Measuring the effects of trade liberalization: multilevel analysis tool for agriculture

Bien que la globalisation et la libéralisation du commerce international soient maintenant largement acceptées dans le monde, la plupart des pays en voie de développement et de nombreuses économies de transition n'ont pas encore créé de systèmes de libres marchés. La représentation du monde économique réel avec la diversité des conditions économiques limite la spécialisation, l'investissement et l'adoption de nouvelles technologies. Les progrès en modélisation permettent maintenant la représentation de décisions économiques complexes. Dans cet ouvrage, un modèle pour le secteur agricole dans les bas-fonds de Java est présenté. Afin de représenter de façon pragmatique la complexité des décisions et les imperfections du marché, les occasions et les contraintes sont listées, les prix et les risques sont évalués. La description de l'agriculture vivrière en Indonésie a conduit à l'élaboration d'un modèle économique MATA développé pour estimer les impacts de diverses politiques. L'intérêt de ce projet est de fournir un outil de décision politique. La lecture du manuel MATA permettra d'étendre le modèle à d'autres zone

Addressing the problem of plastic waste: Development of an enzymatic process for PET recycling

Every day, media and NGOs describe the society\u27s disaffection for plastics accused of polluting the planet. All major brand-owners made commitments to solve this problem (e.g. Coca-Cola, Nestlé, Danone, PepsiCo, Suntory, Unilever, L’Oréal, Nike) and announced a future with less plastic waste by 2025. Nevertheless, only 6 years before the announced term, no effective solution is yet available to meet these goals. Indeed, existing technologies like thermo-mechanical recycling leads to loss in mechanical properties of the polymer and even if several chemical recycling processes are under development, they suffer from the disadvantages of using organic solvents, high reaction temperatures and the need of an intensive waste sorting. Consequently, enzymatic recycling appears as a pertinent solution notably because the enzyme selectivity avoids a drastic sorting of waste and enables the recycling of complex plastics (multi-layers construction in some bottles of sparkling water for instance), it is an eco-friendly reaction in water and because of savings in energy consumption due to a low temperature of reaction. Using a computer-aided engineering strategy, we drastically improved the depolymerizing performance of the best identified enzyme candidate. Utilizing site-directed mutagenesis targeted at the active site, combined with three-dimensional fold stabilization, we engineered an enzyme variant, demonstrating an astounding increase in thermostability combined with a high activity. This enzyme is able to depolymerize 90% of PET waste (200g/kg) into monomers, terephthalic acid and ethylene glycol, in less than 10 hours. The downstream processing was developed and optimized leading to the demonstration that this enzymatic technology could enable the use of an industrial plastic waste to produce again PET monomers and ultimately a bottle from this recycled PET. We hope to demonstrate the strong potential of the enzymatic technology jointly developed by CARBIOS and LISBP to provide a breakthrough solution to help solve society’s growing plastic waste problem

Pet recycling: From enzyme and process optimization to an industrial plant

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Highly-multiplexed SNP genotyping for genetic mapping and germplasm diversity studies in pea

Background: Single Nucleotide Polymorphisms (SNPs) can be used as genetic markers for applications such as genetic diversity studies or genetic mapping. New technologies now allow genotyping hundreds to thousands of SNPs in a single reaction. In order to evaluate the potential of these technologies in pea, we selected a custom 384-SNP set using SNPs discovered in Pisum through the resequencing of gene fragments in different genotypes and by compiling genomic sequence data present in databases. We then designed an Illumina GoldenGate assay to genotype both a Pisum germplasm collection and a genetic mapping population with the SNP set. Results: We obtained clear allelic data for more than 92% of the SNPs (356 out of 384). Interestingly, the technique was successful for all the genotypes present in the germplasm collection, including those from species or subspecies different from the P. sativum ssp sativum used to generate sequences. By genotyping the mapping population with the SNP set, we obtained a genetic map and map positions for 37 new gene markers. Conclusion: Our results show that the Illumina GoldenGate assay can be used successfully for high-throughput SNP genotyping of diverse germplasm in pea. This genotyping approach will simplify genotyping procedures for association mapping or diversity studies purposes and open new perspectives in legume genomics

