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Investigating crop diversity through genome-wide association studies (GWAS) on core collections helps in deciphering the genetic determinants of complex quantitative traits. Using the G2P-SOL project world collection of 10 038 wild and cultivated Capsicum accessions from 10 major genebanks, we assembled a core collection of 423 accessions representing the known genetic diversity. Since complex traits are often highly dependent upon environmental variables and genotype-by-environment (G × E) interactions, multi-environment GWAS with a 10 195-marker genotypic matrix were conducted on a highly diverse subset of 350 Capsicum annuum accessions, extensively phenotyped in up to six independent trials from five climatically differing countries. Environment-specific and multi-environment quantitative trait loci (QTLs) were detected for 23 diverse agronomic traits. We identified 97 candidate genes potentially implicated in 53 of the most robust and high-confidence QTLs for fruit flavor, color, size, and shape traits, and for plant productivity, vigor, and earliness traits. Investigating the genetic architecture of agronomic traits in this way will assist the development of genetic markers and pave the way for marker-assisted selection. The G2P-SOL pepper core collection will be available upon request as a unique and universal resource for further exploitation in future gene discovery and marker-assisted breeding efforts by the pepper community.

Investigating crop diversity through genome-wide association studies (GWAS) on core collections helps in deciphering the genetic determinants of complex quantitative traits. Using the G2P-SOL project world collection of 10 038 wild and cultivated Capsicum accessions from 10 major genebanks, we assembled a core collection of 423 accessions representing the known genetic diversity. Since complex traits are often highly dependent upon environmental variables and genotype-by-environment (G × E) interactions, multi-environment GWAS with a 10 195-marker genotypic matrix were conducted on a highly diverse subset of 350 Capsicum annuum accessions, extensively phenotyped in up to six independent trials from five climati-cally differing countries. Environment-specific and multi-environment quantitative trait loci (QTLs) were detected for 23 diverse agronomic traits. We identified 97 candidate genes potentially implicated in 53 of the most robust and high-confidence QTLs for fruit flavor, color, size, and shape traits, and for plant productivity, vigor, and earliness traits. Investigating the genetic architecture of agronomic traits in this way will assist the development of genetic markers and pave the way for marker-assisted selection. The G2P-SOL pepper core collection will be available upon request as a unique and universal resource for further exploitation in future gene discovery and marker-assisted breeding efforts by the pepper community.

The French National Research Institute for Agriculture, Food and the Environment (INRAE) conserves and distributes five vegetable collections as seeds: the aubergine* (in this article the word aubergine refers to eggplant), pepper, tomato, melon and lettuce collections, together with their wild or cultivated relatives, are conserved in Avignon, France. Accessions from the collections have geographically diverse origins, are generally well-described and fixed for traits of agronomic or scientific interest and have available passport data. In addition to currently conserving over 10,000 accessions (between 900 and 3000 accessions per crop), the centre maintains scientific collections such as core collections and bi- or multi-parental populations, which have also been genotyped with SNP markers. Each collection has its own merits and highlights, which are discussed in this review: the aubergine collection is a rich source of crop wild relatives of Solanum; the pepper, melon and lettuce collections have been screened for resistance to plant pathogens, including viruses, fungi, oomycetes and insects; and the tomato collection has been at the heart of genome-wide association studies for fruit quality traits and environmental stress tolerance.

The French National Research Institute for Agriculture, Food and the Environment (INRAE) conserves and distributes five vegetable collections as seeds: the aubergine* (in this article the word aubergine refers to eggplant), pepper, tomato, melon and lettuce collections, together with their wild or cultivated relatives, are conserved in Avignon, France. Accessions from the collections have geographically diverse origins, are generally well-described and fixed for traits of agronomic or scientific interest and have available passport data. In addition to currently conserving over 10,000 accessions (between 900 and 3000 accessions per crop), the centre maintains scientific collections such as core collections and bi- or multi-parental populations, which have also been genotyped with SNP markers. Each collection has its own merits and highlights, which are discussed in this review: the aubergine collection is a rich source of crop wild relatives of Solanum; the pepper, melon and lettuce collections have been screened for resistance to plant pathogens, including viruses, fungi, oomycetes and insects; and the tomato collection has been at the heart of genome-wide association studies for fruit quality traits and environmental stress tolerance.

In organic apple orchards, sanitation practices are a keystone of a sustainable scab management. Because the suppression of the inoculum by leaf litter removal could be a promising practice, we carried out an experiment to assess the interest of leaf removal versus leaf shredding on disease development and fruit damages. For one of the two cultivars studied, we showed that leaf litter removal can significantly decrease scab damages on fruit and leaf in comparison to leaf shredding.

