Publications

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2026
A2
C5
INF

Eukaryotic and bacterial gut communities vary along a lifestyle-associated urbanization gradient: comparative analysis of Germany and Madagascar

Saalfrank, J., Rühlemann, M. C., Rausch, P., Hey, J. C., Rakotoarivelo, R. A., Rasamoelina, T., Rakotozandrindrainy, R., Randriamampionona, N., Schwarz, N. G., Razafindrakoto, R., Fusco, D., Franke, A., & Bang, C. (2026). Gut Microbes, 18(1), 2701492. doi: https://doi.org/10.1080/19490976.2026.2701492

2026
A1
B1
Z3

c-JUN controls microbial colonization via selective phagocytosis in the sea anemone Nematostella

Kaya, N. H., Abukhalaf, M., Fuentes, G., Taubenheim, J., Hentschel, U., Tholey, A., & Fraune, S. (2026). Nature Communications, 17(1), 6087. doi: https://doi.org/10.1038/s41467-026-75511-w

2026
A1
A2
C5
INF

Genome-scale metabolic models predict diet-and lifestyle-driven shifts of ecological interactions in the gut microbiome

Marinos, G., Moors, K. A., Rühlemann, M., Waschina, S., Lieb, W., Franke, A., Laudes, M., Groussin, M., Poyet, M., Kaleta, C., & Kadibalban, A. S. (2025). bioRxiv, 2025-09. doi: https://doi.org/10.1080/19490976.2026.2694811

 

2026
C5

TOFU-MAaPO: fast, scalable and reproducible analysis of large metagenome sequence data from the Sequence Read Archive

Wacker, E. M., Rühlemann, M. C., Franke, A., & Ellinghaus, D. (2026). Nature Communications, 17(1), 5215. doi: https://doi.org/10.1038/s41467-026-74033-9

2026

The island biology of the host microbiome

Sarkar, A., Raulo, A., Stothart, M. R., Ibata, N. G., Harty, S., Metcalf, C. J. E., Bohannan, B. J. M., Bennett, G. M., & Carmody, R. N. (2026). The island biology of the host microbiome. Trends in Microbiology. doi: https://doi.org/10.1016/j.tim.2026.03.001

2026
A1

Dietary patterns influence the in silico GABA production capacity of Bifidobacterium adolescentis HD17T2H and other human gut bacteria

Homscheid, A., Moors, K. A., Nap, B., Lieb, W., Franke, A., Laudes, M., Thiele, I., & Marinos, G. (2026). Scientific Reports. doi: https://doi.org/10.1038/s41598-026-43006-9

2025
A1

Virtual Colon: spatiotemporal modeling of metabolic interactions in a computational colonic environment

Marinos, G., Zimmermann, J., Taubenheim, J., & Kaleta, C. (2026). Msystems, 11(1), e01391-25. doi: https://doi.org/10.1128/msystems.01391-25

2025
C2

Fecal detection of calprotectin subunits links inflammatory bowel disease activity with chronicity of intestinal inflammation

Jukic, A., Hilbe, R., Zundel, L., Willeit, P., Faserl, K., Plattner, C., Zollner, A., Meyer, M., Siegmund, K., Klepsch, V., Marteau, V.,  Vich Vila, A., Schwärzler, J., Vouk, K., Kozsar, A., Rieder , D., Weichberger, A., Sarg, B.,  Grabherr, F., Mayr, L., Moser, P., Nemati, N., Scholl-Bürgi, S., Karall, D., Vogel, G. F., Welz, L., Aldrian, D., Koch, R., Pfister, A., Ran, Q., Kaser, A., Blumberg, R. S., Tancevski, I., Sommer, F., Bacher, P., Schreiber, S., Rosenstiel, P., Aden, K., Baier, G., Bakiri, L., Müller, T., Weiss, G., TRR241 IBDome Consortium, Weersma, R. K., Trajanoski, Z., Wagner, E. F., Tilg, H., Adolph, T. E., & Adolph, T. E. (2025). Gastroenterology. doi: https://doi.org/10.1053/j.gastro.2025.08.040

2025
C2

Sex-specific lifespan extension and anti-obesogenic effects of Salicornia europaea extract through Tor signaling modulation in Drosophila

Tahan Zadeh, N., Knop, M., Ulrich, L. M., Bruchhaus, I., Lang, R., Lüersen, K., Rimbach, G., & Roeder, T. (2025). Nutrients, 17(19), 3065. doi: https://doi.org/10.3390/nu17193065

2025
A4

Applying evolutionary theory to understand host–microbiome evolution

Week, B., Russell, S. L., Schulenburg, H., Bohannan, B. J. M., & Bruijning, M. (2025). Nat Ecol Evol . doi: https://doi.org/10.1038/s41559-025-02846-w

2025
C2

Chronic airway inflammation in Drosophila lacking the A20-like protein Trabid

Bossen, J., Knop, M., Niu, X., Thiedmann, M., Prange, R., Tahanzadeh, N., Franzenburg, S., Bruchhaus, I., Heine, H., & Roeder, T. (2025). Frontiers in immunology, 16, 1564386. doi: 10.3389/fimmu.2025.1564386

2025
C2

ATF6 activation alters colonic lipid metabolism causing tumour-associated microbial adaptation

Coleman, O. I., Sorbie, A., Riva, A., von Stern, M., Kuhls, S., Selegato, D. M., Siegert, L., Keidel, I., Köhler, N., Wirbel, J., Kacprowski, T., Dunkel, A., Pauling, J. K., Plagge, J., Mediel-Cuadra, D., Wagner, S. J., Chadly, I., Bierwith, S., Peng, T., Metzler, T., Li, X., Heikenwälder, M., Schafmayer, C., Hinz, S., Röder, C., Röcken, C., Zimmermann, M., Rosenstiel, P., Steiger, K., Jesinghaus, M., Liebisch, G., Ecker, J., Schmidt, C., Zeller, G., Janssen, K. P., & Haller, D. (2025). Nature Metabolism, 7(9), 1830-1850. doi: https://doi.org/10.1038/s42255-025-01350-6

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