About PhytoHub
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 food phytochemicals (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.
A major strength of PhytoHub is that it is continuously curated and updated by scientists with expertise on the different families of food phytochemicals. A web interface has been developed in 2017 to facilitate data curation.
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.
Initial Contributors
- Claudine Manach (INRAE, Human Nutrition Unit, Clermont-Ferrand, France) is coordinating the project.
- Franck Giacomoni (INRAE, Metabolism Exploration Platform Clermont-Ferrand, France) is leading the bioinformatic developments.
- Craig Knox (In Siliflo, Inc., Edmonton, Canada, now DrugBank) led 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 food phytochemicals (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.
- Lain Pavot (INRA Exploration Metabolism PlatForm, Clermont-Ferrand) worked in 2016 on the data aggregation pipeline for PhytoHUB updates.
- Marie-Anne Verny (INRA), Pierre Micheau (INRA), Severine Thien (INRA) were involved in data curation.
| Experts | Affiliation |
|---|---|
| Otto Savolainen, Stefania Noerman, Marina Armeni, Kati Hanhineva, Rikard Landberg | Department of Chemical and Biological Engineering, Chalmers University of Technology, Göteborg, Sweden |
| Wieslaw Wiczkowski, Natalia Bączek | 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 |
| Franciso Tomas-Barberan, Rocio Garcia-Villalba, Juan Carlos Espin, Angel Gil Izquierdo, Fernando Vallejo, Cristina García Viguera, Diego A Moreno, Raúl Domínguez-Perles | Centro de Edafologia y Biologia Aplicada del Segura (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 |
| Mariem Achour, Cécile Gladine, Marie-Anne Verny, Natalia Vazquez-Manjarrez, Pierre Micheau, Séverine Valero, Laurent-Emmanuel Monfoulet, Christine Morand, Claudine Manach | Human Nutrition Unit, INRAE Clermont-Ferrand, UMR1019, Université Clermont Auvergne, 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, Christoph Hassenberg | Max Rübner Institute, Karlsrühe, Germany |
| Eirine Deligiannidou | University of Thrace, Greece |
| Maria Gema Pereira Caro, Jose Luis Ordoñez Diaz, Alicia Moreno | Andalusian Institute of Agricultural and Fishering Research and Training (IFAPA), Córdoba, Spain |
| Jarlei Fiamoncini, José Fernando Rinaldi de Alvarenga | School of Pharmaceutical Sciences, Department of Food and Experimental Nutrition, University of São Paulo, Brazil |
| Ana Rodriguez Mateos, Alex Cheok | Department of Nutritional Sciences, King’s College, United Kingdom |
| Giuseppe Di Pede, Pedro Mena, Letizia Bresciani, Luca Narduzzi, Claudia Favari, Nicole Tosi, Daniele Del Rio | Human Nutrition Unit, Department of Food and Drugs, University of Parma, Italy |
| Rosa Maria Casas, Sara Castro Baquero, Ana Maria Ruiz, Francesc Casanovas, Ramon Estruch | August Pi i Sunyer Biomedical Research Institute (IDIBAPS), Spain |
| Frank Giacomoni, Nilhs Paulhe | Human Nutrition Unit, Metabolism Exploration Platform,INRAE Clermont-Ferrand, France |
| Anna Tresserra Rimbau, Sarra Hurtado Barros, Anna Vallverdú Queralt, Isabella Parilli Moser, Anallely López Yerena, Julián Lozano Castellón, Sonia Ramirez Garza , Maria Marhuenda Muñoz, Rosa M Lamuela-Raventós, Marta Trius | Institute of Nutrition and Food Safety (INSA-UB), University of Barcelona, Spain |
| Eliane Fialho De Oliveira | Federal University of Rio de Janeiro, Brazil |
| Dorrain Yanwen Low | Lee Kong Chian School of Medicine, Nanyang Technological University: Singapore |
| Nieves Baenas, Vanesa Nuñez | University of Murcia, Spain |
Funding
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 was further developed in the framework of the FoodBAll project funded by the JPI Healthy Diet for Healthy Life (2014-2018). The COST Action POSITIVe supported PhytoHub through generating or compiling knowledge on plant food bioactives (2014-2018).
PhytoHub is further developed in the framework of the FoodPhyt project funded by the JPI Healthy Diet for Healthy Life (2020-2024).
