Microbial ecology lesson from re-use of open access metagenomic dataset: the case-study of fermented vegetables

Published: May 17, 2024 by FME Lab

Happy to share our last article published online last week 15th of May in Microbiology Spectrum¹.

This study being part of Romane Junker PhD (MaIAge/Micalis/CIRM-BIA laboratories). In this work, we show that the re-use of public 16S amplicon dataset can bring new understanding in the dynamic microbial ecology of fermented vegetables.

During the 1st Food System Conference in Torino last week, Romane also presented a poster pitch of the follow up of this study using new and public metagenomic shotgun data.

Junker R, Valence F, Mistou M, Chaillou S, Chiapello H.0. Integration of metataxonomic data sets into microbial association networks highlights shared bacterial community dynamics in fermented vegetables. Microbiol Spectr0:e00312-24. ↩

Lovely second annual meeting of DOMINO project in Cork, Ireland

The DOMINO project held its second annual meeting from 26 to 28 March in the picturesque city of Cork, Ireland. It was an intense and warm moment thanks to the efficient and very friendly organisation of Teagasc and its incredible team coordinated by Orla O’Sullivan and John Kenny.

Health promoting effects of Fermented Foods was the highlight at 2nd Forum on Fermented Foods in Malaga

#DominoEU researchers participated significantly to this amazing conference organised by the COST Pimento. Paul Cotter, Orla O’Sullivan, Jekaterina Kansatseva, Bastien Renard, Isabelle Savary-Auzeloux, Luca Cocolin, Kelly Rantsiou and Tanja Kostic gave talks.

Metagenomic driven isolation of poorly culturable species in food

A new article entitled “Metagenomic driven isolation of poorly culturable species in food” from Caroline and Pierre has been published in Food microbiology journal¹.

Kothe et al. *Metagenomic driven isolation of poorly culturable species in food. Food Microbiology. 2025 ↩