Agriculture increases the bioavailability of silicon, a beneficial element for crop, in temperate soils.

Crops may take benefits from silicon (Si) uptake in soil. Plant available Si (PAS) can be affected by natural weathering processes or by anthropogenic forces such as agriculture. The soil parameters that control the pool of PAS are still poorly documented, particularly in temperate climates. In this study, we documented PAS in France, based on statistical analysis of Si extracted by CaCl2 (SiCaCl2) and topsoil characteristics from an extensive dataset. We showed that cultivation increased SiCaCl2 for soils developed on sediments, that cover 73% of France. This increase is due to liming for non-carbonated soils on sediments that are slightly acidic to acidic when non-cultivated. The analysis performed on non-cultivated soils confirmed that SiCaCl2 increased with the < 2 µm fraction and pH but only for soils with a < 2 µm fraction ranging from 50 to 325 g kg-1. This increase may be explained by the < 2 µm fraction mineralogy, i.e. nature of the clay minerals and iron oxide content. Finally, we suggest that 4% of French soils used for wheat cultivation could be deficient in SiCaCl2.

A survey of topsoil arsenic and mercury concentrations across France.

Even at low concentrations, the presence of arsenic and mercury in soils can lead to ecological and health impacts. The recent European-wide LUCAS Topsoil Survey found that the arsenic concentration of a large proportion of French soils exceeded a threshold which indicated that further investigation was required. A much smaller proportion of soils exceeded the corresponding threshold for mercury but the impacts of mining and industrial activities on mercury concentrations are not well understood. We use samples from the French national soil monitoring network (RMQS: Réseau de Mesures de la Qualité des Sols) to explore the variation of topsoil arsenic and mercury concentrations across mainland France at a finer spatial resolution than was reported by LUCAS Topsoil. We use geostatistical methods to map the expected concentrations of these elements in the topsoil and the probabilities that the legislative thresholds are exceeded. We find that, with the exception of some areas where the geogenic concentrations and soil adsorption capacities are very low, arsenic concentrations are generally larger than the threshold which indicates that further assessment of the area is required. The lower of two other guideline values indicating risks to ecology or health is exceeded in fewer than 5% of RMQS samples. These exceedances occur in localised hot-spots primarily associated with mining and mineralization. The probabilities of mercury concentrations exceeding the further assessment threshold value are everywhere less than 0.01 and none of the RMQS samples exceed either of the ecological and health risk thresholds. However, there are some regions with elevated concentrations which can be related to volcanic material, natural mineralizations and industrial contamination. These regions are more diffuse than the hot-spots of arsenic reflecting the greater volatility of mercury and therefore the greater ease with which it can be transported and redeposited. The maps provide a baseline against which future phases of the RMQS can be compared and highlight regions where the threat of soil contamination and its impacts should be more closely monitored.

Physico-chemical characteristics of topsoil for contrasted forest, agricultural, urban and industrial land uses in France.

Soil quality is related to soil characteristics such as fertility and contamination. The aim of this study is to assess the effect of land use on these soil characteristics and to confirm the following anthropisation gradient: (i) forest, (ii) grassland, (iii) cultivated, (iv) orchard and vineyard, (v) urban vegetable garden, and (vi) SUITMA (urban, industrial, traffic, mining and military areas). A database comprising the characteristics of 2451 soils has been constituted. In order to compare the topsoils from six contrasting land uses, a principal components analysis (PCA) was performed on nine geochemical variables (C, N, pH, POlsen, total Cd, Cu, Ni, Pb, Zn). The first axis of the PCA is interpreted as a global increase of topsoil metallic elements along the anthropisation gradient. Axis 2 reflects the variability of fertility levels. Human activity increases the pressure on soils along the proposed gradient according to six different distribution patterns. This better knowledge of topsoil quality and its dependence on current land use should therefore help to manage and preserve the soil mantle.

Improving soil bacterial taxa-area relationships assessment using DNA meta-barcoding.

The evaluation of the taxa-area relationship (TAR) with molecular fingerprinting data demonstrated the spatial structuration of soil microorganisms and provided insights into the processes shaping their diversity. The increasing use of massive sequencing technologies in biodiversity investigations has now raised the question of the advantages of such technologies over the fingerprinting approach for elucidation of the determinism of soil microbial community assembly in broad-scale biogeographic studies. Our objectives in this study were to compare DNA fingerprinting and meta-barcoding approaches for evaluating soil bacterial TAR and the determinism of soil bacterial community assembly on a broad scale. This comparison was performed on 392 soil samples from four French geographic regions with different levels of environmental heterogeneity. Both molecular approaches demonstrated a TAR with a significant slope but, because of its more sensitive description of soil bacterial community richness, meta-barcoding provided significantly higher and more accurate estimates of turnover rates. Both approaches were useful in evidencing the processes shaping bacterial diversity variations on a broad scale. When different taxonomic resolutions were considered for meta-barcoding data, they significantly influenced the estimation of turnover rates but not the relative importance of each component process. Altogether, DNA meta-barcoding provides a more accurate evaluation of the TAR and may lead to re-examination of the processes shaping soil bacterial community assembly. This should provide new insights into soil microbial ecology in the context of sustainable use of soil resources.

Turnover of soil bacterial diversity driven by wide-scale environmental heterogeneity.

