PhytoHub is the first online database to inventory all phytochemicals present in foods commonly ingested with human diets. It compiles data scattered in more than 20 databases as well as data manually extracted by experts from the literature, or experimentally obtained in collaborative platforms.
It has been designed for use in nutritional metabolomics and in the field of the health effects of plant foods and their phytochemicals. Users can browse PhytoHub or make simple queries by food source, phytochemical name, molecular formula, monoisotopic mass, or MS/MS fragments, as well as more advanced queries. PhytoHub can for example list all the phytochemical precursors & metabolites matching with a monoisotopic mass found in a metabolomic profile, or list all the phytochemical metabolites expected in biological fluids after consumption of a given food.
- Claudine Manach (INRA, Human Nutrition Unit, Clermont-Ferrand, France) is coordinating the project.
- Franck Giacomoni (INRA, Metabolism Exploration Platform Clermont-Ferrand, France) is leading the bioinformatic developments.
- Craig Knox (In Siliflo, Inc., Edmonton, Canada) is leading the development of the public pages of PhytoHub and the web interface for updates by curators
- Joe Rothwell (INRA Post-doctoral fellow), Yoann Fillâtre (INRA Post-doctoral fellow), Franck Giacomoni and Claudine Manach defined the specifications for the database and developed the PhytoHub structure.
- Daniel Césaire (INRA Master 2 student) worked on the data model and on annotation data pipelines, Mercedes Quintana (INRA Post-doctoral fellow) and Yoann Fillâtre (INRA Post-doctoral fellow) compiled the first data on terpene dietary sources and metabolism.
- Roman Eisner (In Siliflo, Inc.) worked as a developer on the web interface of PhytoHub
- Bento da Silva (PhD student at Institute of Chemical and Biological Technology, Lisboa, Portugal) coordinated the collection of more than 385 compounds, mainly polyphenol metabolites and more than 420 relations between precursors and metabolites with associated references, in the framework of a Short Term Scientific Mission at INRA funded by the COST Action POSITIVe FA 1403 in 2016.
- Balthazar Pavot (INRA Exploration Metabolism PlatForm, Clermont-Ferrand) worked in 2016 on the data aggregating pipeline for PhytoHUB online updates.
- Marie-Anne Verny (INRA), Pierre Micheau (INRA), Severine Thien (INRA) have been involved in data curation.
A major strength of PhytoHub is its curation by scientists with expertise on the different families of phytochemicals. A web interface has been developed in 2017 to facilitate data curation. Experts can easily and very rapidly add a new information that immediately appears online.
New contributors with expertise on food phytochemicals are welcome. Please contact us if you are interested to join the project, or to give any feedback on PhytoHub to help us to improve it. Recent relevant publications can also be sent for integration by our team of curators.
|Rikard Landberg||Swedish University of Agricultural Sciences, Uppsala, Sweden|
|Wieslaw Wiczkowski||Institute of Animal Reproduction and Food Research of the Polish Academy of Sciences, Olsztyn, Poland|
|Gesine Schmidt||Nofima, Department of Food and Health, Aas, Norway|
|Catherine Caris-Veyrat||INRA Avignon, UMR408, France|
|Rachel Kopec||The Ohio State University, Columbus, USA|
|Paco Tomas-Barberan, Rocio Garcia-Villalba, Juan Carlos Espin||CEBAS-CSIC, Murcia, Spain|
|Peter Hollman||RIKILT Wageningen University, The Netherlands|
|Claudia Nunes dos Santos||iBET, Oeiras, Portugal|
|Andreia Bento da Silva, Maria Rosario Bronze||Institute of Chemical and Biological Technology (ITQB), Oeiras, Lisbon, Portugal|
|Cécile Gladine, Marie-Anne Verny, Natalia Vazquez-Manjarrez, Christine Morand, Pierre Micheau, Séverine Valero, Jarlei Fiamoncini, Dorrain Low, Claudine Manach||Human Nutrition Unit, INRA Clermont-Ferrand, UMR1019, France|
|Laura Nyström, Linda Münger||Institute of Food, Nutrition and Health, ETH Zurich, Switzerland|
|Begoña Bartolomé Sualdea||Instituto de Investigación en Ciencias de la Alimentación (CIAL), CSIC-UAM, Madrid, Spain|
|Mireia Urpi-Sarda, Rafael Llorach||University of Barcelona, Spain|
|Yoann Fillâtre||European Research Institute on Natural Ingredients, Grasse, France|
|Tuba Esatbeyoglu||Max Rübner Institute, Karlsrühe, Germany|
|Eirine Deligiannidou||University of Thrace, Greece|
|Mariem Achour||INRAE Clermont-Ferrand, France|
The development of PhytoHub 1.0 was supported by INRA and by the French National Agency of Research (ANR) (Project ALIA2010-007- PhenoMeNEP “Phenotyping using Metabolomics for Nutritional Epidemiology”, 2010-1013).
It is further developed in the framework of the FoodBAll project funded by the JPI Healthy Diet for Healthy Life (2014-2018). The COST Action POSITIVe is also supporting PhytoHub through generating or compiling knowledge on plant food bioactives (2014-2018).