New Opportunities in Metabolomics and Biochemical Phenotyping for Plant Systems Biology

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Chapter New Opportunities in Metabolomics and Biochemical Phenotyping for Plant Systems Biology

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MeRy-B: a web knowledgebase for the storage, visualization, analysis and annotation of plant NMR metabolomic profiles

<p>Abstract</p> <p>Background</p> <p>Improvements in the techniques for metabolomics analyses and growing interest in metabolomic approaches are resulting in the generation of increasing numbers of metabolomic profiles. Platforms are required for profile management, as a function of experimental design, and for metabolite identification, to facilitate the mining of the corresponding data. Various databases have been created, including organism-specific knowledgebases and analytical technique-specific spectral databases. However, there is currently no platform meeting the requirements for both profile management and metabolite identification for nuclear magnetic resonance (NMR) experiments.</p> <p>Description</p> <p>MeRy-B, the first platform for plant ¹H-NMR metabolomic profiles, is designed (<it>i</it>) to provide a knowledgebase of curated plant profiles and metabolites obtained by NMR, together with the corresponding experimental and analytical metadata, (<it>ii</it>) for queries and visualization of the data, (<it>iii</it>) to discriminate between profiles with spectrum visualization tools and statistical analysis, (<it>iv</it>) to facilitate compound identification. It contains lists of plant metabolites and unknown compounds, with information about experimental conditions, the factors studied and metabolite concentrations for several plant species, compiled from more than one thousand annotated NMR profiles for various organs or tissues.</p> <p>Conclusion</p> <p>MeRy-B manages all the data generated by NMR-based plant metabolomics experiments, from description of the biological source to identification of the metabolites and determinations of their concentrations. It is the first database allowing the display and overlay of NMR metabolomic profiles selected through queries on data or metadata. MeRy-B is available from <url>http://www.cbib.u-bordeaux2.fr/MERYB/index.php</url>.</p

Rencontres Henri-Jean Martin : faire vivre la documentation régionale

Depuis 8 ans, les rencontres Henri-Jean Martin proposent un lieu de rencontre et d\u27échange pour les bibliothécaires travaillant dans des fonds patrimoniaux de toutes sortes. En quelques mots, voici leurs objectifs : offrir la possibilité de discuter des sujets les plus complexes en échangeant les expériences et en invitant des experts, rencontrer ses collègues, en toute liberté de parole et de débat. En 2014, les échanges portent sur la documentation régionale. La réflexion sur ce sujet riche, vaste et composite prend appui sur quatre pivots : les modalités de constitution spécifiques des fonds locaux ; les enjeux liés à la mémoire locale ; la définition mouvante du local dans les contextes urbains et numériques d’aujourd’hui, et l’enjeu politique de ces fonds quand ils s’inscrivent dans un projet de portée tout à la fois locale et universelle

New opportunities in metabolomics biochemical phenotyping for plant systems biology

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9 New Opportunities in Metabolomics and Biochemical Phenotyping for Plant Systems Biology

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Hydrophilic Interaction Liquid Chromatography – Mass Spectrometry method development for analysis of tomato leaf

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Carotenoid profiling of tropical root crop chemotypes from Vanuatu, South Pacific

International audienceTropical root and tuber crops are staple foods in developing countries where they are the main source of carbohydrates and a potential source of secondary metabolites such as carotenoids. Enhancing carotenoid content has considerable potential for improving human nutrition in these areas. Except for cassava and sweet potato, carotenoid content has not been evaluated in large germplasm collections. We describe a simple HPLC-DAD-based protocol for the reliable characterization of carotenoids in root crops. Less than 5% variation in carotenoid content was found among samples collected from tubers of the same plant or from clones of the same genotype. Carotenoids were evaluated in 153 accessions representing 10 different species. Each species had a specific profile of carotenoids, and accessions of the same species differed greatly in their individual content. The database assembled during this study represents a useful tool for nutritionists and breeders working on biofortification of root crops with carotenoids

Mery-B: a plant metabolomics database and knowledge base

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