PhytoHub is the first online database to inventory all phytochemicals present in foods commonly ingested with human diets. It will compile 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 will be able to 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.
The PhytoHub database version 1.0 was developed at INRA, UMR1019 Human Nutrition Unit (Clermont-Ferrand, France), in collaboration with In Siliflo, Inc. (now OMx, Inc.) (Edmonton, Canada).
- Claudine Manach (INRA, Human Nutrition Unit) coordinated the project.
- Franck Giacomoni (INRA, Metabolism Exploration Platform) headed the bioinformatic developments.
- Craig Knox (In Siliflo, Inc.) headed the development of the web interface of PhytoHub.
- 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) and Franck Giacomoni worked on the data model and on annotation data pipelines.
- Mercedes Quintana (INRA Post-doctoral fellow), Noura Meklat (INRA Post-doctoral fellow), Estelle Pujos-Guillot (INRA, Metabolism Exploration Platform) provided their expertise in chemistry and mass Spectrometry for the development of PhytoHub.
- Yoann Fillâtre, Mercedes Quintana and Claudine Manach compiled and evaluated original data on terpene dietary sources and metabolism from the scientific literature.
- Roman Eisner (In Siliflo, Inc.) worked as a developer on the web interface of PhytoHub.
A major strength of PhytoHub is its curation by experts of the different families of phytochemicals:
|Alkylresorcinols||Rikard Landberg||Swedish University of Agricultural Sciences, Uppsala, Sweden|
|Anthocyanins||Wieslaw Wiczkowski||Institute of Animal Reproduction and Food Research of the Polish Academy of Sciences, Olsztyn, Poland|
|Betalaines||Wieslaw Wiczkowski||Institute of Animal Reproduction and Food Research of the Polish Academy of Sciences, Olsztyn, Poland|
|Carotenoids||Catherine Caris-Veyrat, Rachel Kopec||INRA Avignon, UMR408, France|
|Ellagitannins||Paco Tomas-Barberan, Rocio Garcia-Villalba||CEBAS-CSIC, Murcia, Spain|
|Flavanol metabolites||Peter Hollman||RIKILT Wageningen University, The Netherlands|
|Flavonol metabolites||Claudia Nunes dos Santos||iBET, Oeiras, Portugal|
|Hydroxycinnamic acids||Andreia Bento da Silva, Maria Rosario Bronze||Institute of Chemical and Biological Technology (ITQB), Oeiras, Lisbon, Portugal|
|Miscellaneous phenolic acids||Andreia Bento da Silva, Maria Rosario Bronze||Institute of Chemical and Biological Technology (ITQB), Oeiras, Lisbon, Portugal|
|Phytoprostanes||Cécile Gladine||INRA Clermont-Ferrand, UMR1019, France|
|Phytosterols||Laura Nyström||Institute of Food, Nutrition and Health, ETH Zurich, Switzerland|
|Procyanidin metabolites||Begoña Bartolomé Sualdea||Instituto de Investigación en Ciencias de la Alimentación (CIAL), CSIC-UAM, Madrid, Spain|
|Stilbenes||Mireia Urpi-Sarda||University of Barcelona, Spain|
|Terpenoids||Yoann Fillâtre||European Research Institute on Natural Ingredients, Grasse, France|
Andreia 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, with their chemical structures, 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 (Biological computing engineer at the INRA Exploration Metabolism PlatForm, Clermont-Ferrand, France) designed and implemented the web portal for PhytoHUB contributors. He was in charge of producing and managing the data aggregating pipeline and the PhytoHUB online updates. His contract at INRA was funded by the JPI Healthy Diet for Healthy Life through the FOODBALL project.
New contributors with expertise on food phytochemicals are welcome. Please contact us if you are interested to join the project.
Any feedback on PhytoHub data is useful !
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”).
It is further developed in the framework of the FoodBAll project funded by the JPI Healthy Diet for Healthy Life. The COST Action POSITIVe is also supporting PhytoHub through generating or compiling knowledge on plant food bioactives.