Caveolin 3 Is Associated with the Calcium Release Complex and Is Modified via in Vivo Triadin Modification†

International audienceThe triadin isoforms Trisk 95 and Trisk 51 are both components of the skeletal muscle calcium release complex. To investigate the specific role of Trisk 95 and Trisk 51 isoforms in muscle physiology, we overexpressed Trisk 95 or Trisk 51 using adenovirus-mediated gene transfer in skeletal muscle of newborn mice. Overexpression of either Trisk 95 or Trisk 51 alters the muscle fiber morphology, while leaving unchanged the expression of the ryanodine receptor, the dihydropyridine receptor, and calsequestrin. We also observe an aberrant expression of caveolin 3 in both Trisk 95- and Trisk 51-overexpressing skeletal muscles. Using a biochemical approach, we demonstrate that caveolin 3 is associated with the calcium release complex in skeletal muscle. Taking advantage of muscle and non-muscle cell culture models and triadin null mouse skeletal muscle, we further dissect the molecular organization of the caveolin 3-containing calcium release complex. Our data demonstrate that the association of caveolin 3 with the calcium release complex occurs via a direct interaction with the transmembrane domain of the ryanodine receptor. Taken together, these data suggest that caveolin 3-containing membrane domains and the calcium release complex are functionally linked and that Trisk 95 and Trisk 51 are instrumental to the regulation of this interaction, the integrity of which may be crucial for muscle physiology

Genetic Alterations of the Thrombopoietin/MPL/JAK2 Axis Impacting Megakaryopoiesis

Megakaryopoiesis is an original and complex cell process which leads to the formation of platelets. The homeostatic production of platelets is mainly regulated and controlled by thrombopoietin (TPO) and the TPO receptor (MPL)/JAK2 axis. Therefore, any hereditary or acquired abnormality affecting this signaling axis can result in thrombocytosis or thrombocytopenia. Thrombocytosis can be due to genetic alterations that affect either the intrinsic MPL signaling through gain-of-function (GOF) activity (MPL, JAK2, CALR) and loss-of-function (LOF) activity of negative regulators (CBL, LNK) or the extrinsic MPL signaling by THPO GOF mutations leading to increased TPO synthesis. Alternatively, thrombocytosis may paradoxically result from mutations of MPL leading to an abnormal MPL trafficking, inducing increased TPO levels by alteration of its clearance. In contrast, thrombocytopenia can also result from LOF THPO or MPL mutations, which cause a complete defect in MPL trafficking to the cell membrane, impaired MPL signaling or stability, defects in the TPO/MPL interaction, or an absence of TPO production

Production of medium chain fatty acid by Yarrowia lipolytica: Combining molecular design and TALEN to engineer the fatty acid synthase

Yarrowia lipolytica is a promising organism for the production of lipids of biotechnological interest and particularly for biofuel. In this study, we engineered lipid biosynthesis through rational engineering of the giant multifunctional Fatty Acid Synthase (FAS) enzyme to modulate fatty acid chain length and produce shorter fatty acids. Based on the hypothesis that the Ketoacyl Synthase (KS) domain, responsible for chain elongation in Yarrowia lipolytica, is directly involved in chain length specificity, a computer-based strategy was undertaken to re-design mutants of the Ketoacyl Synthase. Molecular modelling of this domain in interaction with a C16-acyl substrate enabled identification of a key residue from the fatty acid binding site. This site was then targeted by mutagenesis in order to modify KS fatty acid chain length specificity. To introduce point mutations in this essential gene, we applied, for the first time, the TALEN technology to Yarrowia lipolytica and demonstrated the efficiency of the technique to perform site-directed mutagenesis at a specific genomic locus. Some mutants led to a significant increase of C14 fatty acid. Thanks to the use of an elegant combination of genome editing technology and molecular modelling, this study provides for the first time, evidences that the KS domain of the fungal FASI system is directly involved in fatty acid chain length specificity

Role of triadin in the organization of reticulum membrane at the muscle triad.

