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Inspired by previous studies that have indicated consistent or even well-constrained (relatively low variability) relations among carbon (C), nitrogen (N) and phosphorus (P) in soils, we have endeavored to explore general soil C:N:P ratios in China on a national scale, as well as the changing patterns of these ratios with soil depth, developmental stages and climate; we also attempted to determine if well-constrained C: N:P stoichiometrical ratios exist in China's soil. Based on an inventory data set of 2,384 soil profiles, our analysis indicated that the mean C:N, C:P and N:P ratios for the entire soil depth (as deep as 250 cm for some soil profiles) in China were 11.9, 61 and 5.2, respectively, showing a C: N: P ratio of ~ 60: 5:1. C:N ratios showed relatively small variation among different climatic zones, soil orders, soil depth and weathering stages, while C:P and N:P ratios showed a high spatial heterogeneity and large variations in different climatic zones, soil orders, soil depth and weathering stages. No well-constrained C:N:P ratios were found for the entire soil depth in China. However, for the 0-10 cm organic-rich soil, which has the most active organism-environment interaction, we found a well-constrained C:N ratio (14.4, molar ratio) and relatively consistent C:P (136) and N: P (9.3) ratios, with a general C:N:P ratio of 134:9:1. Finally, we suggested that soil C:N, C:P and N:P ratios in organic-rich topsoil could be a good indicator of soil nutrient status during soil development.

Identifying the ecological processes that structure communities and the consequences for ecosystem function is a central goal of ecology. The recognition that fungi, bacteria, and viruses control key ecosystem functions has made microbial communities a major focus of this field. Because many ecological processes are apparent only at particular spatial or temporal scales, a complete understanding of the linkages between microbial community, environment, and function requires analysis across a wide range of scales. Here, we map the biological and functional geography of soil fungi from local to continental scales and show that the principal ecological processes controlling community structure and function operate at different scales. Similar to plants or animals, most soil fungi are endemic to particular bioregions, suggesting that factors operating at large spatial scales, like dispersal limitation or climate, are the first-order determinants of fungal community structure in nature. By contrast, soil extracellular enzyme activity is highly convergent across bioregions and widely differing fungal communities. Instead, soil enzyme activity is correlated with local soil environment and distribution of fungal traits within the community. The lack of structure–function relationships for soil fungal communities at continental scales indicates a high degree of functional redundancy among fungal communities in global biogeochemical cycles.

Spatial prediction of soil organic matter is a global challenge and of particular importance for regions with intensive land use and where availability of soil data is limited. This study evaluated a Digital Soil Mapping (DSM) approach to model the spatial distribution of stocks of soil organic carbon (SOC), total carbon (Ctot), total nitrogen (Ntot) and total sulphur (Stot) for a data-sparse, semi-arid catchment in Inner Mongolia, Northern China. Random Forest (RF) was used as a new modeling tool for soil properties and Classification and Regression Trees (CART) as an additional method for the analysis of variable importance. At 120 locations soil profiles to 1 m depth were analyzed for soil texture, SOC, Ctot, Ntot, Stot, bulk density (BD) and pH. On the basis of a digital elevation model, the catchment was divided into pixels of 90 m × 90 m and for each cell, predictor variables were determined: land use unit, Reference Soil Group (RSG), geological unit and 12 topography-related variables. Prediction maps showed that the highest amounts of SOC, Ctot, Ntot and Stot stocks are stored under marshland, steppes and mountain meadows. River-like structures of very high elemental stocks in valleys within the steppes are partly responsible for the high amounts of SOC for grasslands (81-84% of total catchment stocks). Analysis of variable importance showed that land use, RSG and geology are the most important variables influencing SOC storage. Prediction accuracy of the RF modeling and the generated maps was acceptable and explained variances of 42 to 62% and 66 to 75%, respectively. A decline of up to 70% in elemental stocks was calculated after conversion of steppe to arable land confirming the risk of rapid soil degradation if steppes are cultivated. Thus their suitability for agricultural use is limited.

Abiotic release of nitrous acid (HONO) in equilibrium with soil nitrite (NO 2 - ) was suggested as an important contributor to the missing source of atmospheric HONO and hydroxyl radicals (OH). The role of total soil-derived HONO in the biogeochemical and atmospheric nitrogen cycles, however, has remained unknown. In laboratory experiments, we found that for nonacidic soils from arid and arable areas, reactive nitrogen emitted as HONO is comparable with emissions of nitric oxide (NO). We show that ammonia-oxidizing bacteria can directly release HONO in quantities larger than expected from the acid-base and Henry's law equilibria of the aqueous phase in soil. This component of the nitrogen cycle constitutes an additional loss term for fixed nitrogen in soils and a source for reactive nitrogen in the atmosphere.

