community structure, decreased alpha diversity and significantly increased soil respiration relative to the control treatment. In contrast, pine needles heated to 260 °C or 320 °C had little effect on microbial community structure or soil respiration. These results indicate that highly thermally altered needles are not microbially decomposed during the first 43 days of exposure and therefore that biomass temperature may have significant effects on post-fire litter decomposition and carbon flux. This research outlines an important knowledge gap in forest fire responses that may affect post-fire carbon emission estimates.

Variable water cycles have a greater impact on wheat growth and soil nitrogen response than constant watering.

Current climate change models project that water availability will become more erratic in the future. With soil nitrogen (N) supply coupled to water availability, it is important to understand the combined effects of variable water and N supply on food crop plants (above- and below-ground). Here we present a study that precisely controls soil moisture and compares stable soil moisture contents with a controlled wetting-drying cycle. Our aim was to identify how changes in soil moisture and N concentration affect shoot-root biomass, N acquisition in wheat, and soil N cycling. Using a novel gravimetric platform allowing fine-scale control of soil moisture dynamics, a 3 × 3 factorial experiment was conducted on wheat plants subjected to three rates of N application (0, 25 and 75 mg N/kg soil) and three soil moisture regimes (two uniform treatments: 23.5 and 13% gravimetric moisture content (herein referred to as Well-watered and Reduced water, respectively), and a Variable treatment which cycled between the two). Plant biomass, soil N and microbial biomass carbon were measured at three developmental stages: tillering (Harvest 1), flowering (Harvest 2), and early grain milk development (Harvest 3). Reduced water supply encouraged root growth when combined with medium and high N. Plant growth was more responsive to N than the water treatments imposed, with a 15-fold increase in biomass between the high and no added N treatment plants. Both uniform soil water treatments resulted in similar plant biomass, while the Variable water treatment resulted in less biomass overall, suggesting wheat prefers consistency whether at a Well-watered or Reduced water level. Plants did not respond well to variable soil moisture, highlighting the need to understand plant adaptation and biomass allocation with resource limitation. This is particularly relevant to developing irrigation practices, but also in the design of water availability experiments.

Globular structures in roots accumulate phosphorus to extremely high concentrations following phosphorus addition.

Crops with improved uptake of fertilizer phosphorus (P) would reduce P losses and confer environmental benefits. We examined how P-sufficient 6-week-old soil-grown Trifolium subterraneum plants, and 2-week-old seedlings in solution culture, accumulated P in roots after inorganic P (Pi) addition. In contrast to our expectation that vacuoles would accumulate excess P, after 7 days, X-ray microanalysis showed that vacuolar [P] remained low (<12 mmol kg-1 ). However, in the plants after P addition, some cortex cells contained globular structures extraordinarily rich in P (often >3,000 mmol kg-1 ), potassium, magnesium, and sodium. Similar structures were evident in seedlings, both before and after P addition, with their [P] increasing threefold after P addition. Nuclear magnetic resonance (NMR) spectroscopy showed seedling roots accumulated Pi following P addition, and transmission electron microscopy (TEM) revealed large plastids. For seedlings, we demonstrated that roots differentially expressed genes after P addition using RNAseq mapped to the T. subterraneum reference genome assembly and transcriptome profiles. Among the most up-regulated genes after 4 hr was TSub_g9430.t1, which is similar to plastid envelope Pi transporters (PHT4;1, PHT4;4): expression of vacuolar Pi-transporter homologs did not change. We suggest that subcellular P accumulation in globular structures, which may include plastids, aids cytosolic Pi homeostasis under high-P availability.

Fire-derived organic matter retains ammonia through covalent bond formation.

Fire-derived organic matter, often referred to as pyrogenic organic matter (PyOM), is present in the Earth's soil, sediment, atmosphere, and water. We investigated interactions of PyOM with ammonia (NH3) gas, which makes up much of the Earth's reactive nitrogen (N) pool. Here we show that PyOM's NH3 retention capacity under ambient conditions can exceed 180 mg N g-1 PyOM-carbon, resulting in a material with a higher N content than any unprocessed plant material and most animal manures. As PyOM is weathered, NH3 retention increases sixfold, with more than half of the N retained through chemisorption rather than physisorption. Near-edge X-ray absorption fine structure and nuclear magnetic resonance spectroscopy reveal that a variety of covalent bonds form between NH3-N and PyOM, more than 10% of which contained heterocyclic structures. We estimate that through these mechanisms soil PyOM stocks could retain more than 600-fold annual NH3 emissions from agriculture, exerting an important control on global N cycling.

