Santé et Agroécologie du Vignoble

Human land use threatens global biodiversity and compromises multiple ecosystem functions critical to food production. Whether crop yield-related ecosystem services can be maintained by a few dominant species or rely on high richness remains unclear. Using a global database from 89 studies (with 1475 locations), we partition the relative importance of species richness, abundance, and dominance for pollination; biological pest control; and final yields in the context of ongoing land-use change. Pollinator and enemy richness directly supported ecosystem services in addition to and independent of abundance and dominance. Up to 50% of the negative effects of landscape simplification on ecosystem services was due to richness losses of service-providing organisms, with negative consequences for crop yields. Maintaining the biodiversity of ecosystem service providers is therefore vital to sustain the flow of key agroecosystem benefits to society.

Managing agricultural landscapes to support biodiversity and ecosystem services is a key aim of a sustainable agriculture. However, how the spatial arrangement of crop fields and other habitats in landscapes impacts arthropods and their functions is poorly known. Synthesising data from 49 studies (1515 landscapes) across Europe, we examined effects of landscape composition (% habitats) and configuration (edge density) on arthropods in fields and their margins, pest control, pollination and yields. Configuration effects interacted with the proportions of crop and non-crop habitats, and species' dietary, dispersal and overwintering traits led to contrasting responses to landscape variables. Overall, however, in landscapes with high edge density, 70% of pollinator and 44% of natural enemy species reached highest abundances and pollination and pest control improved 1.7- and 1.4-fold respectively. Arable-dominated landscapes with high edge densities achieved high yields. This suggests that enhancing edge density in European agroecosystems can promote functional biodiversity and yield-enhancing ecosystem services.

Fermented beverages and foods have played a significant role in most societies worldwide for millennia. To better understand how the yeast species Saccharomyces cerevisiae, the main fermenting agent, evolved along this historical and expansion process, we analysed the genetic diversity among 651 strains from 56 different geographical origins, worldwide. Their genotyping at 12 microsatellite loci revealed 575 distinct genotypes organized in subgroups of yeast types, i.e. bread, beer, wine, sake. Some of these groups presented unexpected relatedness: Bread strains displayed a combination of alleles intermediate between beer and wine strains, and strains used for rice wine and sake were most closely related to beer and bread strains. However, up to 28% of genetic diversity between these technological groups was associated with geographical differences which suggests local domestications. Focusing on wine yeasts, a group of Lebanese strains were basal in an F(ST) tree, suggesting a Mesopotamia-based origin of most wine strains. In Europe, migration of wine strains occurred through the Danube Valley, and around the Mediterranean Sea. An approximate Bayesian computation approach suggested a postglacial divergence (most probable period 10,000-12,000 bp). As our results suggest intimate association between man and wine yeast across centuries, we hypothesize that yeast followed man and vine migrations as a commensal member of grapevine flora.

This review considers the cascade of events that link injuries caused by plant pathogens on crop stands to possible (quantitative and qualitative) crop losses (damage), and to the resulting economic losses. To date, much research has focused on injury control to prevent this cascade of events from occurring. However, this cascade involves a complex succession of components and processes whereby knowledge on crop loss generates entry points for management. Proposed here is a framework linking different types of knowledge on crop loss to a range of decision categories, from tactical to strategic short- or long-term. Important advances in this field are now under way, including a probabilistic treatment of the injury-damage relationship, or analyses of the sources of uncertainty attached to some components of the decision process. Management of injury profiles, rather than individual injuries, and shifts in dimensionality of crop losses are anticipated to contribute to the design of sustainable agricultural systems, and address global issues concerning food security and food safety.

