Les pesticides utilisés pour protéger les plantes des insectes nuisibles constituent une menace pour les organismes non cibles tels que les vers de terre. En raison de leur activité de bioturbation de sol, les vers de terre sont en contact direct avec les particules et les micro-organismes du sol, ainsi qu'avec les polluants, notamment les pesticides. L‘objectif de ce travail est d‘étudier (1) l‘effet d‘un organophosphoré (OP) «éthyl-parathion» sur la sensibilité de deux espèces de vers de terre endogés, Aporrectodea caliginosa et Allolobophora chlorotica; et (2) le rôle du microbiote intestinal, en synergie avec les voies de détoxification du ver de terre, dans la tolérance ou la détoxification des pesticides. Dans la première partie, les réponses biochimiques et comportementales ont montré que A. caliginosa est plus sensible à l'exposition à «l‘éthyl-parathion» que A. Chlorotica. Les résultats portent sur l‘analyse de biomarqueurs physiologiques (poids), biochimiques (AChE, CbEs, GST) et comportementaux (production de turricules et activité de creusement). Nous avons montré que la sensibilité de A. caliginosa semble liée à la sensibilité intrinsèque de l‘AChE à «l‘éthyl-parathion». De plus, le rôle des carboxylestérases, capables de piéger les insecticides OP, ainsi que le rôle de détoxification des GST notamment, ne semblaient pas être des mécanismes efficaces impliqués dans la tolérance de A. chlorotica. Dans la deuxième partie, nous avons caractérisé, en présence ou non d‘insecticide, le microbiote dans le sol ingéré, les turricules et les intestins des 2 vers de terre. Nos résultats ont montré des différences dans la composition microbienne de ces compartiments. A cet égard, nous avons suggéré que chacune de ces espèces hébergent un microbiote spécifique de l‘espèce dans leur intestin. Nos résultats ont notamment montré que l‘intestin du ver de terre agit comme un «filtre biologique» pour les communautés microbiennes ingérées lors du passage dans l‘intestin. A ce niveau, nous avons identifié, au niveau bactérien, quatre genres dominants dans l'intestin de A. caliginosa et deux genres dominants dans l'intestin de A. chlorotica. Nous avons notamment identifié une souche de Rhodococcus, très abondante dans l'intestin de A. chlorotica. Des études ont montré que des souches de Rhodococcus peuvent dégrader certains groupes de pesticides. Nous suggérons que la présence de cette souche pourrait contribuer à la tolérance de A. chlorotica. Enfin, nous avons montré que l‘effet de l‘éthyl-parathion sur les activités enzymatiques du sol dépend principalement de la texture du sol et non pas de la présence et/ou de l‘espèce de ver de terre.Selon nos conclusions, il est extrêmement important d'inclure plus d'une espèce pour évaluer la toxicité des insecticides organophosphorés, en raison des différences interspécifiques pouvant se produire au sein d'une même catégorie écologique. De plus, l'identification et l'analyse fonctionnelle des micro-organismes présents au niveau de l‘intestin et susceptibles d'intervenir dans la détoxication des pesticides permettraient d‘améliorer nos connaissances sur le devenir du pesticide dans l'organisme et pourraient constituer un outil important dans les programmes de bioremédiation. / Pesticides used to protect plants from pests, threat grievously non-target organisms such as earthworms. Due to their feeding and burrowing activities, earthworms are in direct contact with soil particles and microorganisms, as well as pollutants including pesticides. This work investigated (1) the effect of an organophosphate “ethyl-parathion” on the sensitivity of two endogeic earthworms’ species, Aporrectodea caliginosa and Allolobophora chlorotica; and (2) the role of the gut-microbiota, in synergy with the earthworm’s detoxification pathways, in pesticide tolerance or detoxification. In the first part, biochemical and behavioral responses showed that A. caliginosa is more sensitive to “ethyl-parathion” exposure than A. chlorotica. The endpoints measured ranged from physiological (weight), biochemical (AChE, CbEs, GST) to behavioral biomarkers (cast production and burrowing activity). Our findings showed that the sensitivity of A. caliginosa could be mainly due to the intrinsic sensitivity of its AChE to “ethyl-parathion”. The role of the carboxylesterases, acting as bioscavenger of OP, and the role of the detoxifying enzymes GST did not appear to be efficient mechanisms involved in A. chlorotica tolerance. In the second part, we aimed to characterize the microbiome within the ingested soil, the cast and the gut tissue of A. caliginosa and A. chlorotica in control or polluted soils. Our results showed differences in the microbial composition between these compartments. In this line, we suggested that these two earthworms’ species harbor a species-specific microbiome in their gut. In particular, our findings showed that the earthworm’s gut acts as a “biological filter” for ingested microbial communities during the gut passage. At the level of the gut, we identified four dominated genus within the gut of A. caliginosa versus two dominated genus in the gut of A. chlorotica. Notably, we identified a Rhodococcus strain, which is highly abundant in the gut of A. chlorotica. Previous studies reported Rhodococcus strains for their ability to degrade some group of pesticides. We suggest that the presence of this strain could contribute to the tolerance of A. chlorotica. Finally, we showed that the effect of ethyl-parathion on soil enzyme activities mainly depend on soil texture rather than the presence and/or the species of earthworms. According to our findings, it is of considerable importance to include more than one species to assess toxicity from organophosphorus insecticides, due to the interspecific differences that can occur within the same ecological category. Moreover, the identification and the functional analysis of the microorganisms found in the earthworm’s gut and able to intervene in pesticide detoxification could enhance our knowledge about the fate of the pesticide inside the organism, and could be an important tool for bioremediation program.

