Publications
Supported by DNRF 137
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. 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. 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. https://doi.org/10.1016/j.funeco.2024.101341
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/10.1101/2023.06.12.544649
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. https://doi.org/10.1021/acschembio.3c00632
Mahmoud M, Abboud MM, Maleckis M, Souza L, Moreira J, Weber T, Gotfredsen CH, Ding L, Pepticinnamins N, O and P, cytotoxic non-ribosomal peptides from a Soil-Derived Streptomyces mirabilis P8-A2, Journal of Natural Products. https://doi.org/10.26434/chemrxiv-2024-4gjgb
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. https://doi.org/10.1128/aem.01439-23
2023
Bech PK, Zhang SD, Henriksen NNSE, Bentzon-Tilia M, Strube ML, Gram L 2023 The potential to produce tropodithietic acid by Phaeobacter inhibens affects the assembly of microbial biofilm communities in natural seawater. npj Biofilms and Microbiomes 9, 12 https://doi.org/10.1038/s41522-023-00379-3
Blin K, Shaw S, Medema MH, Weber T 2023. The antiSMASH database version 4: additional genomes and BGCs, new sequence-based searches and more. Nucleic Acid Research. https://doi.org/10.1093/nar/gkad984
Blin K, Shaw S, Augustijn HE, Reitz ZL, Biermann F, Alanjary M, Fetter A, Terlouw BR, Metcalf WW, Helfrich EJN, van Wezel GP, Medema MH, Weber T 2023. antiSMASH 7.0: new and improved predictions for detection, regulation, chemical structures and visualisation. Nucleic Acid Research. 51. https://doi.org/10.1093/nar/gkad344
Bradley SA, Lehka BJ, Hansson FG, Adhikari KB, Rago D, Rubaszka P, Haidar AK, Chen L, Hansen LG, Gudich O, Giannakou K, Lengger B, Gill RT, Nakamura Y, Dugé de Bernonville T, Koudounas K, Romero-Suarez D, Ding L, Qiao Y, Frimurer TM, Petersen AA, Beasseau S, Kumar S, Gautron N, Melin C, Marc J, Jeanneau R, O’Connor SE, Courdavault V, Keasling JD, Zhang J, Jensen MK 2023. Biosynthesis of natural and halogenated plant monoterpene indole alkaloids in yeast. : Nature Chemical Biology. Accepted
Buenrostro-Munoz, Jarmusch SA, Souza V, Martinez-Cardenas A, Fjardo-Hernandez CA, Yeverino IR, Eguiarte LE, Figueroa M 2023. Metabolomic Diversity in Microbial Mats Under Different Environmental Conditions: A Tool to Test Microbial Ecosystem Chemical Change. Chemistry and Biodiversity. https://doi.org/10.1002/cbdv.202300829
Droumpali A, Liu Y, Ferrer-Florensa X, Sternberg C, Dimaki M, Andersen AJC, Strube ML, Kempen PJ, Gram L, Taboryski R 2023. Biosynthesis Enhancement of Tropodithietic Acid (TDA) Antibacterial Compound through Biofilm Formation by Marine Bacteria Phaeobacter inhibens on Micro-Structured Polymer Surfaces RCS Advances. 13, 33159. https://doi.org/10.1039/d3ra05407a
Gallegos-Monterrosa R, Kovács ÁT 2023. Phenotypic plasticity: The role of a phosphatase family Rap in the genetic regulation of Bacilli. Molecular Microbiology. 120, 1. https://doi.org/10.1111/mmi.15060
Garcias-Bonet N, Roik A, Dungan A, Villela H, Garcia F, Quigley K, Sweet M, Berg G, Hoj L, Bourne DG, Ushijima B, Sogin M, Gram L, Duarte G, Hirt H, Smalla K, Rosado A, Carvalho S, Vega-Thurber R, Ziegler M, Tierney B, Mason CE, Blackall L, van Oppen MJH, Voolstra CR, Peixoto R 2023. Horizon scanning the application of probiotics for wildlife. Trends in Microbiology. https://doi.org/10.1016/j.tim.2023.08.012