Abstract Research in global change ecology relies heavily on global climatic grids derived from estimates of air temperature in open areas at around 2 m above the ground. These climatic grids do not reflect conditions below vegetation canopies and near the ground surface, where critical ecosystem functions occur and most terrestrial species reside. Here, we provide global maps of soil temperature and bioclimatic variables at a 1‐km 2 resolution for 0–5 and 5–15 cm soil depth. These maps were created by calculating the difference (i.e. offset) between in situ soil temperature measurements, based on time series from over 1200 1‐km 2 pixels (summarized from 8519 unique temperature sensors) across all the world's major terrestrial biomes, and coarse‐grained air temperature estimates from ERA5‐Land (an atmospheric reanalysis by the European Centre for Medium‐Range Weather Forecasts). We show that mean annual soil temperature differs markedly from the corresponding gridded air temperature, by up to 10°C (mean = 3.0 ± 2.1°C), with substantial variation across biomes and seasons. Over the year, soils in cold and/or dry biomes are substantially warmer (+3.6 ± 2.3°C) than gridded air temperature, whereas soils in warm and humid environments are on average slightly cooler (−0.7 ± 2.3°C). The observed substantial and biome‐specific offsets emphasize that the projected impacts of climate and climate change on near‐surface biodiversity and ecosystem functioning are inaccurately assessed when air rather than soil temperature is used, especially in cold environments. The global soil‐related bioclimatic variables provided here are an important step forward for any application in ecology and related disciplines. Nevertheless, we highlight the need to fill remaining geographic gaps by collecting more in situ measurements of microclimate conditions to further enhance the spatiotemporal resolution of global soil temperature products for ecological applications.

Most plant viruses rely on vector organisms for their plant-to-plant spread. Although there are many different natural vectors, few plant virus-vector systems have been well studied. This review describes our current understanding of virus transmission by aphids, thrips, whiteflies, leafhoppers, planthoppers, treehoppers, mites, nematodes, and zoosporic endoparasites. Strategies for control of vectors by host resistance, chemicals, and integrated pest management are reviewed. Many gaps in the knowledge of the transmission mechanisms and a lack of available host resistance to vectors are evident. Advances in genome sequencing and molecular technologies will help to address these problems and will allow innovative control methods through interference with vector transmission. Improved knowledge of factors affecting pest and disease spread in different ecosystems for predictive modeling is also needed. Innovative control measures are urgently required because of the increased risks from vector-borne infections that arise from environmental change.

Forests constitute important ecosystems in the global carbon cycle. However, how trees and environmental conditions interact to determine the amount of organic carbon stored in forest soils is a hotly debated subject. In particular, how tree species influence soil organic carbon (SOC) remains unclear. Based on a global compilation of data, we show that functional traits of trees and forest standing biomass explain half of the local variability in forest SOC. The effects of functional traits on SOC depended on the climatic and soil conditions with the strongest effect observed under boreal climate and on acidic, poor, coarse-textured soils. Mixing tree species in forests also favours the storage of SOC, provided that a biomass over-yielding occurs in mixed forests. We propose that the forest carbon sink can be optimised by (i) increasing standing biomass, (ii) increasing forest species richness, and (iii) choosing forest composition based on tree functional traits according to the local conditions.

Summary Increasing landscape complexity can enhance biodiversity and ecosystem services in agroecosystems. However, policies based on conversion of arable land into semi‐natural habitats to increase landscape complexity and ecosystem services can be difficult to implement. Although it appears to be a promising management option, nothing is known about the effect of increasing landscape diversity through crop rotations on the delivery of ecosystem services. In this study, we examined how landscape complexity and crop rotation intensity in the landscape at different spatial scales affect the flow and the stability of natural pest control services in barley fields using manipulative cage experiments. Exclusion experiments revealed that natural enemies can have a strong impact on aphid population growth and that the delivery of pest control services is strongly dependent on the landscape context. We found that the overall level of pest control increased with landscape complexity and that this effect was independent of crop rotation intensity. In addition, the within‐field stability in pest control services increased with crop rotation intensity in the landscape, although stability in parasitism rates decreased. Multiple spatial scales analyses showed that the mean level of natural pest control was best predicted by landscape complexity at the 0·5‐km and the 1‐km spatial scales. The stability in overall pest control decreased with proportion of ley at the 2·5‐km and the 3‐km spatial scales. Synthesis and applications . Our study disentangled, for the first time, the relative effects of landscape complexity and crop rotation intensity on the delivery of an ecosystem service. We show that combined management of semi‐natural habitat and crop rotation can stabilize and enhance natural pest control in agricultural landscapes. Our findings have important implications in terms of management options to maintain and enhance ecosystem services in agroecosystems. They suggest that conservation of heterogeneous landscapes, characterized by a higher proportion of semi‐natural habitats such as pastures and relatively small fields, is essential for maintaining and enhancing effective biological control in agroecosystems.