In organic apple orchards, sanitation practices are a keystone of a sustainable scab management. Because the suppression of the inoculum by leaf litter removal could be a promising practice, we carried out an experiment to assess the interest of leaf removal versus leaf shredding on disease development and fruit damages. For one of the two cultivars studied, we showed that leaf litter removal can significantly decrease scab damages on fruit and leaf in comparison to leaf shredding.

In organic apple orchards, sanitation practices are a keystone of a sustainable scab management. Because the suppression of the inoculum by leaf litter removal could be a promising practice, we carried out an experiment to assess the interest of leaf removal versus leaf shredding on disease development and fruit damages. For one of the two cultivars studied, we showed that leaf litter removal can significantly decrease scab damages on fruit and leaf in comparison to leaf shredding.

The impact of a cultivar mixture within the rows including the cvs Melrouge (low susceptibility to scab) and Pitchounette (Rvi6 resistant) was assessed during 2008e2009 in an organic apple orchard located in Rhône Valley (Drôme, France), on three important pests and diseases: scab, powdery mildew and rosy apple aphid. In this area, the resistance of Rvi6 gene was effective since the orchard plantation in 2004. The impact of the cultivar mixture was assessed per se, but also associated with sanitation practices to decrease the primary inoculum of scab and mildew, and compared to disease development on pure stands of Melrouge. The cultivar mixture showed a good efficiency to decrease the scab incidence on leaves and fruits; a significant effect on scab severity was observed in 2009 for the cultivar mixture plus sanitation practices. Our data confirmed the different susceptibility levels of the two cultivars for powdery mildew. Against powdery mildew, a favourable effect of cultivar mixture, at the condition it is associated with sanitation, was observed in case of a moderate level of the disease (2008). For rosy apple aphid, a favourable effect of cultivar mixture was observed on Melrouge in 2008 when Pitchounette has a good resistance level. In the context of organic production, the impact of the cultivar mixture seemed favourable for the control of the three pests and diseases.

The impact of a cultivar mixture within the rows including the cvs Melrouge (low susceptibility to scab) and Pitchounette (Rvi6 resistant) was assessed during 2008e2009 in an organic apple orchard located in Rhône Valley (Drôme, France), on three important pests and diseases: scab, powdery mildew and rosy apple aphid. In this area, the resistance of Rvi6 gene was effective since the orchard plantation in 2004. The impact of the cultivar mixture was assessed per se, but also associated with sanitation practices to decrease the primary inoculum of scab and mildew, and compared to disease development on pure stands of Melrouge. The cultivar mixture showed a good efficiency to decrease the scab incidence on leaves and fruits; a significant effect on scab severity was observed in 2009 for the cultivar mixture plus sanitation practices. Our data confirmed the different susceptibility levels of the two cultivars for powdery mildew. Against powdery mildew, a favourable effect of cultivar mixture, at the condition it is associated with sanitation, was observed in case of a moderate level of the disease (2008). For rosy apple aphid, a favourable effect of cultivar mixture was observed on Melrouge in 2008 when Pitchounette has a good resistance level. In the context of organic production, the impact of the cultivar mixture seemed favourable for the control of the three pests and diseases.

The impact of a cultivar mixture within the rows including the cvs Melrouge (low susceptibility to scab) and Pitchounette (Rvi6 resistant) was assessed during 2008e2009 in an organic apple orchard located in Rhône Valley (Drôme, France), on three important pests and diseases: scab, powdery mildew and rosy apple aphid. In this area, the resistance of Rvi6 gene was effective since the orchard plantation in 2004. The impact of the cultivar mixture was assessed per se, but also associated with sanitation practices to decrease the primary inoculum of scab and mildew, and compared to disease development on pure stands of Melrouge. The cultivar mixture showed a good efficiency to decrease the scab incidence on leaves and fruits; a significant effect on scab severity was observed in 2009 for the cultivar mixture plus sanitation practices. Our data confirmed the different susceptibility levels of the two cultivars for powdery mildew. Against powdery mildew, a favourable effect of cultivar mixture, at the condition it is associated with sanitation, was observed in case of a moderate level of the disease (2008). For rosy apple aphid, a favourable effect of cultivar mixture was observed on Melrouge in 2008 when Pitchounette has a good resistance level. In the context of organic production, the impact of the cultivar mixture seemed favourable for the control of the three pests and diseases.