Geers AU, Strube ML, Bentzon-Tilia M 2023. Small spatial scale drivers of secondary metabolite biosynthetic diversity in environmental microbiomes. mSystems. 8, 2. https://doi.org/10.1128/msystems.00724-22
Hu G, Wang Y, Blake C, Nordgaard M, Liu X, Wang B, Kovács ÁT 2023. Parallel genetic adaptation of Bacillus subtilis to different plant species. Microbial Genomics 9, 7. https://doi.org/10.1099/mgen.0.001064
Hu G, Wang Y, Liu X, Strube ML, Wang B, Kovács AT 2023/ Species and condition dependent mutational spectrum in experimentally evolved biofilms of Bacilli. mSystems. https://doi.org/10.1128/msystems.00548-23
Khatri S, Sazinas P, Strube M, Ding L, Dubey S, Shivay YS, Sharma S, Jelsbak L 2023. Pseudomonas is a key player in conferring disease suppressiveness in organic farming. Plant and Soil. https://doi.org/10.1007/s11104-023-05927-6
Lindqvist LL, Jarmusch SA, Sonnenschein EC, Strube ML, Kim J, Nielsen MW, Kempen PJ, Schoof EM, Zhang SD, Gram L 2023. Tropodithietic Acid, a Multifunctional Antimicrobial, Facilitates Adaption and Colonization of the Producer, Phaeobacter piscinae. mSphere 8, 1, e00517-22. https://journals.asm.org/doi/10.1128/msphere.00517-22
Lozano-Andrade CN, Nogueira CG, Wibowo M, Kovács ÁT 2023. Establishment of a transparent soil system to study Bacillus subtilis chemical ecology. ISME Communications. https://doi.org/10.1038/s43705-023-00318-5
Lyng M, Kovács ÁT 2023. Frenemies of the soil: Bacillus and Pseudomonas interspecies interactions. Trends in Microbiology 31, 8. https://doi.org/10.1016/j.tim.2023.02.003
Murphy R, Strube ML 2023. RibDif2: Expanding amplicon analysis to full genomes. Bioinformatics Advances. https://doi.org/10.1093/bioadv/vbad111
Shaaban M, Abdel-Razek AS, Previtali V, Clausen MH, Gotfredsen CH, Laatsch H, Ding L 2023. Sulochrins and alkaloids from a fennel endophyte Aspergillus sp. FVL2, Natural Product Research. 37, 1310-1320. https://doi.org/10.1080/14786419.2021.2005054
Su J, Wang Y, Bai M, Peng T, Li H, Xu HJ, Guo G, Bai H, Rong N, Sahu SK, He H, Liang X, Jin C, Liu W, Strube ML, Gram L, Li Y, Wang E, Liu H, Wu H 2023. Soil conditions and plant microbiome boost the accumulation of monoterpenes in the fruit of Citrus reticulata ‘Chachi’. Microbiome. 11, 61. https://doi.org/10.1186/s40168-023-01504-2
Sun X, Xie J, Zheng D, Wang W, Xia R, Wang W, Xun W, Huang Q, Zhang R, Kovács ÁT, Xu Z, Qirong S 2023. Metabolic interactions affect the biomass of synthetic bacterial biofilm communities. : mSystems. https://doi.org/10.1128/msystems.01045-23.
Yang Z, Strøbech E, Qiao Y, Konakall NG, Harris P, Peschel G, Agler-Rosenbaum M, Weber T, Andreasson E, Ding L 2023 Streptomyces alleviate abiotic stress in plant by producing pteridic acids. Nature Communications. https://doi.org/10.1038/s41467-023-43177-3
2022
Christiansen JV, Isbrandt T, Asferg R, Jarmusch SA, Larsen TO, Frisvad JC 2022. Phoenicin Switch: Discovering the Trigger for Radical Phoenicin Production in Multiple Wild-Type Penicillium Species. Applied and Environmental Microbiology. 88, 16. https://doi.org/10.1128/aem.00302-22
Clemmensen SE, Kromphardt KJK, Frandsen RJN 2022. Marker-free CRISPR-Cas9 based genetic engineering of the phytopathogenic fungus, Penicillium expansum. Fungal Genetics and Biology. 160, 103689. https://doi.org/10.1016/j.fgb.2022.103689
Geers AU, Buijs Y, Strube ML, Gram L, Bentzon-Tilia M 2022. The natural product biosynthesis potential of the microbiomes of Earth – bioprospecting for novel anti-microbial agents in the meta-omics era. Computational and Structural Biotechnology Journal. 20, 343-352. https://doi.org/10.1016/j.csbj.2021.12.024