Recent studies projecting future climate change impacts on forests mainly consider either the effects of climate change on productivity or on disturbances. However, productivity and disturbances are intrinsically linked because 1) disturbances directly affect forest productivity (e.g. via a reduction in leaf area, growing stock or resource-use efficiency), and 2) disturbance susceptibility is often coupled to a certain development phase of the forest with productivity determining the time a forest is in this specific phase of susceptibility. The objective of this paper is to provide an overview of forest productivity changes in different forest regions in Europe under climate change, and partition these changes into effects induced by climate change alone and by climate change and disturbances. We present projections of climate change impacts on forest productivity from state-of-the-art forest models that dynamically simulate forest productivity and the effects of the main European disturbance agents (fire, storm, insects), driven by the same climate scenario in seven forest case studies along a large climatic gradient throughout Europe. Our study shows that, in most cases, including disturbances in the simulations exaggerate ongoing productivity declines or cancel out productivity gains in response to climate change. In fewer cases, disturbances also increase productivity or buffer climate-change induced productivity losses, e.g. because low severity fires can alleviate resource competition and increase fertilization. Even though our results cannot simply be extrapolated to other types of forests and disturbances, we argue that it is necessary to interpret climate change-induced productivity and disturbance changes jointly to capture the full range of climate change impacts on forests and to plan adaptation measures.

Abstract. Land surface models rarely incorporate the terrestrial phosphorus cycle and its interactions with the carbon cycle, despite the extensive scientific debate about the importance of nitrogen and phosphorus supply for future land carbon uptake. We describe a representation of the terrestrial phosphorus cycle for the ORCHIDEE land surface model, and evaluate it with data from nutrient manipulation experiments along a soil formation chronosequence in Hawaii. ORCHIDEE accounts for the influence of the nutritional state of vegetation on tissue nutrient concentrations, photosynthesis, plant growth, biomass allocation, biochemical (phosphatase-mediated) mineralization, and biological nitrogen fixation. Changes in the nutrient content (quality) of litter affect the carbon use efficiency of decomposition and in return the nutrient availability to vegetation. The model explicitly accounts for root zone depletion of phosphorus as a function of root phosphorus uptake and phosphorus transport from the soil to the root surface. The model captures the observed differences in the foliage stoichiometry of vegetation between an early (300-year) and a late (4.1 Myr) stage of soil development. The contrasting sensitivities of net primary productivity to the addition of either nitrogen, phosphorus, or both among sites are in general reproduced by the model. As observed, the model simulates a preferential stimulation of leaf level productivity when nitrogen stress is alleviated, while leaf level productivity and leaf area index are stimulated equally when phosphorus stress is alleviated. The nutrient use efficiencies in the model are lower than observed primarily due to biases in the nutrient content and turnover of woody biomass. We conclude that ORCHIDEE is able to reproduce the shift from nitrogen to phosphorus limited net primary productivity along the soil development chronosequence, as well as the contrasting responses of net primary productivity to nutrient addition.

BACKGROUND: Natural disease resistance is a cost-effective and environmentally friendly way of controlling plant disease. Breeding programmes need to make sure that the resistance deployed is effective and durable. Grapevine downy mildew, caused by the Oomycete Plasmopara viticola, affects viticulture and it is controlled with pesticides. Downy mildew resistant grapevine varieties are a promising strategy to control the disease, but their use is currently restricted to very limited acreages. The arising of resistance-breaking isolates under such restricted deployment of resistant varieties would provide valuable information to design breeding strategies for the deployment of resistance genes over large acreages whilst reducing the risks of the resistance being defeated. The observation of heavy downy mildew symptoms on a plant of the resistant variety Bianca, whose resistance is conferred by a major gene, provided us with a putative example of emergence of a resistance-breaking isolate in the interaction between grapevine and P. viticola. RESULTS: In this paper we describe the emergence of a P. viticola isolate (isolate SL) that specifically overcomes Rpv3, the major resistance gene carried by Bianca at chromosome 18. We show that isolate SL has the same behaviour as two P. viticola isolates avirulent on Bianca (isolates SC and SU) when inoculated on susceptible plants or on resistant plants carrying resistances derived from other sources, suggesting there is no fitness cost associated to the virulence. Molecular analysis shows that all three isolates are genetically closely related. CONCLUSIONS: Our results are the first description of a resistance-breaking isolate in the grapevine/P. viticola interaction, and show that, despite the reduced genetic variability of P. viticola in Europe compared to its basin of origin and the restricted use of natural resistance in European viticulture, resistance-breaking isolates overcoming monogenic resistances may arise even in cases where deployment of the resistant varieties is limited to small acreages. Our findings represent a warning call for the use of resistant varieties and an incentive to design breeding programmes aiming to optimize durability of the resistances.

