Towards coordinated microbiome R&I activities in the food system to support (EU and) international bioeconomy goals

Projektinformationen

MicrobiomeSupport

ID Finanzhilfevereinbarung: 818116

DOI

10.3030/818116

Projekt abgeschlossen

EK-Unterschriftsdatum 5 Oktober 2018

Startdatum 1 November 2018

Enddatum 31 Oktober 2022

Finanziert unter

• SOCIETAL CHALLENGES - Food security, sustainable agriculture and forestry, marine, maritime and inland water research, and the bioeconomy

Gesamtkosten

€ 3 590 466,25

EU-Beitrag

€ 3 520 466,25

Koordiniert durch

AIT AUSTRIAN INSTITUTE OF TECHNOLOGY GMBH
Austria

CORDIS bietet Links zu öffentlichen Ergebnissen und Veröffentlichungen von HORIZONT-Projekten.

Links zu Ergebnissen und Veröffentlichungen von RP7-Projekten sowie Links zu einigen Typen spezifischer Ergebnisse wie Datensätzen und Software werden dynamisch von OpenAIRE abgerufen.

Leistungen

Documents, reports (19)

Report of the global mapping of microbiome research programmes, infrastructures and institutions

Report summarizing the results of the mapping survey including an overview of collected data

Roadmap for the use of existing data from microbiome related projects

A document defining needs eg bioinformatic pipelines and proposing a strategy incl required resources to address these in order to enable use of existing data

Report on dissemination materials and distribution indicators

Report assessing the impact of different dissemination channelsmaterials applied throughout the project will be composed and made available via project website Deliverable will be updated regularly up to a final version in M48 M24 M36 M48

Summary report of the IBF Meeting 2019

Summary report of the IBF Meeting in Vancouver Canada

Reports on educational and industry needs

Reports describing i elucidated educational needs and ii other needs defined by the industry that hamper the transition of microbiomebased solutions into commercialised products andor applications and providing recommendations on how to meet these the best in the future

Summary report of the IBF Meeting 2021

Summary report of the IBF Meeting in 2021 date and venue to be defined by IBF

Report on the R&I strategic agendas for future microbiome activities and applications, and showing the connexions with the regulations

A comprehensive report outlying information collected and providing recommendations on RI strategic agendas for future microbiome activities and applications and showing the connexions with the regulations will be assembled and made available via projects website

General recommendations on how to analyse metagenomic datasets

General recommendations on how to analyse metagenomic datasets will be implemented in a joint white paper and made available as a publication in the peerreviewed journal

Opinion paper on minimum requirements for meta data

Paper defining sampling and storage procedures as well as minimum requirements for meta data to be applied in the future studies (Analogous to MIQE publication (https://www.ncbi.nlm.nih.gov/pubmed/19246619) that standardized qPCR-based studies)

Report on targeted dissemination to regulatory, industry and society and impact indicators

Report assessing the impact of dissemination activities executed throughout the project and providing recommendations for postproject impact insurance will be composed and made available via project website

Report on Common Ground Workshop

Report describing outcome of the Common Group Workshop with an overview of collected data and a strategy for the mapping survey (Task 1.2.)

Minutes of the work meeting with the European regulation agency/experts organized in task 3.3

Workshop with the European regulation agencyexperts as well as scientific experts industrials and policymakers will be organized in order to facilitate the dialog and to build a clear path to new applications Report on the workshop conclusions will be made available via projects website

Summary report of the IBF Meeting 2020

Summary report of the IBF Meeting related to the WG Food Systems Microbiomes in2020 Berlin Germany

Presentation of the analysis of the Knowledge platform and hub to MicrobiomeSupport meeting and to the IBF ‘Food Systems Microbiome’ working group

Presentation summarizing results of the analysis of the Knowledge platform and hub will be given in course of MicrobiomeSupport meeting to consortium and to the IBF ‘Food Systems Microbiome’ working group. The presentation will also be made available to all stakeholders via project’s website.