Hansen ML, Wibowo M, Jarmusch SA, Larsen TO, Jelsbak L 2022. Sequential interspecies interactions affect production of antimicrobial secondary metabolites in Pseudomonas protegens DTU9.1. ISME Journal. https://doi.org/10.1038/s41396-022-01322-8
Henriksen NNSE, Schostag MD, Balder SR, Bech PK, Strube ML, Sonnenschein E, Gram L 2022. The ability of Phaeobacter inhibens to produce tropodithietic acid influences the community dynamics of a microalgal microbiome. ISME Communications. https://doi.org/10.1038/s43705-022-00193-6
Henriksen NNSE, Lindqvist LL, Wibowo M, Sonnenschein EC, Bentzon-Tilia M, Gram L 2022. Role is in the eye of the beholder – the multiple functions of the antibacterial compound tropodithietic acid produced by marine Rhodobacteraceae. FEMS Microbiology Review. 46(3) fuac007. https://doi.org/10.1093/femsre/fuac007
Jakab Á, Kovács F, Balla N, Tóth Z, Ragyák Á, Sajtos Z, Csillag K, Nagy-Köteles C, Nemes D, Pócsi I, Majoros L, Kovács ÁT, Kovács R 2022 Physiological and transcriptional profiling of surfactin exerted antifungal effect against Candida albicans. Biomedicine & Pharmacotherapy. 152, 113220 https://doi.org/10.1016/j.biopha.2022.113220
Jautzus T, van Gestel J, Kovács ÁT 2022. Complex extracellular biology drives surface competition in Bacillus subtilis. ISME Journal. 16: 2320-2328. https://doi.org/10.1038/s41396-022-01279-8
Khatri S, Dubey S, Shivay YS, Jelsbak L, Sharma S 2022. Organic farming induces changes in bacterial community and disease suppressiveness against fungal phytopathogens. Applied Soil Ecology. 181, 104658. https://doi.org/10.1016/j.apsoil.2022.104658
Kjeldgaard B, Neves AR, Fonseca C, Kovács ÁT, Domínguez-Cuevas P 2022. Quantitative high-throughput screening methods designed for identification of bacterial biocontrol strains with antifungal properties. Microbiology Spectrum. 10, 2, e01433-21. https://doi.org/10.1128/spectrum.01433-21
Lin Y, Xu X, Maróti G, Strube ML, Kovács ÁT 2022. Adaptation and phenotypic diversification of Bacillus thuringiensis biofilm are accompanied by fuzzy spreader morphotypes. npj Biofilms and Microbiomes. 8, 27. https://doi.org/10.1038/s41522-022-00292-1
Nordgaard M, Blake C, Maróti G, Strube ML, Kovács ÁT 2022. Experimental evolution of Bacillus subtilis on Arabidopsis thaliana roots reveals fast adaptation and improved root colonization. iScience. 25, 6, 104406. https://doi.org/10.1016/j.isci.2022.104406
Peixoto R, Voolstra CR, Sweet M, Duarte C, Carvalho S, Villela H, Lunshof JE, Gram L, Woodhams DC, Walter J, Roik A, Hentschel U, Vega Thurber R, Daisley B, Ushijima B, Daffonchio D, Costa R, Keller-Costa T, Bowman J, Rosado AS, Reid G, Mason C, Walke JB, Thomas T, Berg G 2022. Harnessing the microbiome to prevent global biodiversity loss. Nature Microbiology. 7, 1726-1735.https://doi.org/10.1038/s41564-022-01173-1
Perini L, Gostincar C, Lilov M, Frisvad JC, Kostansek R, Nicoles M, Williamson C, Anesio, M., Zalar P, Gunde-Cimerman N 2022. Interactions of Fungi and Algae from the Greenland Ice Sheet. Environmental Microbiology. https://link.springer.com/article/10.1007/s00248-022-02033-5
Sanchez-Navarro R, Nuhamunada M, Mohite O, Wasmund K, Albertsen M, Gram L, Nielsen PH, Weber T, Singleton C 2022. Long-Read Metagenome-Assembled Genomes Improve Identification of Novel Complete Biosynthetic Gene Clusters in a Complex Microbial Activated Sludge Ecosystem. mSystems. 20, 7, 6. https://doi.org/10.1128/msystems.00632-22