Background The need to observe roots in their natural undisturbed state within soil, both spatially and temporally, is a challenge that continues to occupy researchers studying the rhizosphere. Scope This paper reviews how over the last 30 years the application of X-ray Computed Tomography (CT) has demonstrated considerable promise for root visualisation studies. We describe how early CT work demonstrated that roots could be visualised within soils, but was limited by resolution (ca. 1 mm). Subsequent work, utilising newer micro CT scanners, has been able to achieve higher resolutions (ca. 50 μm) and enhance imaging capability in terms of detecting finer root material. However the overlap in the attenuation density of root material and soil pore space has been a major impediment to the uptake of the technology. We then outline how sophisticated image processing techniques, frequently based on object tracking methods, have demonstrated great promise in overcoming these obstacles. This, along with the concurrent advances in scan and reconstruction times, image quality and resolution (ca. 0.5 μm) have opened up new opportunities for the application of X-ray CT in experimental studies of root and soil interactions. Conclusions We conclude that CT is well placed to contribute significantly to unravelling the complex interactions between roots and soil.

The rhizosphere is a critical interface supporting the exchange of resources between plants and their associated soil environment. Rhizosphere microbial diversity is influenced by the physical and chemical properties of the rhizosphere, some of which are determined by the genetics of the host plant. However, within a plant species, the impact of genetic variation on the composition of the microbiota is poorly understood. Here, we characterized the rhizosphere bacterial diversity of 27 modern maize inbreds possessing exceptional genetic diversity grown under field conditions. Randomized and replicated plots of the inbreds were planted in five field environments in three states, each with unique soils and management conditions. Using pyrosequencing of bacterial 16S rRNA genes, we observed substantial variation in bacterial richness, diversity, and relative abundances of taxa between bulk soil and the maize rhizosphere, as well as between fields. The rhizospheres from maize inbreds exhibited both a small but significant proportion of heritable variation in total bacterial diversity across fields, and substantially more heritable variation between replicates of the inbreds within each field. The results of this study should facilitate expanded studies to identify robust heritable plant–microbe interactions at the level of individual polymorphisms by genome wide association, so that plant-microbiome interactions can ultimately be incorporated into plant breeding.

Soil contamination with heavy metals is a widespread problem, especially prominent on grounds lying in the vicinity of mines, smelters, and other industrial facilities. Many such areas are located in Southern Poland; they are polluted mainly with Pb, Zn, Cd, or Cu, and locally also with Cr. As for now, little is known about most bacterial species thriving in such soils and even less about a core bacterial community—a set of taxa common to polluted soils. Therefore, we wanted to answer the question if such a set could be found in samples differing physicochemically and phytosociologically. To answer the question, we analyzed bacterial communities in three soil samples contaminated with Pb and Zn and two contaminated with Cr and lower levels of Pb and Zn. The communities were assessed with 16S rRNA gene fragments pyrosequencing. It was found that the samples differed significantly and Zn decreased both diversity and species richness at species and family levels, while plant species richness did not correlate with bacterial diversity. In spite of the differences between the samples, they shared many operational taxonomic units (OTUs) and it was possible to delineate the core microbiome of our sample set. The core set of OTUs comprised members of such taxa as Sphingomonas, Candidatus Solibacter, or Flexibacter showing that particular genera might be shared among sites ~40 km distant.

Aims Current estimates of soil organic carbon (SOC) are based largely on surficial measurements to depths of 0.3 to 1 m. Many of the world's soils greatly exceed 1 m depth and there are numerous reports of biological activity to depths of many metres. Although SOC storage to depths of up to 8 m has been previously reported, the extent to which SOC is stored at deeper depths in soil profiles is currently unknown. This paper aims to provide the first detailed analysis of these previously unreported stores of SOC. Methods Soils from five sites in the deeply weathered regolith in the Yilgarn Craton of south-western Australia were sampled and analysed for total organic carbon by combustion chromatography. These soils ranged between 5 and 38 m (mean 21 m) depth to bedrock and had been either recently reforested with Pinus pinaster or were under agriculture. Sites had a mean annual rainfall of between 399 and 583 mmyr⁻¹. Results The mean SOC concentration across all sites was 2.30 ± 0.26 % (s. e.), 0.41 ± 0.05 % and 0.23 ± 0.04 % in the surface 0.1, 0.1-0.5 and 0.5 to 1.0 m increments, respectively. The mean value between 1 and 5 m was 0.12 ± 0.01 %, whereas between 5 and 35 m the values decreased from 0.04 ± 0.002 % to 0.03 ± 0.003 %. Mean SOC mass densities for each of the five locations varied from 21.8-37.5 kg Cm⁻², and were in toto two to five times greater than would be reported with sampling to a depth of 0.5 m. Conclusions This finding may have major implications for estimates of global carbon storage and modelling of the potential global impacts of climate change and land-use change on carbon cycles. The paper demonstrates the need for a reassessment of the current arbitrary shallow soil sampling depths for assessing carbon stocks, a revision of global SOC estimates and elucidation of the composition and fate of deep carbon in response to land use and climate change.

