Publications
Christina Pavloudi et al.
First release of the European marine omics biodiversity observation network (EMO BON) shotgun metagenomics data from water and sediment samples
Biodiversity Data Journal 2025, vol. 13
doi: 10.3897/bdj.13.e143585
Camille C Mangin et al.
Magnetotactic bacteria affiliated with diverse Pseudomonadota families biomineralize intracellular Ca-carbonate
The ISME Journal 2025, vol. 19, issue 1
doi: 10.1093/ismejo/wrae260
Claire Ricono et al.
Effect of organic farming on root microbiota, seed production and pathogen resistance in winter wheat fields
PLANTS, PEOPLE, PLANET 2024
doi: 10.1002/ppp3.10602
Jean Mainguy et al.
metagWGS, a comprehensive workflow to analyze metagenomic data using Illumina or PacBio HiFi reads
2024
doi: 10.1101/2024.09.13.612854
Lucia Campese et al.
The NEREA Augmented Observatory: an integrative approach to marine coastal ecology
Scientific Data 2024, vol. 11, issue 1
doi: 10.1038/s41597-024-03787-y
Marinna Gaudin et al.
Ecological associations distribution modelling of marine plankton at a global scale
Philosophical Transactions of the Royal Society B: Biological Sciences 2024, vol. 379, issue 1909
doi: 10.1098/rstb.2023.0169
Françoise Irlinger et al.
A comprehensive, large-scale analysis of “terroir” cheese and milk microbiota reveals profiles strongly shaped by both geographical and human factors
ISME Communications 2024, vol. 4, issue 1
doi: 10.1093/ismeco/ycae095
William Timothy Treal Taylor et al.
High altitude horse use and early horse transport in eastern Eurasia: New evidence from melting ice
The Holocene 2024
doi: 10.1177/09596836241254484
Ping Han et al.
Unveiling unique microbial nitrogen cycling and nitrification driver in coastal Antarctica
Nature Communications 2024, vol. 15, issue 1
doi: 10.1038/s41467-024-47392-4
Christophe Djemiel et al.
Unraveling biogeographical patterns and environmental drivers of soil fungal diversity at the French national scale
SOIL 2024, vol. 10, issue 1
doi: 10.5194/soil-10-251-2024
Nils Giordano et al.
Genome-scale community modelling reveals conserved metabolic cross-feedings in epipelagic bacterioplankton communities
Nature Communications 2024, vol. 15, issue 1
doi: 10.1038/s41467-024-46374-w
Camille d’Humières et al.
Perturbation and resilience of the gut microbiome up to 3 months after β-lactams exposure in healthy volunteers suggest an important role of microbial β-lactamases
Microbiome 2024, vol. 12, issue 1
doi: 10.1186/s40168-023-01746-0
Angelina Beavogui et al.
The defensome of complex bacterial communities
Nature Communications 2024, vol. 15, issue 1
doi: 10.1038/s41467-024-46489-0
Cassandre Bedu-Ferrari et al.
In-depth characterization of a selection of gut commensal bacteria reveals their functional capacities to metabolize dietary carbohydrates with prebiotic potential
mSystems 2024, vol. 9, issue 4
doi: 10.1128/msystems.01401-23
Téo Lemane et al.
Indexing and real-time user-friendly queries in terabyte-sized complex genomic datasets with kmindex and ORA
Nature Computational Science 2024, vol. 4, issue 2
doi: 10.1038/s43588-024-00596-6
Olivier Harlé et al.
Deciphering the metabolism of Lactobacillus delbrueckii subsp. delbrueckii during soy juice fermentation using phenotypic and transcriptional analysis
Applied and Environmental Microbiology 2024
doi: 10.1128/aem.01936-23
Clemens Schauberger et al.
Metagenome-assembled genomes of deep-sea sediments: changes in microbial functional potential lag behind redox transitions
ISME Communications 2024, vol. 4, issue 1
doi: 10.1093/ismeco/ycad005
Blandine Trouche et al.
Distribution and genomic variation of ammonia-oxidizing archaea in abyssal and hadal surface sediments
ISME Communications 2023, vol. 3, issue 1
doi: 10.1038/s43705-023-00341-6
Rebecca J. Stevick et al.
Anti-diarrheal drug loperamide induces dysbiosis in zebrafish microbiota via bacterial inhibition
Microbiome 2023, vol. 11, issue 1
doi: 10.1186/s40168-023-01690-z
Emma Bergsten et al.
Parvimonas micra , an oral pathobiont associated with colorectal cancer, epigenetically reprograms human colonocytes
Gut Microbes 2023, vol. 15, issue 2
doi: 10.1080/19490976.2023.2265138
Yujiao Zhang et al.
Genetic inhibition of CARD9 accelerates the development of atherosclerosis in mice through CD36 dependent-defective autophagy
Nature Communications 2023, vol. 14, issue 1
doi: 10.1038/s41467-023-40216-x
Elena Buelow et al.
Hospital and urban wastewaters shape the matrix and active resistome of environmental biofilms
Water Research 2023, vol. 244
doi: 10.1016/j.watres.2023.120408
Alex J. Veglia et al.
Endogenous viral elements reveal associations between a non-retroviral RNA virus and symbiotic dinoflagellate genomes
Communications Biology 2023, vol. 6, issue 1
doi: 10.1038/s42003-023-04917-9
Serge Planes et al.
Insights and achievements from the Tara Pacific expedition
Nature Communications 2023, vol. 14, issue 1
doi: 10.1038/s41467-023-38896-6
Rajat Kumar et al.
Genome-centric polyhydroxyalkanoate reconciliation reveals nutrient enriched growth dependent biosynthesis in Bacillus cereus IBA1
Bioresource Technology 2023, vol. 382
doi: 10.1016/j.biortech.2023.129210
Ioulia Santi et al.
European marine omics biodiversity observation network: a strategic outline for the implementation of omics approaches in ocean observation
Frontiers in Marine Science 2023, vol. 10
doi: 10.3389/fmars.2023.1118120
Alejandro Manzano-Marín et al.
Co-obligate symbioses have repeatedly evolved across aphids, but partner identity and nutritional contributions vary across lineages
Peer Community Journal 2023, vol. 3
doi: 10.24072/pcjournal.278
Morgan Gaïa et al.
Mirusviruses link herpesviruses to giant viruses
Nature 2023, vol. 616, issue 7958
doi: 10.1038/s41586-023-05962-4
Bo-Hyung Lee et al.
Investigation of the Genus Flavobacterium as a Reservoir for Fish-Pathogenic Bacterial Species: the Case of Flavobacterium collinsii
Applied and Environmental Microbiology 2023, vol. 89, issue 4
doi: 10.1128/aem.02162-22
Sophie Mieszkin et al.
Scleromatobacter humisilvae gen. nov., sp. nov., a novel bacterium isolated from oak forest soil
International Journal of Systematic and Evolutionary Microbiology 2023, vol. 73, issue 3
doi: 10.1099/ijsem.0.005793