Water stored underground in the saturated and subsurface zones below the soil are important sources of water for plants in water-limited ecosystems. The presence of deep-rooted plants worldwide, however, suggests that the use of groundwater is not restricted to arid and seasonally dry ecosystems. We compiled the available data (71 species) on the relative contribution of groundwater to plant water estimated using stable isotopes and mixing models, which provided information about relative groundwater use, and analyzed their variation across different climates, seasons, plant types, edaphic conditions, and landscape positions. Plant use of groundwater was more likely at sites with a pronounced dry season, and represented on average 49 per cent of transpired water in dry seasons and 28 per cent in wet seasons. The relative contribution of groundwater to plant-water uptake was higher on rocky substrates (saprolite, fractured bedrock), which had reduced groundwater uptake when this source was deep belowground. In addition, we found that the connectivity between groundwater pools and plant water may be quantitatively larger and more widespread than reported by recent global estimations based on isotopic averaged values. Earth System Models should account for the feedbacks between transpiration and groundwater recharge.

Abstract Interactions of grape (Vitis vinifera L) seed procyanidin dimers and trimers, galloylated or not, with various proteins (poly‐L‐prolines, gelatins, casein, dried blood and grape arabinogalactan‐protein) were studied in wine‐like model solutions. Except for casein, protein‐procyanidin complexes were produced within the first 8 h of contact. All poly‐L‐prolines presented very high affinity towards grape seed procyanidins. In general, the extent of pro‐cyanidin‐protein interaction increased with the degree of procyanidin polymerisation and the rate of galloylation, and also with protein concentration. When various protein fining treatments were applied to a young red wine, dimeric and trimeric procyanidin levels were not affected, although total phenolic levels were reduced.

Quinone outside inhibiting (QoI) fungicides represent one of the most widely used groups of fungicides used to control agriculturally important fungal pathogens. They inhibit the cytochrome bc1 complex of mitochondrial respiration. Soon after their introduction onto the market in 1996, QoI fungicide-resistant isolates were detected in field plant pathogen populations of a large range of species. However, there is still little understanding of the processes driving the development of QoI fungicide resistance in plant pathogens. In particular, it is unknown whether fungicide resistance occurs independently in isolated populations or if it appears once and then spreads globally by migration. Here, we provide the first case study of the evolutionary processes that lead to the emergence of QoI fungicide resistance in the plant pathogen Plasmopara viticola. Sequence analysis of the complete cytochrome b gene showed that all resistant isolates carried a mutation resulting in the replacement of glycine by alanine at codon 143 (G143A). Phylogenetic analysis of a large mitochondrial DNA fragment including the cytochrome b gene (2,281 bp) across a wide range of European P. viticola isolates allowed the detection of four major haplotypes belonging to two distinct clades, each of which contains a different QoI fungicide resistance allele. This is the first demonstration that a selected substitution conferring resistance to a fungicide has occurred several times in a plant-pathogen system. Finally, a high population structure was found when the frequency of QoI fungicide resistance haplotypes was assessed in 17 French vineyards, indicating that pathogen populations might be under strong directional selection for local adaptation to fungicide pressure.