Schostag MD, Gobbi A, Fini MN, Ellegaard-Jensen L, Aamand J, Hansen LH, Muff J, Albers CN 2022. Combining reverse osmosis and microbial degradation for remediation of drinking water contaminated with recalcitrant pesticide residue. Water Research. 216, 118352. https://doi.org/10.1016/j.watres.2022.118352
Shaaban M, Abdel-Razek AS, Previtali V, Hartvig CM, Gotfredsen CH, Laatsch H, Ding L 2022. Sulochrins and alkaloids from a fennel endophyte Aspergillus sp. FVL2. Natural Product Research. https://doi.org/10.1080/14786419.2021.2005054
Sun X, Xu Z, Xie J, Hesselberg-Thomsen V, Tan T, Zheng D, Strube ML, Dragoš A, Shen Q, Zhang R, Kovács ÁT 2022. Bacillus velezensis stimulates resident rhizosphere Pseudomonas stutzeri for plant health through metabolic interactions. ISME Journal. 16, 3, 774–787. https://doi.org/10.1038/s41396-021-01125-3
Terlouw BR, Blin K, Navarro-Muñoz JC, Avalon N, Chevrette MG, Egbert S, Lee S, Meijer D, Recchia MJJ, Reitz ZL, van Santen JA, Selem-Mojica N, Tørring T, Zaroubi L, Alanjary M, Aleti G, Aguilar C, Al-Salihi SAA, Augustijn HE, Avelar-Rivas JA, Avitia-Domínguez LA, Barona-Gomez F, Bernaldo-Agüero J, Bielinski VA, Biermann F, Booth TJ, Carrion Bravo VJ, Castelo-Branco R, Chagas FO, Cruz-Morales P, Du C, Duncan KR, Gavriilidou A, Gayrard D, Gutiérrez-García K, Haslinger K, Helfrich EJN, van der Hooft JJJ, Jati AP, Kalkreuter E, Kalyvas N, Kang KB, Kautsar S, Kim W, Kunjapur A, Li YX, Lin GM, Loureiro C, Louwen JJR, Louwen NL, Lund G, Parra J, Philmus B, Pourmohsenin B, Pronk LJU, Rego A, Rex DAB, Robinson S, Rosas-Becerra LR, Roxborough ET, Schorn MA, Scobie DJ, Singh KS, Sokolova N, Tang X, Udwary D, Vigneshwari A, Vind K, Vromans SPJM, Waschulin V, Williams SE, Winter J, Witte TE, Xie H, Yang D, Yu J, Zdouc M, Zhong Z, Collemare J, Linington RG, Weber T, Medema MH 2022. MIBiG 3.0: a community-driven effort to annotate experimentally validated biosynthetic gene clusters. Nucleic Acids Research. https://doi.org/10.1093/nar/gkac1049
Tesdorpf JE, Geers AU, Strube ML, Gram L, Bentzon-Tilia M 2022. Roseobacter Group Probiotics Exhibit Differential Killing of Fish Pathogenic Tenacibaculum Species. Applied and Environmental Microbiology. 88, 6. https://doi.org/10.1128/aem.02418-21
Wang X, Jarmusch SA, Frisvad JC, Larsen TO 2022. Current status of secondary metabolite pathways linked to their related biosynthetic gene clusters in Aspergillus section Nigri. Natural Product Reviews. https://doi.org/10.1039/D1NP00074H
Wang X, Serrano R, González-Menéndez V, Mackenzie TA, Ramos MC, Frisvad JC, Larsen TO 2022. A Molecular Networking Based Discovery of Diketopiperazine Heterodimers and Aspergillicins from Aspergillus caelatus. Journal of Natural Products. 85, 1, 25-33. https://doi.org/10.1021/acs.jnatprod.1c00526
Wang Y, Wang X, Sun S, Jin C, Su J, Wei J, Luo X, Wen J, Wei T, Sahu SK, Zou H, Chen H, Zhang G, Liu X, Xu X, Gram L, Yang H, Wang E, Liu H 2022. GWAS, MWAS and mGWAS provide insights into precision agriculture based on genotype-dependent microbial effects in foxtail millet. Nature Communications. 13, 5913. https://doi.org/10.1038/s41467-022-33238-4
Zhang SD, Lindqvist LL, Isbrandt T, Borre I, Wibowo M, Wennekers Nielsen M, Ding L, Larsen TO, Gram L 2022. Solonamides, a Group of Cyclodepsipeptides, Influence Motility in the Native Producer Photobacterium galatheae S2753. Applied and Environmental Microbiology. 88, 17. https://doi.org/10.1128/aem.01105-22
