Nitrogen (N) is one of the most limiting nutrients for cereal production, especially in wheat, which is one of the main crops cultivated globally. To achieve high yields, wheat requires a certain amount of nitrogen (N), as N deficiency can lead to a decrease in yield and thus reduce income for farmers. In contrast, excessive applications of N fertilizer can be detrimental to both terrestrial and aquatic environments. To optimize N fertilizer applications in wheat, a three-year field experiment was conducted to evaluate the impact of different N fertilization strategies on various N-related physiological and agronomic traits. Moreover, to optimize N utilization efficiency while maintaining crop productivity, a mixture of five winter wheat varieties was used to mitigate the possible impact of environmental constraints. These strategies were based on a simultaneous increase in N fertilization and N fertilizer fractionation at key stages of plant development in a soil conservation agriculture (SCA) system in which legumes were grown prior to the cultivation of the main crop. In this SCA system, we observed that 200 kgN·ha−1 was optimal for both N use efficiency (NUE) and aerial and grain biomass production. Moreover, we found that at this level of N fertilization, of the application strategies, a 40%/40%/20% split application at full tillering, at the first node, and at booting, respectively, appeared to be the best option for the highest plant productivity.

Crop monitoring is essential for ensuring food security in a global context of population growth and climate change. Satellite images are commonly used to estimate crop parameters over large areas, and the freely available Synthetic Aperture Radar (SAR) Sentinel-1 (S-1) and optical Sentinel-2 (S-2) images are relevant for that purpose combining high temporal resolution and high spatial resolution. For this data article, field surveys were conducted from January to July 2017 in France to sample wheat and rapeseed crop parameters during the entire crops cycle. Phenological stages were identified in 83 wheat fields and 32 rapeseed fields in Brittany and Picardy regions. Moreover, Leaf Area Index (LAI), wet biomass, dry biomass and water content were sampled in three wheat fields and three rapeseed fields in Brittany. We assigned to each field sample 10 spectral bands and 12 vegetation indices from S-2 images and two backscattering coefficients, one backscattering ratio and four polarimetric indicators from S-1 images. This dataset can be used for crop monitoring in other regions, as well as for modelling development.

In the global context of population growth and climate change, monitoring crops is necessary to sustain agriculture and conserve natural resources. While many studies have demonstrated the ability of optical and SAR remotely sensed data to estimate crop parameters, these data have not been compared or combined to predict crop phenological stages. Despite the high sensitivity of SAR polarimetric data to crop phenological stages, no study has used high temporal resolution data. The freely available SAR Sentinel-1 (S-1) and optical Sentinel-2 (S2) time series provide a unique opportunity to monitor crop phenology at a high spatial resolution on a weekly basis. The objective of this study was to evaluate the potential of S-1 data alone, S-2 data alone, and their combined use to predict wheat and rapeseed phenological stages. We first analyzed temporal profiles of spectral bands, vegetation indices and leaf area index (LAI) derived from S-2 data, and backscattering coefficients and polarimetric indicators derived from S-1 data. Then, an incremental procedure was used to estimate the contribution of S-1 and S-2 features to the classification of principal and secondary phenological stages of wheat and rapeseed. Results for both crops showed that the classification obtained with combined S-1 & 2 data (mean kappa = 0.53-0.82 and 0.74-0.92 for wheat and rapeseed, respectively) was more accurate than those obtained with S-2 data alone (mean kappa = 0.54-0.75 and 0.67-0.86 for wheat and rapeseed, respectively) or S-1 data alone (mean kappa = 0.48-0.61 and 0.61-0.64 for wheat and rapeseed, respectively). Combining S-1 & 2 data allowed better identification of the beginning and end of tillering for wheat and the beginning and end of ripening for rapeseed. Among S-2 features, the most important were LAI for wheat and the NDVI for rapeseed. For both crops, the S2REP index was one of the most important vegetation indices, while MCARI was less important. For S-1 features, results highlighted the large contribution of the backscatter ratio (sigma degrees VH:sigma degrees VV) and the value of using polarimetric indicators (Shannon entropy and span) to monitor rapeseed and wheat phenology. The main novelties of this work are the use of S-1 polarimetric indicators to identify phenological stages of wheat and rapeseed and the mapping of wheat and rapeseed secondary phenological stages using remotely sensed data.