Agriculture is the principal land use throughout Europe and agricultural intensification has been implicated in large reductions in biodiversity, with the negative effects on birds particularly well documented. The lapwing (Vanellus vanellus) is one such species where changes in farming practices has reduced the suitability and quality of breeding habitat, leading to a drop in population size that has been so severe as to warrant its addition to the Red List of Birds of Conservation Concern in the UK. Lowland areas, where agricultural intensification has generally been most pronounced, have been worst affected, however, more recently declines in marginal upland areas, previously considered refuges for breeding wader populations, have been identified. An upland livestock farm in Stirlingshire that uses an in-bye system of fodder crop management and has unusually high densities of breeding lapwings provides a basis for this project to test causal hypotheses for the decline of upland lapwing populations and to identify potential conservation management solutions. Specifically this farm plants a forage brassica in an in-bye field for two consecutive years, followed by reseeding with grass and seven, out of sixteen, in-bye fields have undergone this regime at the study site since 1997. Fields that had undergone fodder crop management supported almost 60% more lapwings than comparable fields that had not previously been planted with the fodder crop. Lapwing density was highest in the year after the fodder crop was planted, once it had been grazed, which results in a high percentage of bare ground, likely to be attractive to nesting lapwings. Lapwing densities remained above that which occurred in fields that had not undergone fodder crop management for a further four years after the field had been returned to grass. The effect of management on lapwing food resources and nesting structure was tested through a field experiment; liming increased the abundance of Allolobophora chlorotica, an earthworm species that was associated with chick foraging location at the study site, suggesting that lapwings may benefit from liming conducted as part of fodder crop management. The relationship between lapwings and soil pH is further explored across 89 sites on mainland Scotland, using soil property data to improve the predictive power of habitat association models, something which has not previously been done for any farmland bird. Adding soil and topographical data to habitat models, based on established relationships between breeding lapwings and their habitat, improved model fit by almost 60%, indicating that soil properties influence the distribution of this species. The density of breeding lapwings was highest at higher altitude sites, but only when the soil was relatively less peaty and less acidic, providing further support for the hypothesis that agricultural liming benefits lapwings. In addition to assessing the conservation benefit of fodder crop management, the economic costs are also considered. Fodder crop management provides a source of livestock fodder in the autumn and winter during a period when forage demands outstrip grass growth, and ultimately improves the grazing quality of the grass that is replaced; this system currently operates outside of any agri-environment scheme (AES). However, at the study site, planting of the fodder crop and grass is delayed to avoid agriculture operations during the breeding season, which reduces yield and hence profitability. An initial estimate of £200 ha-1 is suggested as an incentive to encourage wider adoption of fodder crop management in a “lapwing friendly” manner, although further work is required to determine if this payment level is appropriate and the current method of AES implementation may limit the suitability of fodder crop management as an AES. The results indicate that agricultural liming could benefit breeding lapwings in pasture fields where soil pH falls below pH 5.2, by increasing earthworm abundance. Where soil pH is below pH 5.2, liming should provide a cost effective mechanism for farmers to improve grass yields. Regular soil testing and liming in response to low pH, within improved or semi-improved grassland fields, where management activities such as use of nitrogen fertiliser can contribute to soil acidification, should be advocated to farmers in marginal areas as a mechanism for improving grass productivity whilst potentially benefitting breeding lapwing and other species where earthworms contribute significantly to their diet.