The application of a spectrophotometric method to determine pH in acidic (pH<5) soils.

pH is a "master variable" controlling many biogeochemical processes in soils. Acid sulfate soils undergo rapid and large pH changes from circumneutral pH under anaerobic soil conditions to sulfuric soils with ultra (pH < 3.5) and extremely (pH 3.5-4.4) acidic properties following oxidation. Measuring soil pH using a glass electrode has several potential drawbacks including liquid junction errors, drift, suspension effects and clogging. Spectrophotometric pH measurement, involving addition of an indicator dye to the sample, is widely used in seawater and has recently been developed for soil extracts at circumneutral pH ranges. The aim of this study was to extend the spectrophotometric method for application in ultra and extremely acidic soils. The acid dissociation constant (pKa = 5.02) and molar absorptivities of the indicator dye bromocresol green were determined and shown to enable spectrophotometric pH measurement between pH 3 - 5.3. To demonstrate the performance and application of the method, pH and metal availability (Fe, Al, Zn) were measured during the incubation of two acid sulfate soils, which both classified as hypersulfidic soils (pH > 4) and transformed to sulfuric soils (pH < 4) after incubation for 12 weeks. The method compared well (r2 > 0.99) to glass electrode measurements under acidic conditions with high metal availability. The method has potential to improve understanding of biogeochemical processes in ultra and extremely acidic soils.

Seasonal variation in the nature of DOM in a river and drinking water reservoir of a closed catchment.

Dissolved organic matter (DOM) in surface waters used for drinking purposes can vary markedly in character depending on its source within catchments and the timing and intensity of rainfall events. Here we report the findings of a study on the character and concentration of DOM in waters collected during different seasons from Myponga River and Reservoir, South Australia. The character of DOM was assessed in terms of its treatability by enhanced coagulation and potential for disinfection by-product i.e. trihalomethane (THM) formation. During the wet seasons (winter and spring), water samples from the river had higher DOC concentrations (X¯: 21 mg/L) and DOM of higher average molecular weight (AMW: 1526 Da) than waters collected during the dry seasons (summer and autumn: DOC: 13 mg/L; AMW: 1385 Da). Even though these features led to an increase in the percentage removal of organics by coagulation with alum (64% for wet compared with 53% for dry season samples) and a lower alum dose rate (10 versus 15 mg alum/mg DOC removal), there was a higher THM formation potential (THMFP) from wet season waters (treated waters: 217 µg/L vs 172 µg/L). For reservoir waters, samples collected during the wet seasons had an average DOC concentration (X¯: 15 mg/L), percentage removal of organics by alum (54%), alum dose rates (13 mg/mg DOC) and THMFP (treated waters: 207 µg/L) that were similar to samples collected during the dry seasons (mean DOC: 15 mg/L; removal of organics: 52%; alum dose rate: 13 mg/mg DOC; THMFP: 212 µg/L for treated waters). These results show that DOM present in river waters and treatability by alum are highly impacted by seasonal environmental variations. However these in reservoir waters exhibit less seasonal variability. Storage of large volumes of water in the reservoir enables mixing of influent waters and stabilization of water quality.

Characterization of dissolved organic matter for prediction of trihalomethane formation potential in surface and sub-surface waters.

Dissolved organic matter (DOM) in surface waters used for drinking purposes can vary markedly in character dependent on their sources within catchments. The character of DOM further influences the formation of disinfection by products when precursor DOM present in drinking water reacts with chlorine during disinfection. Here we report the development of models that describe the formation potential of trihalomethanes (THMFP) dependent on the character of DOM in waters from discrete catchments with specific land-use and soil textures. DOM was characterized based on UV absorbance at 254 nm, apparent molecular weight and relative abundances of protein-like and humic-like compounds. DOM character and Br concentration (up to 0.5 mg/L) were used as variables in models (R(2)>0.93) of THMFP, which ranged from 19 to 649 µg/L. Chloroform concentration (12-594 µg/L) and relative abundance (27-99%) were first modeled (R(2)>0.85) and from these, the abundances of bromodichloromethane and chlorodibromomethane estimated using power and exponential functions, respectively (R(2)>0.98). From these, the abundance of bromoform is calculated. The proposed model may be used in risk assessment of catchment factors on formation of trihalomethanes in drinking water, in context of treatment efficiency for removal of organic matter.

Complex Forms of Soil Organic Phosphorus-A Major Component of Soil Phosphorus.