Arbuscular mycorrhizal fungi (AMF) play major roles in nutrient acquisition by crops and are key actors of agroecosystems productivity. However, agricultural practices can have deleterious effects on plant–fungi symbiosis establishment in soils, thus inhibiting its potential benefits on plant growth and development. Therefore, we have studied the impact of different soil management techniques, including conventional moldboard ploughing and no-till under an optimal nitrogen (N) fertilization regime and in the absence of N fertilization, on AMF spore density and soil chemical, physical, and biological indicators in the top 20 cm of the soil horizon. A field experiment conducted over six years revealed that AMF spore density was significantly lower under conventional tillage (CT) combined with intensive synthetic N fertilization. Under no-till (NT) conditions, the density of AMF spore was at least two-fold higher, even under intensive N fertilization conditions. We also observed that there were positive correlations between spore density, soil dehydrogenase enzyme activity, and soil penetration resistance and negative correlations with soil phosphorus and mineral N contents. Therefore, soil dehydrogenase activity and soil penetration resistance can be considered as good indicators of soil quality in agrosystems. Furthermore, the high nitrate content of ploughed soils appears to be detrimental both for the dehydrogenase enzyme activity and the production of AMF spores. It can be concluded that no-till, by preventing soil from structural and chemical disturbances, is a farming system that preserves the entire fungal life cycle and as such the production of viable spores of AMF, even under intensive N fertilization.

The use of nitrogen (N) fertilizer and glyphosate-based herbicides is increasing worldwide, with agriculture holding the largest market share. The agronomic and socioeconomic utilities of glyphosate are well established; however, our knowledge of the potential effects of glyphosate applied in the presence or absence of long-term N fertilization on microbial functional activities and the availability of soil nutrients remains limited. Using an ex situ approach with soils that did (N+) or did not (N0) receive synthetic N fertilization for 6 years, we assessed the impact of different rates (no glyphosate, CK; field rate, FR; 100 × field rate, 100FR) of glyphosate application on biological and chemical parameters. We observed that, after immediate application (1 day), the highest dose of glyphosate (100FR) negatively affected the alkaline phosphatase (AlP) activity in soils without N fertilization history and decreased the cation exchange capacity (CEC) in N0 compared to CK and FR treatments with N+. Conversely, the 100FR application increased nitrate (NO3-) and available phosphorus (PO43-) regardless of N fertilization history. Then, after 8 and 15 days, the N+\100FR and N+\FR treatments exhibited the lowest values for dehydrogenase (DH) and AlP activities, respectively, while urease (URE) activity was mainly affected by N fertilization. After 15 days and irrespective of N fertilization history, the FR glyphosate application negatively affected the degradation of carbon substrates by microbial communities (expressed as the average well color development, AWCD). By contrast, the 100FR treatment positively affected AWCD, increasing PO43- by 5 and 16% and NO3- by 126 and 119% in the N+ and N0 treatments, respectively. In addition, the 100FR treatment resulted in an increase in the average net nitrification rate. Principal component analysis revealed that the 100FR glyphosate treatment selected microbial communities that were able to metabolize amine substrates. Overall, the lack of N fertilization in the 6 past years combined with the highest glyphosate application rate (100FR) induced the highest values of AWCD, functional diversity, NO3-, PO43- and nitrification. We concluded that the intensive use of N fertilization for 6 years may change the non-target effects of glyphosate application on enzyme activities. The functional activities, nitrification and nutrient contents were increased by glyphosate only when applied at 100 times the field application rate.