Spatial scaling and determinism of the wide-scale distribution of macroorganism diversity has been largely demonstrated over a century. For microorganisms, and especially for soil bacteria, this fundamental question requires more thorough investigation, as little information has been reported to date. Here by applying the taxa-area relationship to the largest spatially explicit soil sampling available in France (2,085 soils, area covered ~5.3 × 10(5) km(2)) and developing an innovative evaluation of the habitat-area relationship, we show that the turnover rate of bacterial diversity in soils on a wide scale is highly significant and strongly correlated with the turnover rate of soil habitat. As the diversity of micro- and macroorganisms appears to be driven by similar processes (dispersal and selection), maintaining diverse and spatially structured habitats is essential for soil biological patrimony and the resulting ecosystem services.

Spatial distribution of Lindane concentration in topsoil across France.

Lindane [γ-hexachlorocyclohexane (γ-HCH)] is an organochlorine pesticide with toxic effects on humans. It is bioaccumulative and can remain in soils for long periods, and although its use for crop spraying was banned in France in 1998, it is possible that residues from before this time remain in the soil. The RMQS soil monitoring network consists of soil samples from 2200 sites on a 16 km regular grid across France, collected between 2002 and 2009. We use 726 measurements of the Lindane concentration in these samples to (i) investigate the main explanatory factors for its spatial distribution across France, and (ii) map this distribution. Geostatistics provides an appropriate framework to analyze our spatial dataset, though two issues regarding the data are worth special consideration: first, the harmonization of two subsets of the data (which were analyzed using different measurement processes), and second, the large proportion of data from one of these subsets that fell below a limit of quantification. We deal with these issues using recent methodological developments in geostatistics. Results demonstrate the importance of land use and rainfall for explaining part of the variability of Lindane across France: land use due to the past direct input of Lindane on cropland and its subsequent persistence in the soil, and rainfall due to the re-deposition of volatilized Lindane. Maps show the concentrations to be generally largest in the north and northwest of France, areas of more intensive agricultural land. We also compare levels to some contamination thresholds taken from the literature, and present maps showing the probability of Lindane concentrations exceeding these thresholds across France. These maps could be used as guidelines for deciding which areas require further sampling before some possible remediation strategy could be applied.

Determinants of the distribution of nitrogen-cycling microbial communities at the landscape scale.

Little information is available regarding the landscape-scale distribution of microbial communities and its environmental determinants. However, a landscape perspective is needed to understand the relative importance of local and regional factors and land management for the microbial communities and the ecosystem services they provide. In the most comprehensive analysis of spatial patterns of microbial communities to date, we investigated the distribution of functional microbial communities involved in N-cycling and of the total bacterial and crenarchaeal communities over 107 sites in Burgundy, a 31,500 km(2) region of France, using a 16 × 16 km(2) sampling grid. At each sampling site, the abundance of total bacteria, crenarchaea, nitrate reducers, denitrifiers- and ammonia oxidizers were estimated by quantitative PCR and 42 soil physico-chemical properties were measured. The relative contributions of land use, spatial distance, climatic conditions, time, and soil physico-chemical properties to the spatial distribution of the different communities were analyzed by canonical variation partitioning. Our results indicate that 43-85% of the spatial variation in community abundances could be explained by the measured environmental parameters, with soil chemical properties (mostly pH) being the main driver. We found spatial autocorrelation up to 739 km and used geostatistical modelling to generate predictive maps of the distribution of microbial communities at the landscape scale. The present study highlights the potential of a spatially explicit approach for microbial ecology to identify the overarching factors driving the spatial heterogeneity of microbial communities even at the landscape scale.

Multivariate analysis of the spatial patterns of 8 trace elements using the French soil monitoring network data.

Geostatistical and spatially constrained multivariate analysis methods (MULTISPATI-PCA) have been applied at the scale of France to differentiate the influence of natural background from the pollution due to human activities on the content of 8 trace elements in the topsoil. The results of MULTISPATI-PCA evidence strong spatial structures attributed to different natural and artificial processes. The first axis can be interpreted as an axis of global richness in trace elements. Axis 2 reflects geochemical anomalies in Tl and Pb. Axis 3 exhibits on one hand natural pedogeogenic anomalies and on the other hand, it shows high values attributable to anthropogenic contamination. Finally, axis 4 is driven by anthropogenic copper contamination. At the French territory scale, we show that the main factors controlling trace elements distribution in the topsoil are soil texture, variations in parent material geology and weathering, and various anthropogenic sources.

Soil monitoring in Europe: a review of existing systems and requirements for harmonisation.

Official frameworks for soil monitoring exist in most member states of the European Union. However, the uniformity of methodologies and the scope of actual monitoring are variable between national systems. This review identifies the differences between existing systems, and describes options for harmonising soil monitoring in the Member States and some neighbouring countries of the European Union. The present geographical coverage is uneven between and within countries. In general, national and regional networks are much denser in northern and eastern regions than in southern Europe. The median coverage in the 50 km x 50 km EMEP cells applied all over the European Union, is 300 km(2) for one monitoring site. Achieving such minimum density for the European Union would require 4100 new sites, mainly located in southern countries (Italy, Spain, Greece), parts of Poland, Germany, the Baltic countries, Norway, Finland and France. Options are discussed for harmonisation of site density, considering various risk area and soil quality indicator requirements.