Publications 2025

Almeida ME, Smahajcsik D, Zhang SD, Gram L 2025. Probiotic potential of Isochrysis galbana microbiomes against the fish pathogen Vibrio anguillarum. Aquaculture 743196 https://doi.org/10.1016/j.aquaculture.2025.743196

Bentzon-Tilia M, HenriksenNNSE, Schostag MD, Andersen AJC, Melchiorsen J, Strube ML, Gram L 2025. The autecology of an oscillating population of a novel host associated Phaeobacter species proliferating in bryozoans. ISME Communications accepted

Blin K, Shaw S, Vader L, Szenei J, Reitz ZL, Augustijn HE, Cediel-Becerra JDD , de Crécy-Lagard V, Koetsier RA, Williams SE, Cruz-Morales P, Wongwas S,  Luchsinger AES, Biermann F, Korenskaia A, Zdouc MM, Meijer D,Terlouw BR, van der Hooft JJJ, Ziemert N, Helfrich EJN, Wezel J, Medema MH , Weber T 2025. antiSMASH 8.0: extended gene cluster detection capabilities and analyses of chemistry, enzymology, and regulation. Nucleic Acids Research 53, W32–W38 https://doi.org/10.1093/nar/gkaf334 

Dinesen C, Vertot M, Jarmusch SA, Lozano-Andrade CN, Andersen AJC, Kovács ÁT 2025. Subtilosin A production is influenced by surfactin levels in Bacillus subtilis. microLIFE 6 uqae029 https://doi.org/10.1093/femsml/uqae029

Hansen ML, Kordatos KIT, Nørgaard JJK, Jørgensen JPB, Strube ML, Schostag MD, Yang L, Jelsbak L 2025. Genetic memory devices to detect specialized metabolites in soil microbiomes. ACS Synthetic Biology https://pubs.acs.org/doi/10.1021/acssynbio.5c00073

Hrabar J, Babić I, Jozić S, Trumbić S, Pioppi A, Nielsen LJD, Maravić A, Tomašević T, Kovács ÁT, Mladineo I 2025. Intestinal Bacillus velezensis is a promising probiotic candidate for application in the Mediterranean aquaculture. Animal Microbiome 7, 64 https://doi.org/10.1186/s42523-025-00429-5

Jarmusch AK, Aron AT, Petras D, Phelan VV, Bittremieux W, Acharya DD, Ahmed MMA, Bauermeister A, Bertin MJ, Boudreau PD, Borges RM, Bowen BP, Brown CJ, Chagas FO, Clevenger KD, Correia MSP, Crandall WJ, Crüsemann M, Damiani T, Fiehn O, Garg N, Gerwick WH, Gilbert JR, Globisch D, Gomes PWP, Heuckeroth S, James CA, Jarmusch SA, Kakhkhorov SA, Kang KB, Kersten RD, Kim H, Kirk RD, Kohlbacher O, Kontou EE, Liu K, Lizama-Chamu I, Luu GT, Knaan TL, Marty MT, McAvoy AC, McCall LI, Mohamed OG, Nahor O, Niedermeyer THJ, Northen TR, Overdahl KE, Pluskal T, Rainer J, Reher R, Rodriguez E, Sachsenberg TT, Sanchez LM, Schmid R, Stevens C, Tian Z, Tripathi A, Tsugawa H, Nishida K, Matsuzawa Y, van der Hooft JJJ, Vicini A, Walter A, Weber T, Xiong Q, Xu T, Zhao HN, Dorrestein PC, Wang M 2025. A Universal Language for Finding Mass Spectrometry Data Patterns. Nature Methods 22, 1247-1254 https://doi.org/10.1038/s41592-025-02660-z

Jarmusch SA, Schostag MD, Yang Z, Wang J, Weber T, Ding L 2025. Lydicamycins Induce Morphological Differentiation in Actinobacterial Interactions. Applied and Environmental Microbiology 91, e00295-25 https://doi.org/10.1128/aem.00295-25

Lozano-Andrade CN, Dinesen C, Wibowo M, Bach NA, Hesselberg-Thomsen V, Jarmusch SA, Strube ML, Kovacs AT 2025. Surfactin facilitates the establishment of Bacillus subtilis in synthetic communities. ISME Journal 19, wraf013 https://doi.org/10.1093/ismejo/wraf013

Lum KY, Kumar R, Yang Z, Souza LDO, Jarmusch SA, Moreira JMA, Morth JP, Ding L Discovery and Biosynthesis of Nyuzenamides D and E by Genome Mining in Streptomyces hygroscopicus. ACS Omega 10 27473–27482 https://doi.org/10.1021/acsomega.5c03067

