Microbial functionality as affected by experimental warming of a temperate mountain forest soil—A metaproteomics survey

Soil microbes play an important role in terrestrial carbon (C) cycling, but their functional response to global warming remains yet unclear. Soil metaproteomics has the potential to contribute to a better understanding of warming effects on soil microbes as proteins specifically represent active microbes and their physiological functioning. To quantify warming effects on microbial proteins and their distribution among different functional and phylogenetic groups, we sampled forest soil that had been artificially warmed (+4 °C) during seven consecutive growing seasons and analyzed its metaproteomic fingerprint and linked to soil respiration as a fundamental ecosystem service. Bacterial protein abundances largely exceeded fungal abundances at the study site but protein abundances showed only subtle differences among control and warmed soil at the phylum and class level, i.e. a temperature-induced decrease in Firmicutes, an increase in Agaricomycetes and Actinobacteria, and a decrease in the Asco/Basidiomycota ratio. Community function in warmed soil showed a clear trend towards increased proteins involved in microbial energy production and conversion, related to the increased CO2 efflux from warmed soil as a result of stress environmental conditions. The differences in community function could be related to specific phyla using metaproteomics, indicating that microbial adaptation to long-term soil warming mainly changed microbial functions, which is related to enhanced soil respiration. The response of soil respiration to warming (+35% soil CO2 efflux during sampling) has not changed over time. Accordingly, potential long-term microbial adaptations to soil warming were too subtle to affect soil respiration rates or, were overlaid by other co-varying factors (e.g. substrate availability)

Amplitude and frequency of wetting and drying cycles drive N2_{2} and N2_{2}O emissions from a subtropical pasture

This study investigated the effects of irrigation frequency on N$_{2}$ and N$_{2}$O emissions from an intensively managed pasture in the subtropics. Irrigation volumes were estimated to replace evapotranspiration and were applied either once (low frequency) or split into four applications (high frequency). To test for legacy effects, a large rainfall event was simulated at the end of the experiment. Over 15 days, 7.9 ± 2.7 kg N$_{2}$ + N$_{2}$O-N ha$^{-1}$ was emitted on average regardless of irrigation frequency, with N$_{2}$O accounting for 25% of overall N$_{2}$ + N$_{2}$O. Repeated, small amounts of irrigation produced an equal amount of N$_{2}$ + N$_{2}$O losses as a single, large irrigation event. The increase in N$_{2}$O emissions after the large rainfall event was smaller in the high-frequency treatment, shifting the N$_{2}$O/(N$_{2}$O + N$_{2}$) ratio towards N$_{2}$, indicating a treatment legacy effect. Cumulative losses of N$_{2}$O and N$_{2}$ did not differ between treatments, but higher CO$_{2}$ emissions were observed in the high-frequency treatment. Our results suggest that the increase in microbial activity and related O$_{2}$ consumption in response to small and repeated wetting events can offset the effects of increased soil gas diffusivity on denitrification, explaining the lack of treatment effect on cumulative N$_{2}$O and N$_{2}$ emissions and the abundance of N cycling marker genes. The observed legacy effect may be linked to increased mineralisation and subsequent increased dissolved organic carbon availability, suggesting that increased irrigation frequency can reduce the environmental impact (N$_{2}$O), but not overall magnitude of N$_{2}$O and N$_{2}$ emissions from intensively managed pastures

Gross Ammonification and Nitrification Rates in Soil Amended with Natural and NH4-Enriched Chabazite Zeolite and Nitrification Inhibitor DMPP

Using zeolite-rich tuffs for improving soil properties and crop N-use efficiency is becoming popular. However, the mechanistic understanding of their influence on soil N-processes is still poor. This paper aims to shed new light on how natural and NH4+-enriched chabazite zeolites alter short-term N-ammonification and nitrification rates with and without the use of nitrification inhibitor (DMPP). We employed the 15N pool dilution technique to determine short-term gross rates of ammonification and nitrification in a silty-clay soil amended with two typologies of chabazite-rich tuff: (1) at natural state and (2) enriched with NH4+-N from an animal slurry. Archaeal and bacterial amoA, nirS and nosZ genes, N2O-N and CO2-C emissions were also evaluated. The results showed modest short-term effects of chabazite at natural state only on nitrate production rates, which was slightly delayed compared to the unamended soil. On the other hand, the addition of NH4+-enriched chabazite stimulated NH4+-N production, N2O-N emissions, but reduced NO3-N production and abundance of nirS-nosZ genes. DMPP efficiency in reducing nitrification rates was dependent on N addition but not affected by the two typologies of zeolites tested. The outcomes of this study indicated the good compatibility of both natural and NH4+-enriched chabazite zeolite with DMPP. In particular, the application of NH4 +-enriched zeolites with DMPP is recommended to mitigate short-term N losses

Effect of the nitrification inhibitor 3,4-dimethylpyrazole phosphate (DMPP) on N-turnover, the N2_{2}O reductase-gene nosZ and N2_{2}O:N2_{2} partitioning from agricultural soils

