2026

Unbinned contigs expand known diversity in the global microbiome.
Prasoodanan Pk, Vishnu, Maistrenko, Oleksandr M. ORCID: https://orcid.org/0000-0003-1961-7548, Fullam, Anthony ORCID: https://orcid.org/0000-0002-0884-8124, Mende, Daniel R. ORCID: https://orcid.org/0000-0001-6831-4557, Kartal, Ece, Coelho, Luis Pedro ORCID: https://orcid.org/0000-0002-9280-7885, Spang, Anja ORCID: https://orcid.org/0000-0002-6518-8556, Bork, Peer ORCID: https://orcid.org/0000-0002-2627-833X and Schmidt, Thomas S.B. ORCID: https://orcid.org/0000-0001-8587-4177
Nature Microbiology 11 (5): 1437-1449. May 2026

2025

Systematic mapping of antibiotic cross-resistance and collateral sensitivity with chemical genetics.
Sakenova, N., Cacace, E. ORCID: https://orcid.org/0000-0001-8239-0353, Orakov, A. ORCID: https://orcid.org/0000-0001-6823-5269, Huber, F., Varik, V. ORCID: https://orcid.org/0000-0001-6900-6986, Kritikos, G. ORCID: https://orcid.org/0000-0003-1434-5176, Michiels, J. ORCID: https://orcid.org/0000-0002-3043-3259, Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X, Cossart, P., Goemans, C.V. ORCID: https://orcid.org/0000-0002-5564-1644 and Typas, A. ORCID: https://orcid.org/0000-0002-0797-9018
Nature Microbiology 10 (1): 202-216. January 2025

2023

Modelling viral encephalitis caused by herpes simplex virus 1 infection in cerebral organoids.
Rybak-Wolf, A. ORCID: https://orcid.org/0000-0002-1192-5290, Wyler, E. ORCID: https://orcid.org/0000-0002-9884-1806, Pentimalli, T.M. ORCID: https://orcid.org/0000-0002-8461-7918, Legnini, I. ORCID: https://orcid.org/0000-0002-8984-5215, Oliveras Martinez, A. ORCID: https://orcid.org/0000-0002-5880-5245, Glažar, P. ORCID: https://orcid.org/0000-0003-0842-0088, Loewa, A. ORCID: https://orcid.org/0000-0002-5551-731X, Kim, S.J. ORCID: https://orcid.org/0000-0001-8357-0073, Kaufer, B.B. ORCID: https://orcid.org/0000-0003-1328-2695, Woehler, A. ORCID: https://orcid.org/0000-0001-5157-9313, Landthaler, M. ORCID: https://orcid.org/0000-0002-1075-8734 and Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332
Nature Microbiology 8 (7): 1252-1266. July 2023

Live-attenuated vaccine sCPD9 elicits superior mucosal and systemic immunity to SARS-CoV-2 variants in hamsters.
Nouailles, G. ORCID: https://orcid.org/0000-0003-1973-3119, Adler, J.M. ORCID: https://orcid.org/0000-0001-8147-0351, Pennitz, P. ORCID: https://orcid.org/0000-0002-8132-7237, Peidli, S. ORCID: https://orcid.org/0000-0002-4257-8690, Teixeira Alves, L.G. ORCID: https://orcid.org/0000-0002-5822-4168, Baumgardt, M. ORCID: https://orcid.org/0000-0003-2077-3716, Bushe, J., Voss, A., Langenhagen, A., Langner, C. ORCID: https://orcid.org/0000-0001-7311-3477, Martin Vidal, R. ORCID: https://orcid.org/0000-0002-9670-5640, Pott, F. ORCID: https://orcid.org/0000-0003-3700-1691, Kazmierski, J. ORCID: https://orcid.org/0000-0002-7962-2165, Ebenig, A. ORCID: https://orcid.org/0000-0001-7066-0184, Lange, M.V., Mühlebach, M.D. ORCID: https://orcid.org/0000-0002-7069-5018, Goekeri, C. ORCID: https://orcid.org/0000-0002-1616-4005, Simmons, S., Xing, N., Abdelgawad, A., Herwig, S., Cichon, G., Niemeyer, D. ORCID: https://orcid.org/0000-0002-1897-6365, Drosten, C. ORCID: https://orcid.org/0000-0001-7923-0519, Goffinet, C. ORCID: https://orcid.org/0000-0002-3959-004X, Landthaler, M. ORCID: https://orcid.org/0000-0002-1075-8734, Blüthgen, N. ORCID: https://orcid.org/0000-0002-0171-7447, Wu, H., Witzenrath, M., Gruber, A.D. ORCID: https://orcid.org/0000-0002-4502-0393, Praktiknjo, S.D. ORCID: https://orcid.org/0000-0002-0186-5271, Osterrieder, N., Wyler, E. ORCID: https://orcid.org/0000-0002-9884-1806, Kunec, D. ORCID: https://orcid.org/0000-0001-6697-7621 and Trimpert, J. ORCID: https://orcid.org/0000-0003-1616-0810
Nature Microbiology 8 (5): 860-874. May 2023