The application of nitrogen (N) and herbicides are commonly used to fertilize crops and protect them against weed development, but are also considered as soil and environment pollutants. Even so, the individual and combined non-target effects of N fertilizers and herbicides on multitrophic interactions within agrosystems are not well known. From soil samples collected in the field, we examined the effects of the direct application of glyphosate and/or N fertilization on microbial activities and soil nutrient status. In addition, we investigated the increase in biomass and, nutrient acquisition of the bean (Phaseolus vulgaris) and the consequences of the applications of N and glyphosate on the performance of the herbivore aphid (Aphis fabae). From soils that did (N+) or did not receive (N0) synthetic N fertilization over a 6-year period, we assessed the effects of glyphosate (CK, without glyphosate; FR, field rate of glyphosate) and N fertilization (N+, with N fertilization; N0, without N fertilization) applications in a mesocosm experiment for 75-days. Following the 75 day treatment, the biological and physiological consequences, both belowground and aboveground were determined. The growth of arbuscular mycorrhizal fungi (AMF) and dehydrogenase activity, were negatively affected following N+ fertilization and the application of the FR of glyphosate, while in the absence of glyphosate, alkaline phosphatase (AIP) activity was reduced. Functional microbial responses were unaffected by both N and glyphosate, even when applied in combination. Conversely, the N fertilization significantly increased the nitrate content (NO3−) in the CK soils and the total N in the FR soils, compared to CK/N0 and FR/N0 soils. The combined effects of glyphosate and nitrogen fertilization (FR/N+) significantly decreased the soil C:N ratio, but significantly increased nitrification compared to CK/N0 and FR/N0 soils. The FR/N+ treatments positively affected plant performance, improving the total chlorophyll, sucrose, ammonium, amino acid content, and pod biomass, compared to the CK/N0 and FR/N0 soils. Unlike glyphosate, which did not appear to exert an effect when applied alone or in combination, N fertilization significantly increased aphid nymph survival. The non-metric multidimensional scale allowed us to establish belowground and aboveground interactions with glyphosate and N fertilization. We conclude that glyphosate and N fertilization have negative effects on soil microflora and potential pests, but do not necessarily affect belowground and aboveground interactions, and may offer equal or superior benefits to crop productivity.

Anthropogenic inputs of trace elements (TE) into soils constitute a major public and environmental health problem. Bioavailability of TE is strongly related to the soil physicochemical parameters and thus to the ecosystem type. In order to test whether soil parameters influence the response of the bacterial community to TE pollution, we collected soil samples across contrasting ecosystems (hardwood, coniferous and hydromorphic soils), which have been contaminated in TE and especially lead (Pb) over several decades due to nearby industrial smelting activities. Bacterial community composition was analysed using high throughput amplicon sequencing and compared to the soil physicochemical parameters. Multivariate analyses of the pedological and biological data revealed that the bacterial community composition was affected by ecosystem type in the first place. An influence of the contamination level was also evidenced within each ecosystem. Despite the important variability in bacterial community structure, we found that specific bacterial groups such as γ-Proteobacteria, Verrucomicrobia and Chlamydiae showed a consistent response to Pb content across contrasting ecosystems. Verrucomicrobia were less abundant at high contamination level whereas Chlamydiae and γ-Proteobacteria were more abundant. We conclude that such groups and ratio's thereof can be considered as relevant bioindicators of Pb contamination.

A field study was conducted in northern France over two consecutive years to evaluate the combined effect of conventional tillage (CT) vs no till (NT) with or without cover crops (cc) and nitrogen (N) fertilization on various agronomic traits related to N use efficiency in winter wheat. Five years after conversion of CT to NT, significant increases in N use efficiency, N utilization efficiency, N agronomic efficiency, N partial factor productivity, N apparent recovery fraction and N remobilization were observed under three N fertilization regimes (0, 161, 215 kg ha−1). It was also observed that grain yield and grain N content were similar under CT and NT. The N nutrition index was higher under NT at the three rates of N fertilization. Moreover, N use efficiency related traits were increased in the presence of cc both under NT and CT. Thus, agronomic practices based on continuous NT in the presence of cc, appear to be promising strategies to increase N use efficiency in wheat, while reducing both the use and the loss of N-based fertilizers.

A two-year experiment was conducted in the field to measure the combined impact of tilling and N fertilization on various agronomic traits related to nitrogen (N) use efficiency and to grain yield in maize cultivated in the presence of a cover crop. Four years after conversion to no-till, a significant increase in N use efficiency N harvest index, N remobilization and N remobilization efficiency was observed both under no and high N fertilization conditions. Moreover, we observed that grain yield and grain N content were higher under no-till conditions only when N fertilizers were applied. Thus, agronomic practices based on continuous no-till appear to be a promising for increasing N use efficiency in maize.