Nitrification inhibitors (NIs) have been shown to reduce emissions of the greenhouse gas nitrous oxide (N$_{2}$O) from agricultural soils. However, their N$_{2}$O reduction efficacy varies widely across different agro-ecosystems, and underlying mechanisms remain poorly understood. To investigate effects of the NI 3,4-dimethylpyrazole-phosphate (DMPP) on N-turnover from a pasture and a horticultural soil, we combined the quantification of N$_{2}$ and N$_{2}$O emissions with $^{15}$N tracing analysis and the quantification of the N$_{2}$O-reductase gene (nosZ) in a soil microcosm study. Nitrogen fertilization suppressed nosZ abundance in both soils, showing that high nitrate availability and the preferential reduction of nitrate over N$_{2}$O is responsible for large pulses of N$_{2}$O after the fertilization of agricultural soils. DMPP attenuated this effect only in the horticultural soil, reducing nitrification while increasing nosZ abundance. DMPP reduced N$_{2}$O emissions from the horticultural soil by >50% but did not affect overall N$_{2}$ + N$_{2}$O losses, demonstrating the shift in the N$_{2}$O:N$_{2}$ ratio towards N$_{2}$ as a key mechanism of N$_{2}$O mitigation by NIs. Under non-limiting NO$_{3}$$^{-}$ availability, the efficacy of NIs to mitigate N$_{2}$O emissions therefore depends on their ability to reduce the suppression of the N$_{2}$O reductase by high NO$_{3}$$^{-}$ concentrations in the soil, enabling complete denitrification to N$_{2}$

Meta-analysis protocol on the effects of cover crops on pool specific soil organic carbon

Soil organic carbon (SOC) plays an important role in agricultural soils, as it contributes to overall soil health as well as climate change mitigation and adaptation. By conducting a meta-analysis, we aim to quantitatively summarize research studying the effects of cover crops (CC) on SOC pools throughout soil depths in arable cropland. We included global studies located in the climatic zones present in Europe. The pools chosen for this analysis are the particulate organic carbon (POC) and the mineral associated organic carbon (MAOC) and the microbial biomass carbon (MBC). Alongside, we will study the effects of a broad range of moderators, such as pedo-climatic factors, other agricultural management practices and CC characteristics e.g., type. We identified 71 relevant studies from 61 articles, of which mean values for SOC pools, standard deviations and sample sizes for treatments (CC) and controls (no CC) were extracted. To perform the meta-analysis, an effect size will be calculated for each study, which will then be summarized across studies by using weighing procedure. Consequently, this meta-analysis will provide valuable information on the state of knowledge on SOC pool change influenced by CC, corresponding quantitative summary results and the sources of heterogeneity influencing these results. Graph

Quicklime application instantly increases soil aggregate stability

Agricultural intensification, especially enhanced mechanisation of soil management, can lead to the deterioration of soil structure and to compaction. A possible amelioration strategy is the application of (structural) lime. In this study, we tested the effect of two different liming materials, ie limestone (CaCO3) and quicklime (CaO), on soil aggregate stability in a 3-month greenhouse pot experiment with three agricultural soils. The liming materials were applied in the form of pulverised additives at a rate of 2 000 kg ha1. Our results show a significant and instantaneous increase of stable aggregates after quicklime application whereas no effects were observed for limestone. Quicklime application seems to improve aggregate stability more efficiently in soils with high clay content and cation exchange capacity. In conclusion, quicklime application may be a feasible strategy for rapid improvement of aggregate stability of fine textured agricultural soils.(VLID)224292

The Application of ecological stoichiometry to plant-microbial-soil organic matter transformations

L'apèndix està disponible en línia a http://dx.doi.org/10.1890/14-0777.1.smEl títol del post-print és The Application of ecological stoichiometry to microbial decomposition: from plants to microbial communitiesAquest treball també ha rebuts els ajuts següents: MICDIF integrated project (linking microbial diversity and function across scales and ecosystems), funded by the Austrian Science Fund FWF (S 10006-B01, S 10006-B06, S 10006- B07)Elemental stoichiometry constitutes an inherent link between biogeochemistry and the structure and processes within food webs, and thus is at the core of ecosystem functioning. Stoichiometry allows for spanning different levels of biological organization, from cellular metabolism to ecosystem structure and nutrient cycling, and is therefore particularly useful for establishing links between different ecosystem compartments. We review elemental carbon : nitrogen : phosphorus (C:N:P) ratios in terrestrial ecosystems (from vegetation, leaf litter, woody debris, and dead roots, to soil microbes and organic matter). While the stoichiometry of the plant, litter, and soil compartments of ecosystems is well understood, heterotrophic microbial communities, which dominate the soil food web and drive nutrient cycling, have received increasing interest in recent years. This review highlights the effects of resource stoichiometry on soil microorganisms and decomposition, specifically on the structure and function of heterotrophic microbial communities and suggests several general patterns. First, latitudinal gradients of soil and litter stoichiometry are reflected in microbial community structure and function. Second, resource stoichiometry may cause changes in microbial interactions and community dynamics that lead to feedbacks in nutrient availability. Third, global change alters the C:N, C:P, and N:P ratios of primary producers, with repercussions for microbial decomposer communities and critical ecosystem services such as soil fertility. We argue that ecological stoichiometry provides a framework to analyze and predict such global change effects at various scales