The impact of a cultivar mixture within the rows including the cvs Melrouge (low susceptibility to scab) and Pitchounette (Rvi6 resistant) was assessed during 2008e2009 in an organic apple orchard located in Rhône Valley (Drôme, France), on three important pests and diseases: scab, powdery mildew and rosy apple aphid. In this area, the resistance of Rvi6 gene was effective since the orchard plantation in 2004. The impact of the cultivar mixture was assessed per se, but also associated with sanitation practices to decrease the primary inoculum of scab and mildew, and compared to disease development on pure stands of Melrouge. The cultivar mixture showed a good efficiency to decrease the scab incidence on leaves and fruits; a significant effect on scab severity was observed in 2009 for the cultivar mixture plus sanitation practices. Our data confirmed the different susceptibility levels of the two cultivars for powdery mildew. Against powdery mildew, a favourable effect of cultivar mixture, at the condition it is associated with sanitation, was observed in case of a moderate level of the disease (2008). For rosy apple aphid, a favourable effect of cultivar mixture was observed on Melrouge in 2008 when Pitchounette has a good resistance level. In the context of organic production, the impact of the cultivar mixture seemed favourable for the control of the three pests and diseases.

The impact of a cultivar mixture within the rows including the cvs Melrouge (low susceptibility to scab) and Pitchounette (Rvi6 resistant) was assessed during 2008e2009 in an organic apple orchard located in Rhône Valley (Drôme, France), on three important pests and diseases: scab, powdery mildew and rosy apple aphid. In this area, the resistance of Rvi6 gene was effective since the orchard plantation in 2004. The impact of the cultivar mixture was assessed per se, but also associated with sanitation practices to decrease the primary inoculum of scab and mildew, and compared to disease development on pure stands of Melrouge. The cultivar mixture showed a good efficiency to decrease the scab incidence on leaves and fruits; a significant effect on scab severity was observed in 2009 for the cultivar mixture plus sanitation practices. Our data confirmed the different susceptibility levels of the two cultivars for powdery mildew. Against powdery mildew, a favourable effect of cultivar mixture, at the condition it is associated with sanitation, was observed in case of a moderate level of the disease (2008). For rosy apple aphid, a favourable effect of cultivar mixture was observed on Melrouge in 2008 when Pitchounette has a good resistance level. In the context of organic production, the impact of the cultivar mixture seemed favourable for the control of the three pests and diseases.

La tavelure est certainement la maladie la plus redoutée dans les vergers de pommiers biologiques. Pour limiter les contaminations primaires au printemps, il est possible de réduire l'inoculum primaire en éliminant les feuilles mortes tombées au sol à l'automne, par broyage ou par ramassage. Ces deux méthodes ont déjà prouvé leur efficacité mais elles n'ont jamais été comparées. Un essai a été mis en place dans un verger commercial biologique de la Drôme afin de comparer ces deux méthodes de prophylaxie : balayage ou broyage des feuilles de l'inter-rang, complétés par l'enfouissement des feuilles sur le rang. Le retrait des feuilles par balayage a été plus efficace que la méthode de broyage et a permis de limiter plus fortement le développement des épidémies de tavelure au printemps suivant.

Il est important de pouvoir évaluer les performances agronomiques et environnementales des systèmes de production, afin de les rendre plus durables. En verger, une expérimentation système a été développée depuis 2005 dans cet objectif. Seuls les systèmes qui combinent faible sensibilité variétale aux maladies et différentes méthodes alternatives de protection (ex. Agriculture Biologique, Protection intégrée) permettent de gérer durablement la protection du verger et de réduire l'impact environnemental. Les systèmes en Protection intégrée implantés avec une variété peu sensible illustrent que l'impact environnemental peut être réduit sans diminution des performances agronomiques.

La tavelure est certainement la maladie la plus redoutée dans les vergers de pommiers biologiques. Pour limiter les contaminations primaires au printemps, il est possible de réduire l'inoculum primaire en éliminant les feuilles mortes tombées au sol à l'automne, par broyage ou par ramassage. Ces deux méthodes ont déjà prouvé leur efficacité mais elles n'ont jamais été comparées. Un essai a été mis en place dans un verger commercial biologique de la Drôme afin de comparer ces deux méthodes de prophylaxie : balayage ou broyage des feuilles de l'inter-rang, complétés par l'enfouissement des feuilles sur le rang. Le retrait des feuilles par balayage a été plus efficace que la méthode de broyage et a permis de limiter plus fortement le développement des épidémies de tavelure au printemps suivant.

Il est important de pouvoir évaluer les performances agronomiques et environnementales des systèmes de production, afin de les rendre plus durables. En verger, une expérimentation système a été développée depuis 2005 dans cet objectif. Seuls les systèmes qui combinent faible sensibilité variétale aux maladies et différentes méthodes alternatives de protection (ex. Agriculture Biologique, Protection intégrée) permettent de gérer durablement la protection du verger et de réduire l'impact environnemental. Les systèmes en Protection intégrée implantés avec une variété peu sensible illustrent que l'impact environnemental peut être réduit sans diminution des performances agronomiques.