Below you can find a list of the group’s publications in reverse chronological order. In case you have trouble getting one of them, don’t hestitate to contact Markus. You can also find an up-to-date list on Markus’ Google Scholar page.
Emergent spatial structure in the gut microbiota is driven by bacterial growth and gut contractions. G Greter, S Hummel, D Künzli, N Dünki, N Ruoho, P Burkhardt, S Ganguillet, M Radiom, C Moresi, L Laganenka, W-D Hardt, S Geisel, S Jordi, B Misselwitz, B Yilmaz, J Slomka, E Secchi, R Stocker, E Slack, M Arnoldini, bioRxiv (2025)
Quantifying the daily harvest of fermentation product from the human gut microbiota. M Arnoldini, R Sharma, C Moresi, G Chure, J Chabbey, E Slack, J Cremer, bioRxiv (2024), just accepted at Cell.
Acute targeted induction of gut-microbial metabolism disrupts host circadian rhythm. G Greter, S Oswald, D Künzli, J Lan, E Slack, M Arnoldini, reviewed preprint at Elife (2024)
Experimental in vitro microfluidic calorimetric chip data towards the early detection of infection on implant surfaces. SLK Vehusheia, CI Roman, M Arnoldini, C Hierold, Sensors (2024), (3) 1019
Non-invasive monitoring of microbiota and host metabolism using secondary electronspray ionization mass spectrometry. J Lan, G Greter, B Streckenback, M Arnoldini, R Zenobi, E Slack, Cell Reports Methods (2023), 3 (8)
Enabling direct microcalorimetric measurement of metabolic activity and exothermic reactions onto microfluidic platforms via heat flux sensor integration. SLK Vehusheia, C Roman, O Braissant, M Arnoldini, C Hierold, Microsystems & Nanoengineering (2023), 9 (56)
Fitness advantage of Bacteroides thetaiotaomicron capsular polysaccharide in the mouse gut depends on the resident microbiota. D Hoces, G Greter, M Arnoldini, ML Stäubli, C Moresi, A Sintsova, S Berent, I Kolinko, F Bansept, A Woller, J Häfliger, E Martens, W-D Hardt, S Sunagawa, C Loverdo, E Slack, eLife (2023), 12, e81212
Metabolic reconstitution of germ-free mice by a gnotobiotic microbiota varies over the circadian cycle. D Hoces, J Lan, W Sun, T Geiser, ML Stäubli, E Cappio Barrazone, M Arnoldini, TD Challa, M Klug, A Kellenberger, S Nowok, E Faccin, AJ Macpherson, B Stecher, S Sunagawa, R Zenobi, W-D Hardt, C Wolfrum, E Slack, PLOS Biology (2022), 20 (9), e3001743
Smart investment of virus RNA testing resources to enhance Covid-19 mitigation. H Gorji, M Arnoldini, DF Jenny, W-D Hardt, P Jenny, PLOS ONE (2021), 16 (11), e0259018
A rationally designed oral vaccine induces immunoglobulin A in the murine gut that directs the evolution of attenuated Salmonella variants. M Diard, E Bakkeren, V Lentsch, A Rocker, NA Bekele, D Hoces, S Aslani, M Arnoldini, F Böhi, K Schumann-Moor, J Adamcik, L Piccoli, A Lanzavecchia, BM Stadtmueller, N Donohue, MW van der Woude, A Hockenberry, PH Viollier, L Falquet, D Wüthrich, F Bonfiglio, C Loverdo, A Egli, G Zandomeneghi, R Mezzenga, O Holst, BH Meier, W-D Hardt, E Slack, Nature Microbiology (2021), 6 (7), 830-841
Dynamic modeling to identify mitigation strategies for the COVID-19 pandemic. H Groji, M Arnoldini, DF Jenny, W-D Hardt, P Jenny, Swiss Medical Weekly (2021), 151, w20487
How the gut microbiota influences our health and how we can influence it. M Arnoldini, V Lentsch, D Latorre, G Greter, E Slack, A Giorgetti, A Groppo, L Kha. Frontiers for Young Minds (2021), 9 (576428) (review)
Escherichia coli limits Salmonella Typhimurium infections after diet shifts and fat-mediated microbiota perturbation in mice. SY Wotzka, M Kreuzer, L Maier, M Arnoldini, BD Nguyen, AO Brachmann, DL Berthold, M Zünd, A Hausmann, E Bakkeren, D Hoces, E Gül, M Beutler, T Dolowschiak, M Zimmermann, T Fuhrer, K Moor, U Sauer, A Typas, J Piel, M Diard, AJ Macpherson, B Stecher, S Sunagawa, E Slack, W-D Hardt, Nature Microbiology (2019), 4 (12), 2164-2174