Phosphorus (P) is an essential element for life, an innate constituent of soil organic matter, and a major anthropogenic input to terrestrial ecosystems. The supply of P to living organisms is strongly dependent on the dynamics of soil organic P. However, fluxes of P through soil organic matter remain unclear because only a minority (typically <30%) of soil organic P has been identified as recognizable biomolecules of low molecular weight (e.g., inositol hexakisphosphates). Here, we use (31)P nuclear magnetic resonance spectroscopy to determine the speciation of organic P in soil extracts fractionated into two molecular weight ranges. Speciation of organic P in the high molecular weight fraction (>10 kDa) was markedly different to that of the low molecular weight fraction (<10 kDa). The former was dominated by a broad peak, which is consistent with P bound by phosphomonoester linkages of supra-/macro-molecular structures, whereas the latter contained all of the sharp peaks that were present in unfractionated extracts, along with some broad signal. Overall, phosphomonoesters in supra-/macro-molecular structures were found to account for the majority (61% to 73%) of soil organic P across the five diverse soils. These soil phosphomonoesters will need to be integrated within current models of the inorganic-organic P cycle of soil-plant terrestrial ecosystems.

Quantitative analysis of ³¹P NMR spectra of soil extracts--dealing with overlap of broad and sharp signals.

Solution (31)P NMR analysis following extraction with a mixture of sodium hydroxide and ethylenediaminetetraacetic acid is the most widely used method for detailed characterization of soil organic P. However, quantitative analysis of the (31)P NMR spectra is complicated by severe spectral overlap in the monoester region. Various deconvolution procedures have been developed for the task, yet none of these are widely accepted or implemented. In this mini-review, we first describe and compare these varying approaches. We then review approaches to similar issues of spectral overlap in biomedical science applications including NMR-based metabolic profiling and analyzing (31)P magnetic resonance spectra of ex vivo and in vivo intact tissues. The greater maturity and resourcing of this biomedical research means that a wider variety of approaches has been developed. Of particular relevance are approaches to dealing with overlap of broad and sharp signals. Although the existence of this problem is still debated in the context of soil analyses, not only is it well-recognized in biomedical applications, but multiple approaches have been developed to deal with it, including T2 editing and time-domain fitting. Perhaps the most transferable concept is the incorporation of 'prior knowledge' in the fitting of spectra. This is well established in biomedical applications but barely touched in soil analyses. We argue that shortcuts to dealing with overlap in the monoester region (31)P NMR soil spectra are likely to be found in the biomedical literature, although some degree of adaptation will be necessary.

The effects of organic matter-mineral interactions and organic matter chemistry on diuron sorption across a diverse range of soils.

Sorption of non-ionic organic compounds to soil is usually expressed as the carbon-normalized partition coefficient (KOC), because it is assumed that the main factor that influences the amount sorbed is the organic carbon content of the soil. However, KOC can vary by a factor of at least ten across a range of soils. We investigated two potential causes of variation in diuron KOC - organic matter-mineral interactions and organic matter chemistry - for a diverse set of 34 soils from Sri Lanka, representing a wide range of soil types. Treatment with hydrofluoric acid (HF-treatment) was used to concentrate soil organic matter. HF-treatment increased KOC for the majority of soils (average factor 2.4). We attribute this increase to the blocking of organic matter sorption sites in the whole soils by minerals. There was no significant correlation between KOC for the whole soils and KOC for the HF-treated soils, indicating that the importance of organic matter-mineral interactions varied greatly amongst these soils. There was as much variation in KOC across the HF-treated soils as there was across the whole soils, indicating that the nature of soil organic matter is also an important contributor to KOC variability. Organic matter chemistry, determined by solid-state (13)C nuclear magnetic resonance (NMR) spectroscopy, was correlated with KOC for the HF-treated soils. In particular, KOC increased with the aromatic C content (R=0.64, p=1×10(-6)), and decreased with O-alkyl C (R=-0.32, p=0.03) and alkyl C (R=-0.41, p=0.004) content.

Assessing crop residue phosphorus speciation using chemical fractionation and solution 31P nuclear magnetic resonance spectroscopy.

At physiological maturity, nutrients in crop residues can be released to the soil where they are incorporated into different labile and non-labile pools while the remainder is retained within the residue itself. The chemical speciation of phosphorus (P) in crop residues is an important determinant of the fate of this P. In this study, we used chemical fractionation and (31)P nuclear magnetic resonance (NMR) spectroscopy, first separately and then together, to evaluate the P speciation of mature oat (Avena sativa) residue. Two water extracts (one employing shaking and the other sonication) and two acid extracts (0.2N perchloric acid and 10% trichloroacetic acid) of these residues contained similar concentrations of orthophosphate (molybdate-reactive P determined by colorimetry) as NaOH-EDTA extracts of whole plant material subsequently analysed by solution (31)P NMR spectroscopy. However, solution (31)P NMR analysis of the extracts and residues isolated during the water/acid extractions indicated that this similarity resulted from a fortuitous coincidence as the orthophosphate concentration in the water/acid extracts was increased by the hydrolysis of pyrophosphate and organic P forms while at the same time there was incomplete extraction of orthophosphate. Confirmation of this was the absence of pyrophosphate in both water and acid fractions (it was detected in the whole plant material) and the finding that speciation of organic P in the fractions differed from that in the whole plant material. Evidence for incomplete extraction of orthophosphate was the finding that most of the residual P in the crop residues following water/acid extractions was detected as orthophosphate using (31)P NMR. Two methods for isolating and quantifying phospholipid P were also tested, based on solubility in ethanol:ether and ethanol:ether:chloroform. While these methods were selective and appeared to extract only phospholipid P, they did not extract all phospholipid P, as some was detected by NMR in the crop residue after extraction. These results highlight the need for careful interpretation of results from chemical fractionation, as separation can be compromised by incomplete recovery and side reactions. This study also highlights the benefits of employing a technique that can simultaneously detect multiple P species (solution (31)P NMR) in combination with chemical fractionation.