2021
Ardalani H, Anam S, Kromphardt KJK, Staerk D, Kongstad KT 2021. Coupling microplate‐based antibacterial assay with liquid chromatography for high‐resolution growth inhibition profiling of crude extracts: validation and proof‐of‐concept study with Staphylococcus aureus. Molecules 26, 6. https://doi.org/10.3390/molecules26061550
Arnaouteli S, Bamford NC, Stanley-Wall NR, Kovács ÁT 2021 Bacillus subtilis biofilm formation and social interactions. Nature Reviews Microbiology. 19. https://doi.org/10.1038/s41579-021-00540-9
Blin K, Shaw S, Kautsar SA. Medema MH, Weber T 2021 The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes. Nucleic Acids Research. 49. https://doi.org/10.1093/nar/gkaa978
Blin K, Shaw S, Kloosterman AM, Charlop-Powers Z, van Wezel GP, Medema MH, Weber T 2021. antiSMASH 6.0: improving cluster detection and comparison capabilities. Nucleic Acids Research. 49 https://doi.org/10.1093/nar/gkab335
Borre I, Sonnenschein EC.2021. Draft genome sequences of nine environmental bacterial isolates colonizing plastic. In: Microbiology Resource Announcements. 10, 11. https://doi.org/10.1128/MRA.01485-20
Buijs Y, Zhang S, Jørgensen KM, Isbrandt T, Larsen TO, Gram L 2021 Enhancement of antibiotic production by co-cultivation of two antibiotic producing marine Vibrionaceae strains. FEMS Microbiology Ecology 97. https://doi.org/10.1093/femsec/fiab041.
Ding L, Zhang SD, Haidar A.K., Bajimaya M, Guo Y, Larsen TO, Gram L 2021 Polycyclic tetramate macrolactams–a group of natural bioactive metallophores. Frontiers in Chemistry. 9: 772858. https://doi.org/10.3389/fchem.2021.772858
Dragoš A, Andersen AJC, Lozano-Andrade CN, Kempen PJ, Kovács ÁT, Strube ML 2021. Phages carry interbacterial weapons encoded by biosynthetic gene clusters. Current Biology. 31, 1-11. https://doi.org/10.1016/j.cub.2021.05.046
Dragoš A, Priyadarshini B, Hasan Z, Strube ML, Kempen PJ, Maróti G, Kaspar C, Bose B, Burton BM, Bischofs IB, Kovács ÁT 2021 Pervasive prophage recombination occurs during evolution of spore-forming Bacilli. ISME Journal. 15. https://doi.org/10.1038/s41396-020-00854-1
Eelderink-Chen Z, Bosman J, Sartor F, Dodd A, Kovács ÁT, Merrow M 2021 A circadian clock in a nonphotosynthetic prokaryote. Science Advances. 7. https://doi.org/10.1126/sciadv.abe2086
Hansen J, Melchiorsen J, Mateiu RV, Ciacotich N, Gram L, Sonnenschein EC 2021 Effect of polymer type on the colonization of plastic pellets by marine bacteria. FEMS Microbiology Letters. 368. https://doi.org/10.1093/femsle/fnab026
Hansen ML, He Z, Wibowo M, Jelsbak L 2021 A whole-cell biosensor for detection of 2,4-diacetylphloroglucinol (DAPG)-producing bacteria from grassland soil. Applied and Environmental Microbiology. 87, 3. https://doi.org/10.1128/AEM.01400-20
Jarmusch, SA, van der Hooft, JJJ, Dorrestein P, Jarmusch AK 2021 Advancements in Capturing and Mining Mass Spectrometry Data Are Transforming Natural Products Research. Natural Product Reports.38. https://doi.org/10.1039/D1NP00040C
Kautsar SA, Blin K, Shaw S, Weber T, Medema MH 2021 BiG-FAM: the biosynthetic gene cluster families database. Nucleic Acids Research. 49. https://doi.org/10.1093/nar/gkaa812
Kiesewalter HT, Lozano-Andrade CN, Wibowo M, Strube ML, Maróti G, Snyder D, Jørgensen TS, Larsen TO, Cooper VS, Weber T, Kovács ÁT 2021 Genomic and chemical diversity of Bacillus subtilis secondary metabolites against plant pathogenic fungi. mSystems. 6, 1. https://doi.org/10.1128/mSystems.00770-20