Growing, evolving and sticking in a flowing environment: understanding IgA interactions with bacteria in the gut. D Hoces, M Arnoldini, M Diard, C Loverdo, E Slack, Immunology (2020), 159 (1), 52-62 (review)
Microbiota-derived peptide mimics drive lethal inflammatory cardiomyopathy. C Gil-Cruz, C Perez-Shibayama, A De Martin, F Ronchi, K Van Der Borght, R Niederer, L Onder, M Lütge, M Novkovic, V Nindl, G Ramos, M Arnoldini, EMC Slack, V Boivin-Jahns, R Jahns, M Wyss, C Mooser, BN Lambrecht, MT Maeder, H Rickli, L Flatz, U Eriksson, MB Geuking, KD McCoy, B Ludewig, Science (2019), 366 (6467),881-886
Why is measles vaccination so important. E Slack, M Arnoldini, D Latorre, S Aslani, V Biagioli, T Cruz, NE Dünki, ACJ Eichelberg, M Goldiger, N Howald, G Marastoni, T Marti, V Peterhans, L Slevakumar, A Winterberg, Frontiers for Young Minds (2019), 7 (119) (review)
Bacterial growth, flow, and mixing shape human gut microbiota density and composition. M Arnoldini, J Cremer, T Hwa, Gut Microbes (2018), 9 (6) (review)
Effect of water flow and chemical environment on microbiota growth and composition in the human colon. J Cremer, M Arnoldini, T Hwa, PNAS (2017), 114 (25), 6438-6443
High-avidity IgA protects the intestine by enchaining growing bacteria. K Moor, M Diard, ME Sellin, B Felmy, SY Wotzka, A Toska, E Bakkeren, M Arnoldini, F Bansept, A Dal Co, T Völler, A Minola, B Fernandez-Rodriguez, G Agatic, S Barbieri, L Piccoli, C Casiraghi, D Corti, A Lanzavecchia, RR Regoes, C Loverdo, R Stocker, DR Brumley, W-D Hardt, E Slack, Nature (2017), 544, 498-502
Effect of flow and peristaltic mixing on bacterial growth in a gut-like channel. J Cremer, I Segota, C Yang, M Arnoldini, J T Sauls, Z Zhang, A Groisman, T Hwa, PNAS (2016), 113 (41), 11414-11419
Genetic manipulation of glycogen allocation affects replicative lifespan in E. coli. A Böhm, M Arnoldini, T Bergmiller, C Bigosch, T Röösli, M Ackermann, PLOS Genetics (2016), 12 (4), e1005974
How type 1 fimbriae help Escherichia coli to evade extracellular antibiotics. IA Vizcarra, V Hosseini, P Kollmannsberger, S Meier, SS Weber, M Arnoldini, M Ackermann, V Vogel, Scientific Reports (2016), 6:18109
Antibiotic treatment selects for cooperative virulence of Salmonella typhimurium. M Diard, M E Sellin, T Dolowschiak, M Arnoldini, M Ackermann, W-D Hardt, Current Biology (2014), 24 (17), 2000-2005
Bistable expression of virulence genes in Salmonella leads to the formation an antibiotic tolerant subpopulation. M Arnoldini, I A Vizcarra, R Peña-Miller, N Stocker, M Diard, V Vogel, R E Beardmore, W-D Hardt, M Ackermann, PLOS Biology (2014), 12 (8), e1001928
Antagonism between bacteriostatic and bactericidal antibiotics is prevalent. PS Ocampo, V Lázár, B Papp, M Arnoldini, P Abel zur Wiesch, R Busa-Fekete, G Fekete, C Pál, M Ackermann, S Bonhoeffer, Antimicrobial Agents & Chemotherapy (2014), 58(8):4573
Monitoring of dynamic microbiological processes using real-time flow cytometry. M Arnoldini, T Heck, A Blanco, F Hammes, PLOS ONE (2013), 8(11): e80117
Evolution of stress response in the face of unreliable environmental signals. M Arnoldini, R Mostowy, S Bonhoeffer, M Ackermann, PLOS Comp Biol (2012), 8:e1002627-e1002627
The cost of virulence: retarded growth of Salmonella Typhimurium cells expressing type III secretion system 1. A Sturm, M Heinemann, M Arnoldini, A Benecke, M Ackermann, M Benz, J Dormann, W-D Hardt, PLOS Pathogens (2011), 7:e1002143-e100214
Arnoldini Lab 