Publications 2024

Bech PK, Jarmusch SA, Rasmussen JA, Limborg MT, Gram L, Henriksen NNSE 2024. Succession of microbial community composition and secondary metabolism during marine biofilm development. ISME Communication. 4:ycae006 https://doi.org/10.1093/ismeco/ycae006

Buijs Y, Geers AU, Nita I, Strube ML, Bentzon-Tilia M 2024. SecMet-FISH: Labeling, visualization, and enumeration of secondary metabolite producing microorganisms. FEMS Microbiology Ecology. 100:fiae038 https://doi.org/10.1093/femsec/fiae038

Clemmensen SE, Cowled MS, Kromphardt KJK, Frisvad JC, Larsen TO, Frandsen RJN 2024. The Role and Fate of Patulin in Apple-Associated Fungal-Fungal Interactions. Fungal Ecology. 69:101341 https://doi.org/10.1016/j.funeco.2024.101341

Cowled MS, Phippen CB, Kromphardt KJK, Clemmensen SE, Frandsen RJM, Frisvad JC, Larsen TO 2024. Unveiling the Microbial Diversity and Associated Secondary Metabolism on Black Apples. Applied and Environmental Microbiology. 90(7) e0034224 https://doi.org/10.1128/aem.00342-24

Geers AU, Buijs Y, Schostag MD, Elberling B, Bentzon-Tilia M 2024 Exploring spatiotemporal diversity of secondary metabolism in permafrost microbiomes. Environmental Microbiome. 19:96 https://doi.org/10.1186/s40793-024-00644-8

Hansen ML, Denes Z, Jarmusch SA, Wibowo M, Lozano-Andrade CN, Kovacs AT, Strube ML, Andersen AJC, Jelsbak L 2024. Resistance towards and biotransformation of Pseudomonas-produced secondary metabolites during community invasion. ISME Journal. Jan 8;18(1):wrae105 https://doi.org/10.1093/ismejo/wrae105

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 2024, A Universal Language for Finding Mass Spectrometry Data Patterns, Nature Methods https://doi.org/10.1101/2022.08.06.503000

Lyng M, Þorisdóttir P, Sveinsdóttir SH, Hansen ML, Maróti G,  Jelsbak L, Kovács ÁT 2024. Taxonomy of Pseudomonas spp determines interactions with Bacillus subtilis. mSystems, 9: e00212-24 https://doi.org/10.1128/msystems.00212-24

Lyng M, Jørgensen JPB, Schostag MD, Jarmusch SA, Aguilar DKC, Lozano-Andrade CN, Kovács ÁT 2024. Competition for iron shapes metabolic antagonism between Bacillus subtilis and Pseudomonas. ISME Journal 18, 1-13 https://doi.org/10.1093/ismejo/wrad001

Maleckis M, Wibowo M, Gren T, Jarmusch SA, Sterndorff EB, Booth T, Henriksen NNSE, Whitford CM, Jiang X, Jørgensen TS, Ding L, Weber T 2024. Biosynthesis of the azoxy compound azodyrecin from Streptomyces mirabilis P8-A2. ACS Chemical Biology. 19:641-653 https://doi.org/10.1021/acschembio.3c00632

Maleckis M, Wibowo M, Williams SE, Gotfredsen CH, Sigrist R, Souza LDO,  Cowled MS, Charusanti P, Gren T, Saha S, Moreira JMA, Weber T, Ding L 2024. Maramycin, a cytotoxic isoquinolinequinone terpenoid produced through heterologous expression of a bifunctional indole prenyltransferase /tryptophan indole-lyase in S. albidoflavus. ACS Chemical Biology.19(6):1303-1310 https://doi.org/10.1021/acschembio.4c00121

Mahmoud M, Abboud MM, Maleckis M, Souza L, Moreira J, Weber T, Gotfredsen CH, Ding L 2024 Pepticinnamins N, O and P, cytotoxic non-ribosomal peptides from a Soil-Derived Streptomyces mirabilis P8-A2, Journal of Natural Products. 67:1075-1083 https://doi.org/10.1021/acs.jnatprod.4c00029

