Primary scab control using a "during-infection" spray timing and the effect on fruit quality and yield in organic apple production

Organic apple production in Europe depends to a great extent on the use of copper fungicides for scab control (Venturia inaequalis). The objective of this 6-year study (2003-2008) conducted in Belgium was to determine measures for reducing the use of copper fungicides in organic apple production. The effectiveness of a 'during-infection' spray strategy using wettable sulphur (with or without copper), lime sulphur, potassium bicarbonate, silicon and five natural plant extracts (orange peel, soapbark, tea seed, quinoa seed and grapefruit seed) for controlling primary scab was investigated in a split-plot field experiment. Four apple cultivars that express a gradient of partial scab resistance were included: a high scab-susceptible cultivar (cv. 'Pinova'), a medium scab-susceptible cultivar (cv. 'Pirouette') and two old cultivars expressing low to very low scab susceptibility (cvs. 'Reinette Hernaut' and 'Reinette des Capucins'). Apart from these cultivars, four monogenic Vf scab-resistant cultivars (cvs. 'Initial', 'Topaz', 'Zvatava' and 'JN 20/33/58') were also included in the experimental orchard. In order to reduce the amount of fungicide required, two strategies were used: a specific spray timing involving spraying during the infection processes, before fungal penetration, determined by the RIMpro software warning system, and a tunnel sprayer machine for optimal treatment applications. Depending on the year, a total of 8-12 applications were made annually. Under field conditions that were highly conducive disease, low rates of elemental sulphur (≤ 40 kg.ha-1 per year) combined with low rates of copper (≤ 2.1 kg.ha-1 per year) provided the best scab control and reduced scab severity on the leaves and fruits by 85-100%, depending on the year and cultivar, compared with the untreated control. In most cases, the lime sulphur spray treatment, which used more elemental sulphur but did not use copper, provided a similar level of scab control to the combined wettable sulphur and copper spray treatment. Sulphur, potassium bicarbonate and all plant extracts significantly reduced scab severity on leaves and fruits. In general, the treatments increased the yield of the high and medium scab-susceptible cultivars as well as that of the low and very low scab-susceptible cultivars. Under these experimental conditions, none of the treatments caused phytotoxicity, increased fruit russet or led to undesirable soil and fruit residues at harvest. The potential and limitations of "during-infection" spraying as a protection strategy against apple scab in organic farming are discussed

Combining genetic resources and elite material populations to improve the accuracy of genomic prediction in apple

Genomic selection is an attractive strategy for apple breeding that could reduce the length of breeding cycles. A possible limitation to the practical implementation of this approach lies in the creation of a training set large and diverse enough to ensure accurate predictions. In this study, we investigated the potential of combining two available populations, i.e., genetic resources and elite material, in order to obtain a large training set with a high genetic diversity. We compared the predictive ability of genomic predictions within-population, across-population or when combining both populations, and tested a model accounting for population-specific marker effects in this last case. The obtained predictive abilities were moderate to high according to the studied trait and small increases in predictive ability could be obtained for some traits when the two populations were combined into a unique training set. We also investigated the potential of such a training set to predict hybrids resulting from crosses between the two populations, with a focus on the method to design the training set and the best proportion of each population to optimize predictions. The measured predictive abilities were very similar for all the proportions, except for the extreme cases where only one of the two populations was used in the training set, in which case predictive abilities could be lower than when using both populations. Using an optimization algorithm to choose the genotypes in the training set also led to higher predictive abilities than when the genotypes were chosen at random. Our results provide guidelines to initiate breeding programs that use genomic selection when the implementation of the training set is a limitation

Neanderthal selective hunting of reindeer? The case study of Abri du Maras (south-eastern France)

Fieldwork was supported by the Regional Office of Archaeology Rhône-Alpes, the French Ministry of Culture and Communication and the Ardèche Department through several scientific programs. M.G.Chacon, F. Rivals and E. Allué research are funded by ‘CERCA Programme/Generalitat de Catalunya’. Thanks to Jean-Jacques Hublin, Annabell Reiner and Steven Steinbrenner from the Max Planck Institute (MPI-EVA) for analytical support (isotope analysis). We are grateful to the two anonymous reviewers for their constructive remarks on this manuscript. The English manuscript was edited by L. Byrne, an official translator and native English speaker.Peer reviewedPostprin