Persistence of estrogenic activity in soils following land application of biosolids.

Estrogenic compounds may enter the environment when biosolids are applied to land. In the present study, soil samples were collected over 4 mo from a field trial following addition of biosolids. The recombinant yeast estrogen screen bioassay identified estrogenic activity in the soil at all sampling times to concentrations up to 2.3 µg 17ß-estradiol equivalency/kg. The present results indicate the potential for estrogenic compounds to persist in soil following biosolids application.

Changes in the nature of dissolved organics during pulp and paper mill wastewater treatment: a multivariate statistical study combining data from three analytical techniques.

The paper-making process can produce large amounts of wastewater (WW) with high particulate and dissolved organic loads. Generally, in developed countries, stringent international regulations for environmental protection require pulp and paper mill WW to be treated to reduce the organic load prior to discharge into the receiving environment. This can be achieved by primary and secondary treatments involving both chemical and biological processes. These processes result in complex changes in the nature of the organic material, as some components are mineralised and others are transformed. In this study, changes in the nature of organics through different stages of secondary treatment of pulp and paper mill WW were followed using three advanced characterisation techniques: solid-state (13)C nuclear magnetic resonance (NMR) spectroscopy, pyrolysis-gas chromatography mass spectrometry (py-GCMS) and high-performance size-exclusion chromatography (HPSEC). Each technique provided a different perspective on the changes that occurred. To compare the different chemical perspectives in terms of the degree of similarity/difference between samples, we employed non-metric multidimensional scaling. Results indicate that NMR and HPSEC provided strongly correlated perspectives, with 86 % of the discrimination between the organic samples common to both techniques. Conversely, py-GCMS was found to provide a unique, and thus complementary, perspective.

Comparison of degradation between indigenous and spiked bisphenol A and triclosan in a biosolids amended soil.

This study compared the degradation of indigenous bisphenol A (BPA) and triclosan (TCS) in a biosolids-amended soil, to the degradation of spiked labelled surrogates of the same compounds (BPA-d16 and TCS-(13)C12). The aim was to determine if spiking experiments accurately predict the degradation of compounds in biosolids-amended soils using two different types of biosolids, a centrifuge dried biosolids (CDB) and a lagoon dried biosolids (LDB). The rate of degradation of the compounds was examined and the results indicated that there were considerable differences between the indigenous and spiked compounds. These differences were more marked for BPA, for which the indigenous compound was detectable throughout the study, whereas the spiked compound decreased to below the detection limit prior to the study completion. The rate of degradation for the indigenous BPA was approximately 5-times slower than that of the spiked BPA-d16. The indigenous and spiked TCS were both detectable throughout the study, however, the shape of the degradation curves varied considerably, particularly in the CDB treatment. These findings show that spiking experiments may not be suitable to predict the degradation and persistence of organic compounds following land application of biosolids.

Biochar carbon stability in a clayey soil as a function of feedstock and pyrolysis temperature.

The stability of biochar carbon (C) is the major determinant of its value for long-term C sequestration in soil. A long-term (5 year) laboratory experiment was conducted under controlled conditions using 11 biochars made from five C3 biomass feedstocks (Eucalyptus saligna wood and leaves, papermill sludge, poultry litter, cow manure) at 400 and/or 550 °C. The biochars were incubated in a vertisol containing organic C from a predominantly C4-vegetation source, and total CO(2)-C and associated δ(13)C were periodically measured. Between 0.5% and 8.9% of the biochar C was mineralized over 5 years. The C in manure-based biochars mineralized faster than that in plant-based biochars, and C in 400 °C biochars mineralized faster than that in corresponding 550 °C biochars. The estimated mean residence time (MRT) of C in biochars varied between 90 and 1600 years. These are conservative estimates because they represent MRT of relatively labile and intermediate-stability biochar C components. Furthermore, biochar C MRT is likely to be higher under field conditions of lower moisture, lower temperatures or nutrient availability constraints. Strong relationships of biochar C stability with the initial proportion of nonaromatic C and degree of aromatic C condensation in biochar support the use of these properties to predict biochar C stability in soil.