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Carlini, D. B.; Winslow, S. K.; Cloppenborg-Schmidt, K.; Baines, J. F.: Quantitative microbiome profiling of honey bee (Apis mellifera) guts is predictive of winter colony loss in northern Virginia (USA). Scientific Reports 14, 11021 (2024)

von Hoyningen-Huene, A. J. E.; Bang, C.; Rausch, P.; Rühlemann, M.; Fokt, H.; He, J.; Jensen, N.; Knop, M.; Petersen, C.; Schmittmann, L. et al.; Zimmer, T.; Baines, J. F.; Bosch, T. C. G.; Hentschel, U.; Reusch, T. B. H.; Roeder, T.; Franke, A.; Schulenburg, H.; Stukenbrock, E.; Schmitz, R. A.: The archaeome in metaorganism research, with a focus on marine models and their bacteria–archaea interactions. Frontiers in Microbiology 15, 1347422 (2024)

Andreani, N. A.; Sharma, A.; Dahmen, B.; Specht, H. E.; Mannig, N.; Ruan, V.; Keller, L.; Baines, J. F.; Herpertz-Dahlmann, B.; Dempfle, A. et al.; Seitz, J.: Longitudinal analysis of the gut microbiome in adolescent patients with anorexia nervosa: microbiome-related factors associated with clinical outcome. Gut Microbes 16 (1), 2304158 (2024)

Rühlemann, M. C.; Bang, C.; Gogarten, J. F.; Hermes, B.-M.; Groussin, M.; Waschina, S.; Poyet, M.; Ulrich, M.; Akoua-Koffi, C.; Deschner, T. et al.; Muyembe-Tamfum, J. J.; Robbins, M. M.; Surbeck, M.; Wittig , R. M.; Zuberbühler, K.; Baines, J. F.; Leendertz, F. H.; Franke, A.: Functional host-specific adaptation of the intestinal microbiome in hominids. Nature Communications 15 (1), 326 (2024)

Liu, X.; van Beek, N.; Čepić, A.; Andreani, N. A.; Chung, C. J.; Hermes, B.; Yilmaz, K.; Benoit, S.; Drenovska, K.; Gerdes, S. et al.; Gläser, R.; Goebeler, M.; Günther, C.; von Georg, A.; Hammers, C. M.; Holtsche, M. M.; Hübner, F.; Kiritsi, D.; Schauer, F.; Linnenmann, B.; Huilaja, L.; Tasanen-Määttä, K.; Vassileva, S.; Zillikens, D.; Sadik, C. D.; Schmidt, E.; Ibrahim, S.; Baines, J. F.: The gut microbiome in bullous pemphigoid: implications of the gut-skin axis for disease susceptibility. Frontiers in Immunology 14, 1212551 (2023)

Pontarollo, G.; Kollar, B.; Mann, A.; Khuu, M. P.; Kiouptsi, K.; Bayer, F.; Brandão, I.; Zinina, V. V.; Hahlbrock, J.; Malinarich, F. et al.; Mimmler, M.; Bhushan, S.; Marini, F.; Ruf, W.; Belheouane, M.; Baines, J. F.; Endres, K.; Reba, S. M.; Raker, V. K.; Deppermann, C.; Welsch, C.; Bosmann, M.; Soshnikova, N.; Chassaing, B.; Bergentall, M.; Sommer, F.; Bäckhed, F.; Reinhardt, C.: Commensal bacteria weaken the intestinal barrier by suppressing epithelial neuropilin-1 and Hedgehog signaling. Nature Metabolism 5, pp. 1174 - 1187 (2023)

Chung, C. J.; Hermes, B.-M.; Gupta, Y.; Ibrahim, S.; Belheouane, M.; Baines, J. F.: Genome-wide mapping of gene-microbe interactions in the murine lung microbiota based on quantitative microbial profiling. Animal Microbiome 5, 31 (2023)

Ma, Y.; He, J.; Sieber, M.; von Frieling, J.; Bruchhaus, I.; Baines, J. F.; Bickmeyer, U.; Roeder, T.: The microbiome of the marine flatworm Macrostomum lignano provides fitness advantages and exhibits circadian rhythmicity. Communications Biology 6, 289 (2023)

Belheouane, M.; Hermes, B. M.; Van Beek, N.; Benoit, S.; Bernard, P.; Drenovska, K.; Gerdes, S.; Gläser, R.; Goebeler, M.; Günther, C. et al.; von Georg, A.; Hammers, C. M.; Holtsche, M. M.; Homey, B.; Horváth, O. N.; Hübner, F.; Linnemann, B.; Joly, P.; Márton, D.; Patsatsi, A.; Pföhler, C.; Sárdy, M.; Huilaja, L.; Vassileva, S.; Zillikens, D.; Ibrahim, S.; Sadik, C. D.; Schmidt, E.; Baines, J. F.: Characterization of the skin microbiota in bullous pemphigoid patients and controls reveals novel microbial indicators of disease. Journal of advanced research: JAR 44, pp. 71 - 79 (2023)

Borges, A. S. G.; Basu, M.; Brinks, E.; Bang, C.; Cho, G.-S.; Baines, J. F.; Franke, A.; Franz, C. M. A. P.: Fast identification method for screening bacteria from faecal samples using Oxford Nanopore Technologies MinION sequencing. Current Microbiology 80, 101 (2023)

