2025

2025

Abdi, A., Gatri, E., Guilbaud, J., Bouallagui, H., Fadhlaoui, K., Garrait, G., & Ayed, L. (2025). Co-Cultivation of Potential Probiotic Strains Isolated from Water Kefir for Fermented Green Tea Beverage. Fermentation, 11(4), 169. https://doi.org/10.3390/fermentation11040169

Biderre-Petit, C., Hongleda, A. A., Marchal, G., Mehta, N., Guez, J.-S., Viollier, E., Scheepers, M., Courtine, D., & Fadhlaoui, K. (2025). Kineothrix sedimenti sp. Nov., a 3-hydroxybutyrate-producing bacterium isolated from sediment of the meromictic Lake Pavin. International Journal of Systematic and Evolutionary Microbiology, 75(4). https://doi.org/10.1099/ijsem.0.006750

Boudon, A., Kwiatkowski, D., Niderkorn, V., Forano, E., Nozière, P., Silberberg, M. (2025). Oral-stomach sampling to replace rumen-fistulated animals in ruminant nutrition research - a case study. bioRxiv 2025.01.17.633359; doi: https://doi.org/10.1101/2025.01.17.633359

Bravo De Laguna, F., Achard, C. S., Dunière, L., Parmentier, E., Helmja, K., Bertaud, B., Lebreton, P., Saornil, D., Chevaux, E., Castex, M., & Apper, E. (2025). In vitro characterization of amino acid digestibility and fermentative properties of a specific hydrolyzed yeast, and its in vivo effects on growth performance and fecal microbiota in weanling piglets. Frontiers in Nutrition, 12, 1596561. https://doi.org/10.3389/fnut.2025.1596561

De Sousa, T., Machado, S., Caniça, M., Ramos, M. J. N., Santos, D., Ribeiro, M., Hébraud, M., Igrejas, G., Alves, O., Costa, E., Silva, A., Lopes, R., & Poeta, P. (2025). Pseudomonas aeruginosa : One Health approach to deciphering hidden relationships in Northern Portugal. Journal of Applied Microbiology, lxaf037. https://doi.org/10.1093/jambio/lxaf037

De Sousa, T., Machado, S., Carvalho, M., Caniça, M., Ramos, M. J. N., Santos, D., Beyrouthy, R., Bonnet, R., Hébraud, M., Gomes, J. P., Igrejas, G., & Poeta, P. (2025). Bla producing Pseudomonas aeruginosa ST235 is involved in resistance to different β-lactams. Microbial Pathogenesis, 107962. https://doi.org/10.1016/j.micpath.2025.107962

De Sousa, T., Silva, C., Igrejas, G., Hébraud, M., & Poeta, P. (2025). The Interactive Dynamics of Pseudomonas aeruginosa in Global Ecology. Journal of Basic Microbiology, e70004. https://doi.org/10.1002/jobm.70004

De Sousa, T., Wang, H.Y., Lin, T.W., Caniça, M., Ramos, M., Santos. D., Silva, C., Saraiva, S., Beyrouthy, R., Bonnet, R., Hébraud, M., Igrejas, G., Poeta, P. (2025). Mutational Analysis of Colistin-Resistant Pseudomonas aeruginosa Isolates: From Genomic Background to Antibiotic Resistance . Pathogens, 2025, 14 (4), pp.387.  https://10.3390/pathogens14040387.

Delmas, E., Bingula, R., Del’homme, C., Meunier, N., Caille, A., Lyon-Belgy, N., Richard, R., Do Couto, M. G., Wittrant, Y., & Bernalier-Donadille, A. (2025). A Low-Gluten Diet Reduces the Abundance of Potentially Beneficial Bacteria in Healthy Adult Gut Microbiota. Nutrients, 17(15), 2389. https://doi.org/10.3390/nu17152389

Deschamps, C., Humbert, D., Brun, M., Denis, S., Durif, C., Apper, E., & Blanquet-Diot, S. (2025). Lactobacillus helveticus-derived postbiotic and live Saccharomyces boulardii restore gut microbiota after antibiotic disturbance in an in vitro canine gut model. Beneficial Microbes, 1‑21. https://doi.org/10.1163/18762891-bja00088

Desvignes, P., Ruiz, P., Guillot, L., Danon, J., Durand, A., Beaumont, M., Chaucheyras-Durand, F., & Forano, E. (2025). Transcriptomic analysis of the interactions between Fibrobacter succinogenes S85, Selenomonas ruminantium PC18 and a live yeast strain used as a ruminant feed additive. BMC Genomics, 26(1), 721. https://doi.org/10.1186/s12864-025-11894-2

Durif, C., Denis, S., Lemoine, N., Deschamps, C., Uriot, O., Brun, M., Guillou, D., & Blanquet-Diot, S. (2025). A new in vitro model of the adult pig colon microbiome : Application to the study of feed ingredients. Animal Microbiome, 7(1), 100. https://doi.org/10.1186/s42523-025-00465-1

Esmail, G. A., Uriot, O., Mottawea, W., Denis, S., Sultan, S., Njoku, E. N., Chiba, M., Tosh, S., Blanquet-Diot, S., & Hammami, R. (2025). Western diet-based NutriCol medium : A high-pectin, low-inulin culture medium promoted gut microbiota stability and diversity in PolyFermS and M-ARCOL continuous in vitro models. Food Research International, 206, 115993. https://doi.org/10.1016/j.foodres.2025.115993