The European Food Safety Authority concluded in February 2018 that "most uses of neonicotinoid insecticides represent a risk to wild bees and honeybees". In 2016, the French government passed a law banning the use of the five neonicotinoids previously authorized: clothianidin, imidacloprid, thiamethoxam, acetamiprid and thiacloprid. In the framework of an expert assessment conducted by the French Agency for Food, Environmental and Occupational Health and Safety to identify possible derogations, we performed a thorough assessment of the available alternatives to the five banned neonicotinoids. For each pest targeted by neonicotinoids use, we identified the main alternative pest management methods, which we then ranked for (i) efficacy for controlling the target pest, (ii) applicability (whether directly useable by farmers or in need of further research and development), (iii) durability (risk of resistance in targeted pests), and (iv) practicability (ease of implementation by farmers). We identified 152 authorized uses of neonicotinoids in France, encompassing 120 crops and 279 pest insect species (or genera). An effective alternative to neonicotinoids use was available in 96% of the 2968 case studies analyzed from the literature (single combinations of one alternative pest control method or product × one target crop plant × one target pest insect). The most common alternative to neonicotinoids (89% of cases) was the use of another chemical insecticide (mostly pyrethroids). However, in 78% of cases, at least one non-chemical alternative method could replace neonicotinoids (e.g. microorganisms, semiochemicals or surface coating). The relevance of non-chemical alternatives to neonicotinoids depends on pest feeding habits. Leaf and flower feeders are easier to control with non-chemical methods, whereas wood and root feeders are more difficult to manage by such methods. We also found that further field studies were required for many promising non-chemical methods before their introduction into routine use by farmers. Our findings, transmitted to policymakers, indicate that non-chemical alternatives to neonicotinoids do exist. Furthermore, they highlight the need to promote these methods through regulation and funding, with a view to reducing pesticide use in agriculture.

A geometrical canopy model describing radiation absorption (Riou et al. 1989, Agronomie 9, 441-450) and partitioning between grapevines (Vitis vinifera L.) and soil was coupled to a soil water balance routine describing a bilinear change in relative transpiration rate as a function of the fraction of soil transpirable water (FTSW). The model was amended to account for changes in soil evaporation after precipitation events and subsequent dry-down of the top soil layer. It was tested on two experimental vineyards in the Alsace region, France, varying in soil type, water-holding capacity and rooting depth. Simulations were run over four seasons (1992-1993, 1995-1996) and compared with measurements of FTSW conducted with a neutron probe. For three out of four years, the model simulated the dynamics in seasonal soil water balance adequately. For the 1996 season soil water content was overestimated for one vineyard and underestimated for the other. Sensitivity analyses revealed that the model responded strongly to changes in canopy parameters, and that soil evaporation was particularly sensitive to water storage of the top soil layer after rainfall. We found a close relationship between field-average soil water storage and pre-dawn water potential, a relationship which could be used to couple physiological models of growth and / or photosynthesis to the soil water dynamics.

Abstract Soil invertebrate communities represent a significant fraction of global biodiversity and play crucial roles in ecosystems. A number of human activities threaten soil communities, in particular intensive agricultural practices such as pesticide use. However, there is currently no quantitative synthesis of the impacts of pesticides on soil fauna communities. Here, using a meta‐analysis of 54 studies and 294 observations, we quantify pesticide effects on the abundance, biomass, richness and diversity of natural soil fauna communities across a wide range of environmental contexts. We also identify scenarios with the most detrimental effects on soil fauna communities by analysing the effects of different pesticides (herbicides, fungicides, insecticides, broad‐spectrum substances and multiple substances), different application rates and temporal extents (short‐ or long‐term), as well as the response of different functional groups of soil animals (body size categories, presence of exoskeleton). Pesticides overall decreased the abundance and diversity of soil fauna communities across studies (Grand mean effect size (Hedge's g ) = −0.30 +/− 0.16) and had stronger effects on soil fauna diversity than abundance. The most detrimental scenarios involved multiple substances, broad‐spectrum substances and insecticides, which significantly decreased soil fauna diversity even at recommended rates. We found no evidence that pesticide effects dampen over time, as short‐term and long‐term studies exhibited similar mean effect sizes. Policy implications : Our study highlights that pesticide use has significant detrimental non‐target effects on soil biodiversity, eroding a substantial part of global biodiversity and threatening ecosystem health. This provides crucial evidence supporting recent policies, such as the European Green Deal, that aim to reduce pesticide use in agriculture to conserve biodiversity. The detrimental effects of multiple substances revealed here are particularly concerning because realistic pesticide use often combines several substances targeting different pests and diseases over the crop season. We suggest that future guidelines for pesticide registration, restrictions and banning should rely on data able to fully capture the long‐term consequences of multiple substances for multiple non‐target species in realistic conditions.