Community level physiological profiling and pyrosequencing-based analysis of the V1-V2 16S rRNA gene region were used to characterize and compare microbial community structure, diversity, and bacterial phylogeny from soils of chemically cultivated land (CCL), organically cultivated land (OCL), and fallow grass land (FGL) for 16 years and were under three different land use types. The entire dataset comprised of 16,608 good-quality sequences (CCL, 6,379; OCL, 4,835; FGL, 5,394); among them 12,606 sequences could be classified in 15 known phylum. The most abundant phylum were Proteobacteria (29.8%), Acidobacteria (22.6%), Actinobacteria (11.1%), and Bacteroidetes (4.7%), while 24.3% of the sequences were from bacterial domain but could not be further classified to any known phylum. Proteobacteria, Bacteroidetes, and Gemmatimonadetes were found to be significantly abundant in OCL soil. On the contrary, Actinobacteria ana Acidobacteria were significantly abundant in CCL and FGL, respectively. Our findings supported the view that organic compost amendment (OCL) activates diverse group of microorganisms as compared with conventionally used synthetic chemical fertilizers. Functional diversity and evenness based on carbon source utilization pattern was significantly higher in OCL as compared to CCL and FGL, suggesting an improvement in soil quality. This abundance of microbes possibly leads to the enhanced level of soil organic carbon, soil organic nitrogen, and microbial biomass in OCL and FGL soils as collated with CCL. This work increases our current understanding on the effect of long-term organic and chemical amendment applications on abundance, diversity, and composition of bacterial community inhabiting the soil for the prospects of agricultural yield and quantity of soil.

Although researchers have begun cataloging the incredible diversity of bacteria found in soil, we are largely unable to interpret this information in an ecological context, including which groups of bacteria are most abundant in different soils and why. With this study, we examined how the abundances of major soil bacterial phyla correspond to the biotic and abiotic characteristics of the soil environment to determine if they can be divided into ecologically meaningful categories. To do this, we collected 71 unique soil samples from a wide range of ecosystems across North America and looked for relationships between soil properties and the relative abundances of six dominant bacterial phyla (Acidobacteria, Bacteroidetes, Firmicutes, Actinobacteria, α-Proteobacteria, and the β-Proteobacteria). Of the soil properties measured, net carbon (C) mineralization rate (an index of C availability) was the best predictor of phylum-level abundances. There was a negative correlation between Acidobacteria abundance and C mineralization rates (r2 = 0.26, P < 0.001), while the abundances of β-Proteobacteria and Bacteroidetes were positively correlated with C mineralization rates (r2 = 0.35, P < 0.001 and r2 = 0.34, P < 0.001, respectively). These patterns were explored further using both experimental and meta-analytical approaches. We amended soil cores from a specific site with varying levels of sucrose over a 12-month period to maintain a gradient of elevated C availabilities. This experiment confirmed our survey results: there was a negative relationship between C amendment level and the abundance of Acidobacteria (r2 = 0.42, P < 0.01) and a positive relationship for both Bacteroidetes and β-Proteobacteria (r2 = 0.38 and 0.70, respectively; P < 0.01 for each). Further support for a relationship between the relative abundances of these bacterial phyla and C availability was garnered from an analysis of published bacterial clone libraries from bulk and rhizosphere soils. Together our survey, experimental, and meta-analytical results suggest that certain bacterial phyla can be differentiated into copiotrophic and oligotrophic categories that correspond to the r- and K-selected categories used to describe the ecological attributes of plants and animals. By applying the copiotroph—oligotroph concept to soil microorganisms we can make specific predictions about the ecological attributes of various bacterial taxa and better understand the structure and function of soil bacterial communities.