Lauritsen JG, Hansen ML, Bech PK, Jelsbak L, Gram L, Strube ML 2021 Identification and differentiation of Pseudomonas species in field samples using an rpoD amplicon sequencing methodology. mSystems. 6, 4. https://doi.org/10.1128/mSystems.00704-21
Li L, Wang H, Wang S, Xu Y, Liang H, Liu H, and Sonnenschein EC 2021The Draft Genome of the Centric Diatom Conticribra weissflogii (Coscinodiscophyceae, Ochrophyta). Protist. 172 (5-6): 125845 (1-6). https://doi.org/10.1016/j.protis.2021.125845
Lozano-Andrade CN, Strube ML, Kovács ÁT 2021 Complete Genome Sequences of Four Soil-Derived Isolates for Studying Synthetic Bacterial Community Assembly. Microbiology Resource Announcements. 10, 46. https://doi.org/10.1128/MRA.00848-21
Sonnenschein EC, Jiménez G, Castex M, Gram L 2021 The Roseobacter-group bacterium Phaeobacter as safe probiotic solution for aquaculture. Applied Environmental Microbiology. 87, 5. https://doi.org/10.1128/AEM.02581-20
Steinke K, Mohite OS, Weber T, Kovács ÁT 2021 Phylogenetic distribution of secondary metabolites in the Bacillus subtilis species complex. mSystems. 6, 2. https://doi.org/10.1128/mSystems.00057-21
Strube ML 2021 RibDif: can individual species be differentiated by 16S sequencing?. Bioinformatics Advances. 1, 1. https://doi.org/10.1093/bioadv/vbab020
Visagie CM, Frisvad JC, Visagie A, Houbraken, J, Seifert KA, Samson RA, Jacobs K 2021 A re-evaluation of Penicillium section Canescentia, including the description of five new species. Persoonia. 46. https://doi.org/10.3767/persoonia.2021.46.06
Wang X, Isbrand T, Christensen EØ, Melchiorsen J, Larsen TO, Zhang S-D, Gram L 2021 Identification and verification of the prodigiosin biosynthetic gene cluster (BGC) in Pseudoalteromonas rubra S4059. Microbiology Spectrum. 9, 2. https://doi.org/10.1128/Spectrum.01171-21
Wang X, Isbrandt T, Strube ML, Paulsen SS, Nielsen MW, Buijs Y, Schoof EM, Larsen TO, Gram L, Zhang SD 2021 Chitin degradation machinery and secondary metabolite profiles in the marine bacterium Pseudoalteromonas rubra S4059. Marine Drugs 19. https://doi.org/10.3390/md19020108
Wang X, Subko K, Kildgaard S, Frisvad JC and Larsen TO 2021 Mass Spectrometry-Based Network Analysis Reveals New Insights Into the Chemodiversity of 28 Species in Aspergillus section Flavi. Frontiers in Fungal Biology. 2: 719420 (1-13). https://doi.org/10.3389/ffunb.2021.719420
Wang Y, Shuilin L, Gai Y, Liu G, Jin T, Liu H, Gram L, Strube ML, Fan G, Sahu S, Liu S, Gan S, Xie ZZ, Kong LF, Zhang P, Liu X, Wang D 2021 Metagenomic analysis reveals community structure and their metabolic potential for nitrogen acquisition in the oligotrophic surface waters of the Indian Ocean. Frontiers Microbiology. 12. https://doi.org/10.3389/fmicb.2021.518865
Zhang SD, Isbrandt T, Lindqvist LL, Larsen TO, Gram L 2021 Holomycin, an Antibiotic Secondary Metabolite, Is Required for Biofilm Formation by the Native Producer Photobacterium galatheae S2753. Applied Environmental Microbiology. 87. https://doi.org/10.1128/AEM.00169-21
2020
Barret, K Jensen K, Meyer AS Frisvad JC, Lange L 2020 Fungal secretome profle categorization of CAZymes by function and family corresponds to fungal phylogeny and taxonomy: Example Aspergillus and Penicillium. Scientific Reports, 10. https://doi.org/10.1038/s41598-020-61907-1
Bech PK, Lysdal KL, Gram L, Bentzon-Tilia M, Strube ML 2020 Marine Sediments Hold an Untapped Potential for Novel Taxonomic and Bioactive Bacterial Diversity. mSystems, 5, 5. https://doi.org/10.1128/mSystems.00782-20