Rutz A, Probst D, Aguilar C, Akiyama DY, Alberti F, Augustijn HE, Avalon NE, Beemelmanns C, Barbieri HB, Biermann F, Bridge AJ, Girón EC, Cox R, Crüsemann M, D’Agostino PM, Feuermann M, Gerke J, García KG, Jonathan E. Holme JE, Hwang J-Y, Iacovelli R, Barbosa JCJ 4 , Navneet Kaur N, Klapper M, Köhler AM, Korenskaia A, Kubach N, Lee BT, Loureiro C, Mantri S, Narula S, Meijer D, Navarro-Muñoz JC, Nguyen G-S, Paliyal S, Panghal M, Rao L, Sieber S, Sokolova N, Sowa ST, Szenei J, Terlouw BR, Weddeling HG, Yu J, Ziemert N, Weber T, Blin K, van der Hooft JJJ, Medema MH, Zdouc MM 2025. MITE: the Minimum Information about a Tailoring Enzyme database for capturing specialized metabolite biosynthesis. Nucleic Acids Research, gkaf969 https://doi.org/10.1093/nar/gkaf969

Smahajcsik D, Roager L, Strube ML, Zhang S, Gram L 2025. Stronger together: harnessing natural algal communities as potential probiotics for inhibition of aquaculture pathogens. Microbiology Spectrum, in press, e00421-25 https://doi.org/10.1128/spectrum.00421-25

Stannius RO, Kovács ÁT 2025. Plipastatin is a shared good by Bacillus subtilis during combating Fusarium spp. FEMS Microbial Ecology 101(4),fiaf020 https://doi.org/10.1093/femsec/fiaf020

Stannius RO, Fusco S, Cowled M, Kovács ÁT 2025. Surfactin accelerates Bacillus subtilis pellicle biofilm development. Biofilms 9, 100249 https://doi.org/10.1016/j.bioflm.2024.100249

Stannius RO, Dunlap CA, Morvan E, Berbon M, Lecomte S, Loquet A, Kovács ÁT 2025. Identification of widely conserved biosynthetic gene cluster involved in pigment production of Bacillus subtilis. mSystems 10, e00759-25 https://doi.org/10.1128/msystems.00759-25

Stefanic P, Stare E, Floccari VA, Kovac J, Hertel R, Rocha U, Kovács ÁT, Mandic-Mulec I, Strube ML, Dragoš A 2025. Ecology of prophage-like elements in Bacillus subtilis at global and local geographical scale. Cell Reports 44, 115197 https://doi.org/10.1016/j.celrep.2024.115197

Sun X, Xu Z, Hu G, Xie J, Li Y, Tao L, Zhang N, Xun W, Miao Y, Zhang R, Shen Q, Kost C, Kovács ÁT 2025. Presence of a biofilm beneficiary alters the evolutionary trajectory of a biofilm former. Isme Journal in press https://doi.org/10.1093/ismejo/wraf160

Svendsen PB, Sander MR, Hobbs CJE, Staffeldt P, Melchiorsen J, Kirstein S, Kempen P, Liu Y, Bentzon-Tilia M, Gram L, Roager L 2025. Phaeobacter cretensis sp. nov. and Phaeobacter bryozoorum sp. nov., isolated from seawater from off the coast of Crete and from Roskilde fjord in Denmark. International Journal of Systematic and Evolutionary Microbiology accepted

Svendsen PB, Alfastsen L, Gram L, Henriksen NNSE, Bentzon-Tilia M, Zhang SD 2025. Roles of Marine Microbial Natural Products. Annual Review in Microbiology in press

Vertot M, Schostag MD, Andersen AJ, Frisvad JC, Lozano-Andrade CN, Jarmusch SA 2025. Penicillium hordei acidification precipitates Bacillus subtilis lipopeptides to evade inhibition. ISME communications in press

Xu X, Dinesen C, Pioppi A, Kovács ÁT, Lozano-Andrade CN 2025. Composing a microbial symphony: synthetic communities for promoting plant growth. Trends in Microbiology. 33, 738-751 https://doi.org/10.1016/j.tim.2025.01.006

Zdouc MM, Blin K, (+157 authors), Kovács ÁT, (+129 authors), Weber T, Medema MH 2025. MIBiG 4.0: Advancing biosynthetic gene cluster curation through global collaboration. Nucleic Acids Research 53, D678-D690 https://doi.org/10.1093/nar/gkae1115