Nuhamunada M, Mohite OS, Phaneuf PV, Palsson B, Weber T 2024. BGCFlow: Systematic pangenome workflow for the analysis of biosynthetic gene clusters across large genomic datasets. Nucleic Acids Research. 52(10):5478-5495 https://doi.org/10.1093/nar/gkae314

Parra J, Jarmusch SA, Duncan K 2024. Multi-Omic analysis of antagonistic interactions among free-living Pseudonocardia from diverse ecosystems. Environmental Microbiology. 26(6) e16635 https://doi.org/10.1111/1462-2920.16635

Richter A, Blei F, Hu G, Schwitalla JW, Lozano-Andrade CN, Jarmusch SA, Wibowo M, Kjeldgaard B, Surabhi S, Jautzus T, Phippen CBW, Tyc O, Arentshorst M, Wang Y, Garbeva P, Larsen TO,  Ram AFJ, van den Hondel CAM, Maróti G, Kovács ÁT 2024. Enhanced niche colonisation and competition during bacterial adaptation to a fungus. Nature Communications. 15, 4486 https://doi.org/10.1038/s41467-024-48812-1

Roager L, Athena-Vasileiadi D, Gram L, Sonnenschein EC 2024. Antagonistic activity of Phaeobacter piscinae against the emerging fish pathogen Vibrio crassostreae in aquaculture feed algae. Applied and Environmental Microbiology. 90:e01439-23 https://doi.org/10.1128/aem.01439-23

Schmidt S, Murphy R, Vizueta J, Schierbech S, Conlon B, Kreuzenbeck N, Vreeburg S, de Peppel Lv, Aanen D, Kolotchèlèma S, Kone Ng, Beemelmanns C, Weber T, Poulsen M 2024. Comparative genomics unravels a rich set of biosynthetic gene clusters with distinct evolutionary trajectories across fungal species(Termitomyces) farmed by termites. Communications Biology 7, 1269 https://www.nature.com/articles/s42003-024-06887-y 

Song L, Nielsen LJD, Xu X, Mohite OS, Nuhamunada M, Xu Z, Murphy R, Bodawatta K, Poulsen M, Abdulla MH, Sonnenschein EC, Weber T, Kovács ÁT 2024.  Expanding the genome information on Bacillales for biosynthetic gene cluster discovery. Scientific Data https://doi.org/10.1038/s41597-024-04118-x

Svendsen PB, Henriksen NNSE, Jarmusch SA, Andersen AJC, Smith K,  Selsmark  MW, Zhang SD, Schostag MD, Gram L 2024. Co-existence of two antibiotic-producing marine bacteria: Pseudoalteromonas piscicida reduce gene expression and production of the antibacterial compound, tropodithietic acid, in Phaeobacter sp. Applied and Environmental Microbiology. e00588-24 https://doi.org/10.1128/aem.00588-24

Sørensen MB, Andersen MR, Siewertsen MM, Bro R, Strube ML, Gotfredsen CH 2024. NMR-Onion - a transparent multi-model based 1D NMR deconvolution algorithm. Heliyon. 10(17) e36998 https://doi.org/10.1016/j.heliyon.2024.e36998

Sørensen MB, Møller JK, Strube ML, Gotfredsen CH 2024. Designing optimal experiments in metabolomics. Metabolomics. 20(69) https://doi.org/10.1007/s11306-024-02122-1

Xu X, Pioppi A, Kiesewalter HT, Strube ML, Kovács ÁT 2024. Disentangling the potential factors defining Bacillus subtilis abundance in natural soils, Environmental Microbiology. 26(9), e16693 https://doi.org/10.1111/1462-2920.16693

Zdouc MM, Blin K, (+157 authors), Kovács ÁT, (+129 authors), Weber T, Medema MH 2024. MIBiG 4.0: Advancing biosynthetic gene cluster curation through global collaboration, Nucleic Acids Research. gkae1115 https://doi.org/10.1093/nar/gkae1115