Buijs Y, Isbrandt T, Zhang SD, Larsen TO, Gram L 2020. The Antibiotic Andrimid Produced by Vibrio coralliilyticus Increases Expression of Biosynthetic Gene Clusters and Antibiotic Production in Photobacterium galatheae. Frontiers in Microbiology, 11. https://doi.org/10.3389/fmicb.2020.622055
Contesini FJ, Frandsen RJN, Damasio A 2020. Editorial: CAZymes in Biorefinery: From Genes to Application. Frontiers in Bioengineering and Biotechnology, .9. https://doi.org/10.3389/fbioe.2021.622817
Dittmann KK, Rasmussen BB, Melchiorsen J, Sonnenschein EC, Gram L, Bentzon-Tilia M 2020. Changes in the microbiome of mariculture feed organisms after treatment with a potentially probiotic strain of Phaeobacter inhibens. Applied and Environmental Microbiology. 86, e00499-20. https://doi.org/10.1128/aem.00499-20
Frisvad JC, Isbrandt T, and Ostenfeld Larsen T 2020. Fungal Partially Reducing Polyketides and Related Natural Products From Aspergillus, Penicillium, and Talaromyces. Comprehensive Natural Products III: Chemistry and Biology, 1:313-332. https://doi.org/10.1016/B978-0-12-409547-2.14731-6
García CF, Kretschmer M, Lozano-Andrade CN, Schönleitner M, Dragoŝ A, Kovács ÁT, Lieleg O 2020. Metal ions weaken the hydrophobicity and antibiotic resistance of Bacillus subtilis NCIB 3610 biofilms. npj biofilms and microbiomes. 6. https://doi.org/10.1038/s41522-019-0111-8
Houbraken J, Kocsubé S, Visagie CM, Yilmaz N, Wang X-C, Meijer M, Kraak B, Hubka V, Bensch K, Samson RA, Frisvad JC 2020. Classification of Aspergillus, Penicillium, Talaromyces and related genera (Eurotiales): An overview of families, genera, subgenera, sections, series and species. Studies in Mycology, 95. https://doi.org/10.1016/j.simyco.2020.05.002
Khatri S, Sazinas P, Shivay YS, Sharma S, Jelsbak L 2020. Complete Genome Sequence of Pseudomonas sp. Strain SK, Isolated from Organic Wheat Rhizosphere. Microbiology Resource Announcements, 9, 26. https://doi.org/10.1128/MRA.00510-20
Kiesewalter HT, Lozano-Andrade CN, Maróti G, Snyder D, Jørgensen TS, Weber T, Kovács ÁT 2020. Complete Genome Sequences of 13 Bacillus subtilis Soil Isolates for Studying Secondary Metabolite Diversity. Microbiology Resource Announcements, 9, 2 https://doi.org/10.1128/mra.01406-19
Kiesewalter HT, Lozano-Andrade CN, Strube, ML, Kovács ÁT 2020. Secondary metabolites of Bacillus subtilis impact the assembly of soil-derived semisynthetic bacterial communities. Beilstein Journal of Organic Chemistry. 16:2983-2998. https://doi.org/10.3762/bjoc.16.248
Kjærbølling I, Vesth TC, Frisvad JC, Nybo JL, Theobald S, Kildgaard S, Petersen TI, Kuo A, Sato A, Lyhne EK, Kogle ME, Wiebenga A, Kun RS, Lubbers RJM, Mäkelä MR, Barry K, Chovatia M, Clum A, Daum C, Haridas S, He G, LaButti K, Lipzen A, Mondo S, Pangilinan J, Riley R, Salamov A, Simmons BA, Magnuson JK, Henrissat B, Mortensen UH, Larsen TO, de Vries RP, Grigoriev IV, Machida M, Baker SE, Andersen MR 2020. A comparative genomics study of 23 Aspergillus species from section Flavi. Nature Communications, 11, 1. https://doi.org/10.1038/s41467-019-14051-y
Kovács ÁT 2020 A fungal scent from the cheese. Environmental Microbiology. 22, 11: 4524-4526. https://doi.org/10.1111/1462-2920.15267