Reconstruction of multi-generation pedigrees involving numerous old apple cultivars thanks to whole-genome SNP data

A number of European apple cultivars are old, some of them dating back to the Renaissance, Middle Ages or even earlier. Many other cultivars have been developed during subsequent times. In order to decipher the relationships that link some of these old cultivars, whole-genome SNP data (~ 250K) for over 1400 genotypes were analyzed to infer first-degree relationships and reconstruct pedigrees. We used simple exclusion tests based on a count of Mendelian error to identify up to a thousand potential parent-offspring duos, including 295 complete parent-offspring trios and a hundred duos that could be oriented. grand-parents for some missing parents could also be inferred. Combining all this information allowed us to reconstruct pedigrees (up to 6 generations) highlighting the central role of major founders such as ‘Reinette Franche’, ‘Margil’, and ‘Alexander’. Haplotypes were deduced from genotypic data and pedigrees, and used to measure haplotype sharing between supposedly unrelated cultivars, allowing investigating further links between them.To our knowledge, such a large analysis to reconstruct multigeneration pedigrees involving (very) old cultivars selected over such time has never before been performed in perennial fruit species

Local European cultivars as sources of durable scab resistance in apple

The Vf resistance gene has been widely used in apple breeding programmes to control Venturia inaequalis, the causal agent of scab, the major apple disease. Since the appearance of new strains that are able to overcome this major gene, research in Europe has been focused on durable resistance. The objective of one task of the European DARE project was to find cultivars which show a broad spectrum of resistance to the different scab races. This collaborative work involved 6 partners who tested 36 cultivars with various local scab inocula collected in the participating countries and with 8 monoconidial strains belonging to known races or isolated and characterized in the frame of the DARE project. Tests were performed each year from 1998 to 2001. Symptoms were assessed using macroscopic scoring scales. Some microscopic observations were performed; these resulted in a better knowledge of the host/pathogen interaction. Very diverse and complex resistance behaviours were found: the cultivars which showed the widest range of resistance were mostly local cultivars and some newly selected hybrids combining major genes and partial resistance. It would be worthwhile to include these individuals as parents in apple breeding programmes to improve the durability of scab resistance. Some methodologies and strategies to reach this goal will be proposed

Genetic assessment of the pomological classification of plum Prunus domestica L. accessions sampled across Europe

The genotyping of European fruit tree collections has helped to identify synonyms, determine parentage, reveal key specimens in the collections and provide information on the development of modern cultivars from one or several progenitors. However, studies on European plum Prunus domestica have been lagging behind, mainly because of the hexaploid chromosome number. In this co-operative study, 104 accessions conserved by 14 partners across Europe were phenotyped for 20 descriptors, and genotyped for 8 SSR loci together with 8 reference cultivars. Based on the descriptors as well as additional information supplied by the partners, as well as the scientific and horticultural literature, each accession was assigned to one of six pomological groups; (1) egg plums sensu lato (E), (2) prunes of the French d’Agen type (P/A), (3) prunes of the Central-Southeast European Zwetschen type (P/Z), (4) greengages (G), (5) mirabelles (M) and (6) bullaces, damsons and var. pomariorum (D/B). A MANOVA conducted on descriptor data revealed significant differentiation among the pomological groups as well as a geographic impact on the differentiation of local plum accessions in Europe. SSR data showed that two trios and seven pairs of genotypes had very similar allele profiles and possibly are genetically identical in spite of different accession names. An AMOVA indicated sparse genetic differentiation when accessions were grouped according to geographic origin whereas significant differences were obtained among pomological groups. A Bayesian analysis of genetic structure, as well as a discriminant analysis of principal components (DAPC), further revealed levels of similarity among and within the different pomological groups, suggesting that egg plums sensu lato (E) and greengages (G) can be referred to subsp. domestica while damsons and bullaces (D/B) but also Central-Southeast European prunes (P/Z) show more affinity to subsp. insititia. The small and possibly heterogeneous groups with mirabelles (M) and prunes of the d’Agen type (P/A) take an intermediate position suggesting a hybridogenic origin