2021

Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean.
Royo-Llonch, M. ORCID: https://orcid.org/0000-0003-2966-9093, Sánchez, P. ORCID: https://orcid.org/0000-0003-2787-822X, Ruiz-González, C., Salazar, G., Pedrós-Alió, C., Sebastián, M. ORCID: https://orcid.org/0000-0001-7175-8941, Labadie, K. ORCID: https://orcid.org/0000-0001-7467-8509, Paoli, L. ORCID: https://orcid.org/0000-0003-0771-8309, M. Ibarbalz, F., Zinger, L., Churcheward, B., Chaffron, S. ORCID: https://orcid.org/0000-0001-5903-617X, Eveillard, D. ORCID: https://orcid.org/0000-0002-8162-7360, Karsenti, E., Sunagawa, S. ORCID: https://orcid.org/0000-0003-3065-0314, Wincker, P. ORCID: https://orcid.org/0000-0001-7562-3454, Karp-Boss, L., Bowler, C. ORCID: https://orcid.org/0000-0003-3835-6187 and Acinas, S.G. ORCID: https://orcid.org/0000-0003-3835-6187
Nature Microbiology 6 (12): 1561-1574. December 2021

2018

Recovery of gut microbiota of healthy adults following antibiotic exposure.
Palleja, A. ORCID: https://orcid.org/0000-0001-5388-4063, Mikkelsen, K.H., Forslund, S.K. ORCID: https://orcid.org/0000-0003-4285-6993, Kashani, A., Allin, K.H., Nielsen, T. ORCID: https://orcid.org/0000-0002-2066-7895, Hansen, T.H. ORCID: https://orcid.org/0000-0001-5948-8993, Liang, S., Feng, Q., Zhang, C., Pyl, P.T., Coelho, L.P., Yang, H., Wang, J., Typas, A. ORCID: https://orcid.org/0000-0002-0797-9018, Nielsen, M.F., Nielsen, H.B., Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X, Wang, J., Vilsbøll, T., Hansen, T. ORCID: https://orcid.org/0000-0001-8748-3831, Knop, F.K. ORCID: https://orcid.org/0000-0002-2495-5034, Arumugam, M. ORCID: https://orcid.org/0000-0002-0886-9101 and Pedersen, O.
Nature Microbiology 3 : 1255-1265. November 2018

Nutritional preferences of human gut bacteria reveal their metabolic idiosyncrasies.
Tramontano, M. ORCID: https://orcid.org/0000-0001-6407-527X, Andrejev, S. ORCID: https://orcid.org/0000-0002-7875-0261, Pruteanu, M. ORCID: https://orcid.org/0000-0003-0484-8503, Klünemann, M., Kuhn, M. ORCID: https://orcid.org/0000-0002-2841-872X, Galardini, M. ORCID: https://orcid.org/0000-0003-2018-8242, Jouhten, P., Zelezniak, A., Zeller, G. ORCID: https://orcid.org/0000-0003-1429-7485, Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X, Typas, A. ORCID: https://orcid.org/0000-0002-0797-9018 and Patil, K.R. ORCID: https://orcid.org/0000-0002-6166-8640
Nature Microbiology 3 (3): 514-522. April 2018

Enterotypes in the landscape of gut microbial community composition.
Costea, P.I. ORCID: https://orcid.org/0000-0003-1645-3947, Hildebrand, F. ORCID: https://orcid.org/0000-0002-0078-8948, Manimozhiyan, A., Baeckhed, F., Blaser, M.J. ORCID: https://orcid.org/0000-0003-2447-2443, Bushman, F.D. ORCID: https://orcid.org/0000-0003-4740-4056, de Vos, W.M. ORCID: https://orcid.org/0000-0002-0273-3166, Ehrlich, S.D., Fraser, C.M., Hattori, M., Huttenhower, C. ORCID: https://orcid.org/0000-0002-1110-0096, Jeffery, I.B., Knights, D., Lewis, J.D., Ley, R.E., Ochman, H., O'Toole, P.W., Quince, C., Relman, D.A., Shanahan, F., Sunagawa, S. ORCID: https://orcid.org/0000-0003-3065-0314, Wang, J., Weinstock, G.M., Wu, G.D., Zeller, G. ORCID: https://orcid.org/0000-0003-1429-7485, Zhao, L., Raes, J., Knight, R. ORCID: https://orcid.org/0000-0002-0975-9019 and Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X
Nature Microbiology 3 (1): 8-16. January 2018

2017

Cryo-EM structure of the extended type VI secretion system sheath-tube complex.
Wang, J. ORCID: https://orcid.org/0000-0001-8218-1981, Brackmann, M. ORCID: https://orcid.org/0000-0003-0079-1693, Castaño-Díez, D., Kudryashev, M. ORCID: https://orcid.org/0000-0003-3550-6274, Goldie, K.N., Maier, T. ORCID: https://orcid.org/0000-0002-7459-1363, Stahlberg, H. ORCID: https://orcid.org/0000-0002-1185-4592 and Basler, M. ORCID: https://orcid.org/0000-0001-5414-2088
Nature Microbiology 2 (11): 1507-1512. November 2017

2016

The metabolic background is a global player in Saccharomyces gene expression epistasis.
Alam, M.T., Zelezniak, A., Mülleder, M., Shliaha, P., Schwarz, R. ORCID: https://orcid.org/0000-0001-9155-4268, Capuano, F., Vowinckel, J., Radmaneshfar, E., Krüger, A., Calvani, E., Michel, S., Börno, S., Christen, S., Patil, K.R., Timmermann, B., Lilley, K.S. and Ralser, M.
Nature Microbiology 1 : 15030. 1 February 2016