Arbuscular mycorrhizal fungi (AMF) play a major role in the uptake of nutrients by agricultural plants. Nevertheless, some agricultural practices can interrupt fungal-plant signaling and thus impede the establishment of the mycorrhizal symbiosis. A field experiment performed over a 5-year period demonstrated that both the absence of tillage and of nitrogen (N) fertilization improved AMF colonization of wheat roots. Moreover, under no-till conditions, N uptake and aboveground biomass production did not vary significantly between N-fertilized and N-unfertilized plots. In contrast, both N uptake and above ground biomass were much lower when N fertilizer was not added during conventional tillage. This finding strongly suggests that for wheat, no-till farming is a sustainable agricultural system that allows a gradual reduction in N fertilizer use by promoting AMF functionality and at the same time increasing N uptake.

Synthetic nitrogen (N) fertilisers are widely used for enhancing agrosystem productivity and are thus thought to increase organic inputs from crop residues. However, many crop rotations have a low amount of organic residue returned to the soil since the whole aboveground crop biomass is harvested and exported. To compensate for such organic outputs and to improve soil quality, the introduction of winter cover crops in rotations has been suggested. A 4-year controlled field experiment was conducted to quantify the respective and combined effects of chemical N fertilisation and winter cover crops on plant productivity, organic carbon (C) and N inputs from crop residues and cover crops, changes in soil C and N concentrations, C:N ratio, soil mineral N, pH, soil moisture and soil bacterial biodiversity. A ploughing tillage system with low organic input was assessed, for which the main crops were spring wheat, green pea, forage maize, along with cover crops of different legume and non-legume species.N fertilisation did not have an impact on the aboveground biomass except following forage maize. Cover crops increased the total amount of C and N inputs, irrespective of N fertilisation which had no significant effect The soil N concentration decreased in all treatments, particularly when N fertilisers were applied under bare-fallow conditions. The latter treatment also caused decreased soil C concentrations (slightly increased in the other treatments) and decreased bacterial biodiversity (no change in the other treatments). Bacteria from the Proteobacteria and Bacterioidetes phyla were highly correlated with soil from fertilised bare fallow conditions. While Verrucomicrobia was characteristic of non-fertilised bare fallow soils, Acidobacteria and Cyanobacteria were associated with the high C and N concentrations present in soils following cover crop treatments. Taken together, these results demonstrate that in ploughing systems, under low organic restitution regimes, intensive N fertilisation decreases the diversity of the bacterial soil community and reduces soil C and N concentrations, but only in bare fallow conditions. There is a protective effect of winter cover crops against the deleterious effect of chemical N fertilisation on soil biodiversity and nutrient cycling, since they can maintain soil C and N concentrations. The use of winter cover crops containing legumes is thus a practice that is able to meet the criteria of a sustainable agriculture. (C) 2016 Elsevier B.V. All rights reserved.

Agricultural practices such as tillage, cover crops, and nitrogen (N) fertilization affect physico-chemical and biological soil parameters. However, these factors were often studied separately and their combined effects remain unclear, especially with respect to soil microbial functional diversity and carbon (C) and N content. Thereafter, we aim to assess the links between cropping systems and functional response of microbial communities by using a large range of soil chemical and biological measurements. A 5-yr field experiment was conducted in Northern France using a combination of three factors: i) no-till (NT) vs. conventional tillage (CT); ii) with or without winter cover crops (bare fallow; cover crops with a low prevalence of legumes; cover crop with a high prevalence of legumes); and iii) with or without N fertilization.C and N inputs from cover crops and crop residues, C and N content, enzyme activities, and microbial functional diversity in the topsoil (0-10 cm) were measured over an industrial crop rotation: wheat, pea, corn, wheat, flax. No-till combined with any of the cover crops was characterized by increased total soil organic C and N contents by more than 20% between 2010 and 2015. Dehydrogenase and urease activities were significantly greatest under NT, irrespective of the presence of cover crops. Cover crops without N fertilization under no-till led to higher microbial functional activity (faster carbohydrate and phenolic compound degradation) and diversity. Bare fallow had lower soil microbial functional diversity and C and N contents compared with soil under NT and cover crops. On the other hand, NT associated with cover crops allowed to maintain the soil in both C and N, and to promote microbial activities without N fertilization. In conclusion, winter cover crops and/or NT are sustainable agricultural practices resulting in a greater soil quality index. These results demonstrate that NT and use of standard cover crops or cover crops with legumes for 5 years under a low biomass return in industrial crop production have a positive effect on: i) upper soil C content and microbial enzymes, irrespective of N fertilization regime; ii) soil microbial functional diversity in the absence of N fertilization. (C) 2016 Elsevier B.V. All rights reserved.