Grapevines are crops of global economic importance that will face increasing drought stress because many varieties are described as highly sensitive to hydraulic failure as frequency and intensity of summer drought increase. We developed and used novel approaches to define water stress thresholds for preventing hydraulic failure, which were compared to the drought stress experienced over a decade in two of the world's top wine regions, Napa and Bordeaux. We identified the physiological thresholds for drought-induced mortality in stems and leaves and found small intervarietal differences. Long-term observations in Napa and Bordeaux revealed that grapevines never reach their lethal water-potential thresholds under seasonal droughts, owing to a vulnerability segmentation promoting petiole embolism and leaf mortality. Our findings will aid farmers in reducing water use without risking grapevine hydraulic integrity.

Abstract In agricultural landscapes, arthropods provide essential ecosystem services such as biological pest control and pollination. Intensified crop management practices and homogenization of landscapes have led to declines among such organisms. Semi‐natural habitats, associated with high numbers of these organisms, are increasingly lost from agricultural landscapes but diversification by increasing crop diversity has been proposed as a way to reverse observed arthropod declines and thus restore ecosystem services. However, whether or not an increase in the diversity of crop types within a landscape promotes diversity and abundances of pollinating and predaceous arthropods, and how semi‐natural habitats might modify this relationship, are not well understood. To test how crop diversity and the proportion of semi‐natural habitats within a landscape are related to the diversity and abundance of beneficial arthropod communities, we collected primary data from seven studies focusing on natural enemies (carabids and spiders) and pollinators (bees and hoverflies) from 154 crop fields in Southern Sweden between 2007 and 2017. Crop diversity within a 1‐km radius around each field was positively related to the Shannon diversity index of carabid and pollinator communities in landscapes rich in semi‐natural habitats. Abundances were mainly affected by the proportion of semi‐natural habitats in the landscape, with decreasing carabid and increasing pollinator numbers as the proportion of this habitat type increased. Spiders showed no response to either crop diversity or the proportion of semi‐natural habitats. Synthesis and applications . We show that the joint effort of preserving semi‐natural habitats and promoting crop diversity in agricultural landscapes is necessary to enhance communities of natural enemies and pollinators. Our results suggest that increasing the diversity of crop types can contribute to the conservation of service‐providing arthropod communities, particularly if the diversification of crops targets complex landscapes with a high proportion of semi‐natural habitats.

The effects of powdery mildew ( Uncinula necator ) on grape yield, juice and wine quality were quantified for cultivar Cabernet Sauvignon (CSa) in 1997 and 1999, and for Sauvignon blanc (Sa) in 1999. Analyses were carried out on batches of healthy berries to which known percentages (0–50%) of diseased berries were added, and on natural clusters that were classified into four visual classes from low (C 1 ) to high (C 4 ) disease severity. CSa diseased berries showed an average weight reduction of 12% (1997) and 20% (1999). The direct consequence of a higher percentage of smaller, diseased berries was a reduction in yield. The accompanying loss of weight in must from C 1 to C 4 clusters increased from 10 to 45%. Sugar content in diseased berries was not significantly different from disease‐free berries in 1997, but was 20–21% (CSa) and 14% (Sa) higher in 1999. Severely infected batches also showed a higher total acidity than healthy ones. The total anthocyanin content of CSa was decreased by 0·91% (1997) and 0·66% (1999) per percentage mildewed berries added by weight. In Sa wines the concentration of 3‐mercaptohexanol, a component of varietal aroma, was decreased by powdery mildew. Multidimensional analyses, based on all the variables studied, successfully grouped batches of CSa according to disease severity. Using directional triangular tests wine experts were able to recognize CSa wines produced from berries with ≈25% of powdery mildew; the threshold for nonexperts was 50%. CSa wines obtained from samples with more than 30% of diseased berries by weight were significantly classified as the worst according to preference order criteria, but below this value the preference was not significant. Sa wines with <50% mildewed berries could not be differentiated significantly by organoleptic tests performed by nonprofessionals.