Unni, R.; Andreani, N. A.; Vallier, M.; Heinzmann, S.; Taubenheim, J.; Guggeis, M. A.; Tran, F.; Vogler, O.; Künzel, S.; Hövener, J.-B. et al.; Rosenstiel, P.; Kaleta, C.; Dempfle, A.; Unterweger, D.; Baines, J. F.: Evolution of E. coli in a mouse model of inflammatory bowel disease leads to a disease-specific bacterial genotype and trade-offs with clinical relevance. Gut Microbes 15 (2), 2286675 (2023)

Vallier, M.; Suwandi, A.; Ehrhardt, K.; Belheouane, M.; Berry, D.; Čepić, A.; Galeev, A.; Johnsen, J. M.; Grassl, G. A.; Baines, J. F.: Pathometagenomics reveals susceptibility to intestinal infection by Morganella to be mediated by the blood group-related B4galnt2 gene in wild mice. Gut Microbes 15 (1), 2164448 (2023)

Hermes, B. M.; Rademacher, F.; Chung, C.; Tiegs, G.; Bendix, M.-C.; de Zwaan, M.; Harder, J.; Baines, J. F.: Skin microbiota analysis in patients with anorexia nervosa and healthy-weight controls reveals microbial indicators of healthy weight and associations with the antimicrobial peptide psoriasin. Scientific Reports 12, 15515 (2022)

Suwandi, A.; Alvarez, K. G.; Galeev, A.; Steck, N.; Riedel, C. U.; Puente, J. L.; Baines, J. F.; Grassl, G. A.: B4galnt2-mediated host glycosylation influences the susceptibility to Citrobacter rodentium infection. Frontiers in Microbiology 13, 980495 (2022)

Specht, H. E.; Mannig, N.; Belheouane, M.; Andreani, N. A.; Tenbrock, K.; Biemann, R.; Borucki, K.; Dahmen, B.; Dempfle, A.; Baines, J. F. et al.; Herpertz-Dahlmann, B.; Seitz, J.: Lower serum levels of IL-1β and IL-6 cytokines in adolescents with anorexia nervosa and their association with gut microbiota in a longitudinal study. Frontiers in Psychiatry 13, 920665 (2022)

Doms, S.; Fokt, H.; Rühlemann, M. C.; Chung, C. J.; Künstner, A.; Ibrahim, S. M.; Franke, A.; Turner, L. M.; Baines, J. F.: Key features of the genetic architecture and evolution of host-microbe interactions revealed by high-resolution genetic mapping of the mucosa-associated gut microbiome in hybrid mice. eLife 11, e75419 (2022)

Fokt, H.; Unni, R.; Repnik, U.; Schmitz, R. A.; Bramkamp, M.; Baines, J. F.; Unterweger, D.: Bacteroides muris sp. nov. isolated from the cecum of wild-derived house mice. Archives of Microbiology 204 (9), 546 (2022)

Gröbner, E.-M.; Zeiler, M.; Fischmeister, F. P. S.; Kollndorfer, K.; Schmelz, S.; Schneider, A.; Haid-Stecher, N.; Sevecke, K.; Wagner, G.; Keller, L. et al.; Adan, R.; Danner, U.; van Elburg, A.; van der Vijgh, B.; Kooij, K. L.; Fetissov, S.; Andreani, N. A.; Baines, J. F.; Dempfle, A.; Seitz, J.; Herpertz-Dahlmann, B.; Karwautz, A.: The effects of probiotics administration on the gut microbiome in adolescents with anorexia nervosa—A study protocol for a longitudinal, double-blind, randomized, placebo-controlled trial. European Eating Disorders Review 30 (1), pp. 61 - 74 (2022)

Henneke, L.; Schlicht, K.; Andreani, N. A.; Hollstein, T.; Demetrowitsch, T.; Knappe, C.; Hartmann, K.; Jensen-Kroll, J.; Rohmann, N.; Pohlschneider, D. et al.; Geisler, C.; Schulte, D. M.; Settgast, U.; Türk, K.; Zimmermann, J.; Kaleta, C.; Baines, J. F.; Shearer, J.; Shah, S.; Shen-Tu, G.; Schwarz, K.; Franke, A.; Schreiber, S.; Laudes, M.: A dietary carbohydrate–gut Parasutterella–human fatty acid biosynthesis metabolic axis in obesity and type 2 diabetes. Gut Microbes 14 (1), e2057778 (2022)

Keller, L.; Dempfle, A.; Dahmen, B.; Schreiber, S.; Adan, R. A. H.; Andreani, N. A.; Danner, U. N.; Eisert, A.; Fetissov, S.; Fischmeister, F. P. S. et al.; Karwautz, A.; Konrad, K.; Kooij, K. L.; Trinh, S.; van der Vijgh, B.; van Elburg, A. A.; Zeiler, M.; Baines, J. F.; Seitz, J.; Herpertz-Dahlmann, B.: The effects of polyunsaturated fatty acid (PUFA) administration on the microbiome-gut-brain axis in adolescents with anorexia nervosa (the MiGBAN study): study protocol for a longitudinal, double-blind, randomized, placebo-controlled trial. Trials 23, 545 (2022)