Pectin methylesterases (PME, EC. 3.1.1.11) are enzymes that demethylesterify plant cell wall pectins in muro. In Arabidopsis thaliana, putative PME proteins are thought to be encoded by a 66-member gene family. This study used real-time RT-PCR to gain an overview of the expression of the entire family at eight silique developmental stages, in flower buds and in vegetative tissue in the Arabidopsis. Only 15% of the PMEs were not expressed at any of the developmental stages studied. Among expressed PMEs, expression data could be clustered into five distinct groups: 19 PMEs highly or uniquely expressed in floral buds, 4 PMEs uniquely expressed at mid-silique developmental stages, 16 PMEs highly or uniquely expressed in silique at late developmental stages, 16 PMEs mostly ubiquitously expressed, and 1 PME with a specific expression pattern, i.e. not expressed during early silique development. Comparison of expression and phylogenetic profiles showed that, within phylogenetic group 2, all but one PME belong to the floral bud expression group. Similar results were shown for a subset of one of the phylogenetic group, which differed from others by containing most of the PMEs that do not possess any PRO part next to their catalytic part. Expression data were confirmed by two promoter:GUS transgenic plant analysis revealing a PME expressed in pollen and one in young seeds. Our results highlight the high diversity of PME expression profiles. They are discussed with regard to the role of PMEs in fruit development and cell growth.

The regulatory region of the flax Lupme3 gene, which codes for a pectin methylesterase, contains two sequences (PB box) that are putative cis-active sequence elements thought to regulate transcription in pollen. The Lupme3 promoter was fused to the beta-glucuronidase (gus) reporter gene. The chimeric gene fusion was introduced into tobacco via Agrobacterium-mediated transformation. Expression of the reporter gene was monitored using a histochemical X-Gluc assay at different stages of pollen maturation and germination. The Lupme3 promoter was found to be active in germination-competent mature pollen and in pollen tube.

A cDNA of a flax (Linum usitatissimum) pectin methylesterase (PME) gene, Lupme3, was isolated by RACE-PCR. A partial sequence of this cDNA was inserted in antisense orientation downstream the cauliflower mosaic virus 35S promoter and introduced into the flax genome via Agrobacterium tumefaciens. Transgenic calli derived from the cocultivated explants were analysed for the antisense sequence expression, and for their PME activity as well as their degree of pectin methylesterification and level of bound cations in the cell wall. Expression of the antisense sequence was correlated with a decrease of sense transcripts and a decrease of the PME enzyme activity of cell extracts at pH 8.5. In transgenic cells, a slight increase of activity was observed at acidic pH (5.5), possibly due to a compensation phenomenon and a moderately basic isoform appeared on IEF of transgenic lines. A decrease of the bound potassium level was also noted.

Antisense transgenesis of tobacco (Nicotiana tabacum) with a partial flax (Linum usitatissimum L.) pectin methylesterase (Lupme3) cDNA sequence yielded plants with altered pollen content. Moreover, the characteristically sculptured cell wall surrounding the pollen grains was modified in transgenic tobacco plants: the wavy ornamentation was dramatically reduced, suggesting the involvement of the demethylation of pectin in the pollen cell wall-specific structure. Germination of pollen was decreased and the pollen tube surface aspect was also different in transgenic plants.