Review paper on the integrative use of different –omics technologies in microbiome research

A document defining stateoftheart and future needs in the area of omics technologies This document will also propose a strategy of how these needs should be addressed and what advantages would ensue

Plan for the sustainable engagement with stakeholders

Working document proposing strategies for sustainable engagement of all relevant stakeholders will be provided to all project partners

Position paper on microbiome definition

Document providing an overview on currently used microbiome definitions and the recommendation for more standardized microbiome definition to be used in the future

Communication and dissemination plan

Communication and dissemination plan containing information on key messages, targeted audiences and recommended communication channels (within the consortium but also towards external stakeholders) will be provided to all project partners

Synthesis paper on microbiome research globally

Synthesis paper providing an overview of all data collected in Tasks 1.1, 1.2 and 1.3. with an emphasis of highlighting the existing links and identified needs

Other (4)

Final conference

Final conference will be held and report made available via project website

Standards available via national culture collections

Bacterial and fungal strains that are constituent of standards for microbiome research defined in Task 23 will be deposited in selected national culture collections and thus made available to research community

Concept of an IBF Website

The IBF website will be established at the domain wwwbioeconomyforumorg andregularly updated with the content provided by IBF members until the end of theMicrobiomeSupport project In M18 the main concept for this IBF website has beensubmitted to the IBF for review Lead FZJ Support VLO AIT

Trans-sectorial workshop organized in Task 3.2.

Workshop with the members of the three MicrobiomeSupport Advisory Groups will be organised in order to elaborate microbiomerelated strategic agendas Report on the workshop conclusions will be made available via projects website

Websites, patent fillings, videos etc. (2)

Project website

Project website will be made available on www.microbiomsupport.eu. The website will also host the Database established in WP1

Database (accessible via MicrobiomeSupport webpage) containing information on microbiome-related research, throughout the food systems and beyond

Database containing data collected in Tasks 11 12 and 13 will be made available as an open access resource to all stakeholders through the projects website established in WP5

Open Research Data Pilot (1)

Data Management Plan

Data management plan will be established and regularly updated. These documents will be made available to all project partners via project’s website

Veröffentlichungen

Peer reviewed articles (11)

Microbiome Research as an Effective Driver of Success Stories in Agrifood Systems – A Selection of Case Studies

Autoren: Rocío Olmo 1,2*, Stefanie Urimare Wetzels 1,2, Jaderson Silveira Leite Armanhi 3,4, Paulo Arruda 4,5,6, Gabriele Berg 7,8,9, Tomislav Cernava 7, Paul D. Cotter 10,11, Solon Cordeiro Araujo 12,13, Rafael Soares Correa de Souza 3,5, Ilario Ferrocino 14, Jens C. Frisvad 15, Marina Georgalaki 16, Hanne Helene Hansen 17, Maria Kazou 16, George Seghal Kiran 18, Tanja Kostic 19, Susanne Krauss-Etschmann
Veröffentlicht in: Frontiers in Microbiology July 2022, 2022, ISSN 1664-302X
Herausgeber: Frontiers Media
DOI: 10.3389/fmicb.2022.834622

Microbiome ethics, guiding principles for microbiome research, use and knowledge management

Autoren: Lene Lange1*, Gabriele Berg2, Tomislav Cernava2, Marie‑Christine Champomier‑Vergès3, Trevor Charles4, Luca Cocolin5, Paul Cotter6, Kathleen D’Hondt7, Tanja Kostic8, Emmanuelle Maguin3, Thulani Makhalanyane9, Annelein Meisner10, Matthew Ryan11, George Seghal Kiran12, Rafael Soares de Souza13, Yolanda Sanz14, Michael Schloter15, Hauke Smidt16, Steve Wakelin17 and Angela Sessitsch8*
Veröffentlicht in: Environmental Microbiome, 2022, ISSN 2524-6372
Herausgeber: BMC Journals
DOI: 10.1186/s40793-022-00444-y

Towards a unified data infrastructure to support European and global microbiome research: a call to action

Autoren: Matthew J. Ryan, Michael Schloter, Gabriele Berg, Linda L. Kinkel, Kellye Eversole, James A. Macklin, Daria Rybakova, Angela Sessitsch
Veröffentlicht in: Environmental Microbiology, Ausgabe Volume 23, Ausgabe 1, January 2021, 2021, Seite(n) 372-375, ISSN 1462-2920
Herausgeber: Society for Applied Microbiology and John Wiley & Sons Ltd
DOI: 10.1111/1462-2920.15323

The need for an integrated multi-OMICs approach in microbiome science in the food system

Autoren: Ilario Ferrocino, Kalliopi Rantsiou, Ryan McClure, Tanja Kostic, Rafael Soares Correa de Souza, Lene Lange, Jamie FitzGerald, Aicha Kriaa, Paul Cotter, Emmanuelle Maguin, Bettina Schelkle, Michael Schloter, Gabriele Berg, Angela Sessitsch, Luca Cocolin, The MicrobiomeSupport Consortium
Veröffentlicht in: Comprehensive Review Food Science, Food Safety, Wiley, 2022, ISSN 1541-4337
Herausgeber: International Life Sciences Institute
DOI: 10.1111/1541-4337.13103