Fakih, A., Ratel, J., Tsoureki, D., Mercier, F., Kondjoyan, N., Caccia, N.,  Botta, C., Rantsiou, K., Engel, E. (2025). How to sample Listeria monocytogenes culture for volatolomics by headspace extraction-gas chromatography-Q Exactive Orbitrap mass spectrometry?. Food Research International, 2025, 208, pp.116043. ⟨10.1016/j.foodres.2025.116043⟩

Gresse, R., Cappellozza, B.I.; Macheboeuf, D., Torrent, A., Danon, J., Capern, L., Sandvang, D., Niderkorn, V., Copani, G., Forano, E. (2025). In vitro investigation of the effects of Bacillus subtilis-810B and Bacillus licheniformis-809A on the rumen fermentation and microbiota. Animals 2025, 15, 476. https://doi.org/10.3390/ani15040476

Hitch, T. C. A., Bosch, J., Bolsega, S., Deschamps, C., Etienne-Mesmin, L., Treichel, N., Blanquet-Diot, S., Ocvirk, S., Basic, M., & Clavel, T. (2025). Function-Based Selection of Synthetic Communities Enables Mechanistic Microbiome Studies. https://doi.org/10.1101/2025.04.23.650235

Izquierdo, M., O’Sullivan, D., Uriot, O., Brun, M., Durif, C., Denis, S., Gallardo, P., Gahan, C. G. M., Etienne-Mesmin, L., Blanquet-Diot, S., & Farfan, M. J. (2025). Microbiota and metabolome dynamics induced by Shiga toxin-producing E. coli in an in vitro model of an infant’s colon. Microbial Cell, 12, 76‑92. https://doi.org/10.15698/mic2025.04.847

Kauer, L., Sapountzis, P., Imholt, C., Berens, C., & Kuehn, R. (2025). Microbial exchange at the wildlife-livestock interface : Insights into microbial composition, antimicrobial resistance and virulence factor gene dynamics in grassland ecosystems. Animal Microbiome, 7(1), 84. https://doi.org/10.1186/s42523-025-00448-2

Kavanaugh, D. W., Sivignon, A., Rossez, Y., Chouit, Z., Chambon, C., Béal, L., Bonnet, M., Hébraud, M., Guérardel, Y., Nguyen, H. T. T., & Barnich, N. (2025). Biochemical characterization of the Escherichia coli surfaceome : A focus on type I fimbriae and flagella. Frontiers in Microbiology, 16, 1507286. https://doi.org/10.3389/fmicb.2025.1507286

Martin, L., Philippe, R., Sabine, L., & Panagiotis, S. (2025). Escobase and AcR : Escherichia coli databases of genomes and acid resistance genes from isolates from cattle farms. https://doi.org/10.1101/2025.01.12.6325934

Mathien, C., Fourel, L., Gilbert, J., Portelli, C., Fadhlaoui, K., Diogon, M., Delbac, F., Texier, C., Peyretaillade, E., Goupil, P., Berthon, J. Y., Dreux-Zigha, A., & El Alaoui, H. (2025). In Vivo and In Vitro Evaluation of Probiotic and Postbiotic Strategies Against Foulbrood in Honeybees. Probiotics and Antimicrobial Proteins. https://doi.org/10.1007/s12602-025-10739-4

Okano, F., Harusato, A., Nakanishi, Y., Abo, H., Etienne-Mesmin, L., Kato, M., & Itoh, Y. (2025). Oral exposure to micro- and nanoplastics generated from polyethylene terephthalate suppresses acute intestinal damage in vivo. Journal of Hazardous Materials, 498, 139809. https://doi.org/10.1016/j.jhazmat.2025.139809

Otani, S., Jespersen, M.L., Brinch, C., Møller, F.D., Pilgaard, B., Jensen, E.E.B., Leekitcharoenphon, P., Svendsen, A.C., Aarestrup, A.H., Sonda, T., Sylvina, T.J., Leach, J., Piel, A., Stewart, F., Sapountzis, P., Kazyoba, P.E., Kumburu, H. (2025).  Genomic and functional co-diversification imprint African Hominidae microbiomes to signal dietary and lifestyle adaptations. Gut Microbes, 17(1). https://doi.org/10.1080/19490976.2025.2484385

Sommer, A. J., Skarlupka, J. H., Teseo, S., Otani, S., Suen, G., Coon, K. L., & Sapountzis, P. (2025). Genomic evidence for flies as carriers of zoonotic pathogens on dairy farms. Npj Biofilms and Microbiomes, 11(1). https://doi.org/10.1038/s41522-025-00685-y

Sommer, A. J., Worley, T. K., Sapountzis, P., & Coon, K. L. (2025). Phylogenetic intermixing reveals stable fly-mediated circulation of mastitis-associated bacteria in dairy settings. mSystems, e00215-25. https://doi.org/10.1128/msystems.00215-25

Uriot, O., Deschamps, C., Scanzi, J., Brun, M., Kerckhove, N., Dualé, C., Fournier, E., Durif, C., Denis, S., Dapoigny, M., Langella, P., Alric, M., Etienne-Mesmin, L., & Blanquet-Diot, S. (2025). Gut microbial dysbiosis associated to diarrheic irritable bowel syndrome can be efficiently simulated in the Mucosal ARtificial COLon (M-ARCOL). Bioengineered, 16(1). https://doi.org/10.1080/21655979.2025.2458362

Uriot, O., Defois-Fraysse, C., Couturier, I., Deschamps, C., Durif, C., Chaudemanche, C., Dreux-Zigha, A., & Blanquet-Diot, S. (2025). Effects of prebiotics from diverse sources on dysbiotic gut microbiota associated to western diet : Insights from the human Mucosal ARtificial COLon (M-ARCOL). Current Research in Food Science, 10, 100968. https://doi.org/10.1016/j.crfs.2024.100968