Achttien Vlaamse auteurs gebundeld

Modern and Contemporary Studie

SSR-Based Analysis of Genetic Diversity and Structure of Sweet Cherry (Prunus avium L.) from 19 Countries in Europe

Sweet cherry (Prunus avium L.) is a temperate fruit species whose production might be highly impacted by climate change in the near future. Diversity of plant material could be an option to mitigate these climate risks by enabling producers to have new cultivars well adapted to new environmental conditions. In this study, subsets of sweet cherry collections of 19 European countries were genotyped using 14 SSR. The objectives of this study were (i) to assess genetic diversity parameters, (ii) to estimate the levels of population structure, and (iii) to identify germplasm redundancies. A total of 314 accessions, including landraces, early selections, and modern cultivars, were monitored, and 220 unique SSR genotypes were identified. All 14 loci were confirmed to be polymorphic, and a total of 137 alleles were detected with a mean of 9.8 alleles per locus. The average number of alleles (N = 9.8), PIC value (0.658), observed heterozygosity (Ho = 0.71), and expected heterozygosity (He = 0.70) were higher in this study compared to values reported so far. Four ancestral populations were detected using STRUCTURE software and confirmed by Principal Coordinate Analysis (PCoA), and two of them (K1 and K4) could be attributed to the geographical origin of the accessions. A N-J tree grouped the 220 sweet cherry accessions within three main clusters and six subgroups. Accessions belonging to the four STRUCTURE populations roughly clustered together. Clustering confirmed known genealogical data for several accessions. The large genetic diversity of the collection was demonstrated, in particular within the landrace pool, justifying the efforts made over decades for their conservation. New sources of diversity will allow producers to face challenges, such as climate change and the need to develop more sustainable production systems

Physical training in boys with Duchenne Muscular Dystrophy: the protocol of the No Use is Disuse study

Contains fulltext : 89740.pdf (publisher's version ) (Open Access)BACKGROUND: "Use it or lose it" is a well known saying which is applicable to boys with Duchenne Muscular Dystrophy (DMD). Besides the direct effects of the muscular dystrophy, the increasing effort to perform activities, the fear of falling and the use of personal aids indirectly impair leg and arm functions as a result of disuse. Physical training could oppose this secondary physical deterioration. The No Use is Disuse (NUD) study is the first study in human subjects with DMD that will examine whether a low-intensity physical training is beneficial in terms of preservation of muscle endurance and functional abilities. The study consists of two training intervention studies: study 1 "Dynamic leg and arm training for ambulant and recently wheelchair-dependent boys with DMD and, study 2 "Functional training with arm support for boys with DMD who have been confined to a wheelchair for several years". This paper describes the hypotheses and methods of the NUD study. METHODS: Study 1 is an explorative randomized controlled trial with multiple baseline measurements. Thirty boys with a DNA-established diagnosis of DMD will be included. The intervention consists of a six-months physical training during which boys train their legs and arms with active and/or assisted cycling training equipment. The primary study outcomes are muscle endurance and functional abilities, assessed with a Six-Minute Bicycle Test and the Motor Function Measure. Study 2 has a within-group repeated measurements design and will include ten boys with DMD who have already been confined to a wheelchair for several years. The six-months physical training program consists of 1) a computer-assisted training and 2) a functional training with an arm support. The primary study outcome is functional abilities of the upper extremity, assessed with the Action Research Arm Test. DISCUSSION: The NUD study will fill part of the gap in the current knowledge about the possible effects of training in boys with DMD and will increase insight into what type of exercise should be recommended to boys with DMD. The study will finish at the end of 2010 and results are expected in 2011. TRIAL REGISTRATION: The Netherlands National Trial Register1631