Calling for a systems approach in microbiome research and innovation

Autoren: Annelein Meisner, Beatrix Wepner, Tanja Kostic, Leo S van Overbeek, Christine J Bunthof, Rafael Soares Correa de Souza, Marta Olivares, Yolanda Sanz, Lene Lange, Doreen Fischer, Angela Sessitsch and Hauke Smidt, MicrobiomeSupport Consortium
Veröffentlicht in: Current Opinion in Biotechnology, Ausgabe 73, 2022, 2022, Seite(n) 171-178, ISSN 0958-1669
Herausgeber: Elsevier BV
DOI: 10.1016/j.copbio.2021.08.003

Microbiome-based solutions to address new and existing threats to food security, nutrition, health and agrifood systems’ sustainability

Autoren: Karel Callens1*, Fanette Fontaine1, Yolanda Sanz2, Anne Bogdanski1, Kathleen D'Hondt3, Lene Lange4, Hauke Smidt5, Leo Van Overbeek5, Tanja Kostic6, Emmanuelle Maguin7, Annelein Meisner5, Inga Sarand8 and Angela Sessitsch6*
Veröffentlicht in: Frontiers in Sustainable Food Systems, 2022, ISSN 2571-581X
Herausgeber: Frontiers
DOI: 10.3389/fsufs.2022.1047765

Metadata harmonization–Standards are the key for a better usage of omics data for integrative microbiome analysis

Autoren: Tomislav Cernava, Daria Rybakova, François Buscot, Thomas Clavel, Alice Carolyn McHardy, Fernando Meyer, Folker Meyer, Jörg Overmann, Bärbel Stecher, Angela Sessitsch, Michael Schloter, Gabriele Berg & The MicrobiomeSupport Team
Veröffentlicht in: Environmental Microbiome volume (2022), Ausgabe 17, Article number: 33, 2022, ISSN 2524-6372
Herausgeber: Springer Nature
DOI: 10.1186/s40793-022-00425-1

Microbiome innovations for a sustainable future

Autoren: Kathleen D’Hondt, Tanja Kostic, Richard McDowell, Francois Eudes, Brajesh K. Singh, Sara Sarkar, Marios Markakis, Bettina Schelkle, Emmanuelle Maguin & Angela Sessitsch
Veröffentlicht in: Nature Microbiology, Ausgabe 6, 2021, 2021, Seite(n) 138-142, ISSN 2058-5276
Herausgeber: springer natura ltd.
DOI: 10.1038/s41564-020-00857-w

Microbiome definition re-visited: old concepts and new challenges

Autoren: Gabriele Berg, Daria Rybakova, Doreen Fischer, Tomislav Cernava, Marie-Christine Champomier Vergès, Trevor Charles, Xiaoyulong Chen, Luca Cocolin, Kellye Eversole, Gema Herrero Corral, Maria Kazou, Linda Kinkel, Lene Lange, Nelson Lima, Alexander Loy, James A. Macklin, Emmanuelle Maguin, Tim Mauchline, Ryan McClure, Birgit Mitter, Matthew Ryan, Inga Sarand, Hauke Smidt, Bettina Schelkle, Hugo Rou
Veröffentlicht in: Microbiome, Ausgabe 8/1, 2020, ISSN 2049-2618
Herausgeber: BMC
DOI: 10.1186/s40168-020-00875-0

Next generation tools for crop-microbiome manipulation to mitigate the impact of climate change

Autoren: Bruna D. Batista, Brajesh K. Singh
Veröffentlicht in: Next generation tools for crop-microbiome manipulation to mitigate the impact of climate change, 2022, ISSN 1462-2920
Herausgeber: Applied Microbiology International and John Wiley & Sons Ltd
DOI: 10.1111/1462-2920.16231

Development of Microbiome Biobanks – Challenges and Opportunities

Autoren: M.J. Ryan, M. Schloter, G. Berg, T. Kostic, L.L. Kinkel, K. Eversole, J.A. Macklin, B. Schelkle, M. Kazou, I. Sarand, B.K. Singh, D. Fischer, E. Maguin, I. Ferrocino, N. Lima, R.S. McClure, T.C. Charles, R.S.C. de Souza, G.S. Kiran, H.L. Krug, J. Taffner, H. Roume, J. Selvin, D. Smith, D. Rybakova, A. Sessitsch
Veröffentlicht in: Trends in Microbiology, 2020, ISSN 0966-842X
Herausgeber: Elsevier BV
DOI: 10.1016/j.tim.2020.06.009