International audienceThe terminal cisternae represent one of the functional domains of the skeletal muscle sarcoplasmic reticulum (SR). They are closely apposed to plasma membrane invaginations, the T-tubules, with which they form structures called triads. In triads, the physical interaction between the T-tubule-anchored voltage-sensing channel DHPR and the SR calcium channel RyR1 is essential because it allows the depolarization-induced calcium release that triggers muscle contraction. This interaction between DHPR and RyR1 is based on the peculiar membrane structures of both T-tubules and SR terminal cisternae. However, little is known about the molecular mechanisms governing the formation of SR terminal cisternae. We have previously shown that ablation of triadins, a family of SR transmembrane proteins that interact with RyR1, induced skeletal muscle weakness in knockout mice as well as a modification of the shape of triads. Here we explore the intrinsic molecular properties of the longest triadin isoform Trisk 95. We show that when ectopically expressed, Trisk 95 can modulate reticulum membrane morphology. The membrane deformations induced by Trisk 95 are accompanied by modifications of the microtubule network organization. We show that multimerization of Trisk 95 by disulfide bridges, together with interaction with microtubules, are responsible for the ability of Trisk 95 to structure reticulum membrane. When domains responsible for these molecular properties are deleted, anchoring of Trisk 95 to the triads in muscle cells is strongly decreased, suggesting that oligomers of Trisk 95 and microtubules contribute to the organization of the SR terminal cisternae in a triad

Reproducibility and sensitivity to change of various methods to measure joint space width in osteoarthritis of the hip: a double reading of three different radiographic views taken with a three-year interval

Joint space width (JSW) and narrowing (JSN) measurements on radiographs are currently the best way to assess disease severity or progression in hip osteoarthritis, yet we lack data regarding the most accurate and sensitive measurement technique. This study was conducted to determine the optimal radiograph and number of readers for measuring JSW and JSN. Fifty pairs of radiographs taken three years apart were obtained from patients included in a structure modification trial in hip osteoarthritis. Three radiographs were taken with the patient standing: pelvis, target hip anteroposterior (AP) and oblique views. Two trained readers, blinded to each other's findings, time sequence and treatment, each read the six radiographs gathered for each patient twice (time interval ≥15 days), using a 0.1 mm graduated magnifying glass. Radiographs were randomly coded for each reading. The interobserver and intraobserver cross-sectional (M0 and M36) and longitudinal (M0–M36) reproducibilities were assessed using the intraclass coefficient (ICC) and Bland–Altman method for readers 1 and 2 and their mean. Sensitivity to change was estimated using the standardized response mean (SRM = change/standard deviation of change) for M0–M36 changes. For interobserver reliability on M0–M36 changes, the ICCs (95% confidence interval [CI]) were 0.79 (0.65–0.88) for pelvic view, 0.87 (0.78–0.93) for hip AP view and 0.86 (0.76–0.92) for oblique view. Intraobserver reliability ICCs were 0.81 (0.69–0.89) for observer 1 and 0.97 (0.95–0.98) for observer 2 for the pelvic view; 0.87 (0.78–0.92) and 0.97 (0.96–0.99) for the hip AP view; and 0.73 (0.57–0.84) and 0.93 (0.88–0.96) for the oblique view. SRMs were 0.61 (observer 1) and 0.82 (observer 2) for pelvic view; 0.64 and 0.75 for hip AP view; and 0.77 and 0.70 for oblique view. All three views yielded accurate JSW and JSN. According to the best reader, the pelvic view performed slightly better. Both readers exhibited high precision, with SRMs of 0.6 or greater for assessing JSN over three years. Selecting a single reader was the most accurate method, with 0.3 mm precision. Using this cutoff, 50% of patients were classified as 'progressors'