Liao S, Wang Y, Liu H, Fan G, Sahu SK, Jin T, Chen J, Zhang P, Gram L, Strube ML, Shi Q, Lee SMY, Liu X 2020. Deciphering the Microbial Taxonomy and Functionality of Two Diverse Mangrove Ecosystems and Their Potential Abilities To Produce Bioactive Compounds. mSystems, 5, 5. https://doi.org/10.1128/mSystems.00851-19
Malik A, Ardalani H, Anam S, McNair LM, Kromphardt KJK, Normand Frandsen RJ, Franzyk H, Staerk D, Kongstad KT 2020. Antidiabetic xanthones with α-glucosidase inhibitory activities from an endophytic Penicillium canescens. Fitoterapia, 142. https://doi.org/10.1016/j.fitote.2020.104522
Martin M, Dragoš A, Otto SB, Schäfer D, Brix, S, Maróti G, Kovács ÁT 2020. Cheaters shape the evolution of phenotypic heterogeneity in Bacillus subtilis biofilms. ISME Journal, 14. https://doi.org/10.1038/s41396-020-0685-4
Otto SB, Martin M, Schäfer D, Hartmann R, Drescher K, Brix S, Dragoš A, Kovács ÁT 2020. Privatization of Biofilm Matrix in Structurally Heterogeneous Biofilms. mSystems, 5, 4. https://doi.org/10.1128/mSystems.00425-20
Paulsen SS, Petersen TI, Kirkegaard M, Buijs Y, Strube ML, Sonnenschein EC, Larsen TO, Gram L 2020. Production of the antimicrobial compound tetrabromopyrrole and the Pseudomonas quinolone system precursor, 2-heptyl-4-quinolone, by a novel marine species Pseudoalteromonas galatheae sp. nov.. Scientific Reports, 10. https://doi.org/10.1038/s41598-020-78439-3
Thérien M, Kiesewalter HT, Auria E, Charron-Lamoreux V, Wibowo M, Maróti G, Kovács ÁT, Beuregard PB 2020. Surfactin production is not essential for pellicle and root-associated biofilmdevelopment of Bacillus subtilis. Biofilm, 2. https://doi.org/10.1016/j.bioflm.2020.100021
Wibowo M, Ding L 2020. Chemistry and Biology of Natural Azoxy Compounds. Journal of Natural Products, 83, 11. https://doi.org/10.1021/acs.jnatprod.0c00725
Wibowo M, Gotfredsen CH, Sassetti E, Melchiorsen J, Clausen MH, Gram L, Ding L 2020. Azodyrecins A-C: Azoxides from a Soil-Derived Streptomyces Species. Journal of Natural Products, 83, 12 https://doi.org/10.1021/acs.jnatprod.0c00339
2019
Blin K, Shaw S, Steinke K, Villebro R, Ziemert N, Lee, Sang Y, Medema MH, Weber T 2019. antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline. Nucleic acids research, 87. https://doi.org/10.1093/nar/gkz310
Buijs Y, Bech PK, Vazquez Albacete D, Bentzon-Tilia M, Sonnenschein EC, Gram L, Zhang SD 2019. Marine Proteobacteria as a source of natural products: advances in molecular tools and strategies. Natural Product Reports, 36. https://doi.org/10.1039/c9np00020h
de Reus E, Nielsen MR, Frandsen RJN 2019. Metabolic and regulatory insights from the experimental Horizontal Gene Transfer of the aurofusarin and bikaverin gene clusters to Aspergillus nidulans. Molecular Microbiology, 112, 6. https://doi.org/10.1111/mmi.14376
Devi S, Kiesewalter HT, Kovács R, Frisvad JC, Weber T, Larsen TO, Kovács ÁT, Ding L 2019. Depiction of secondary metabolites and antifungal activity of Bacillus velezensis DTU001. Synthetic and Systems Biotechnology, 4, 3. https://doi.org/10.1016/j.synbio.2019.08.002
Dittmann KK, Sonnenschein EC, Egan S, Gram L, Bentzon-Tilia M 2019. Impact of Phaeobacter inhibens on marine eukaryote-associated microbial communities. Environmental Microbiology Reports. 11, 3. https://doi.org/10.1111/1758-2229.12698
Frisvad JC, Hubka V, Ezekiel CN, Hong S-B, Nováková A, Chen AJ, Arzanlou M, Larsen TO, Sklenár F, Mahakarnchanakul W, Samson RA, Houbraken J 2019. Taxonomy of Aspergillus section Flavi and their production of aflatoxins, ochratoxins and other mycotoxins. Studies in Mycology, 1 -63. https://doi.org/10.1016/j.simyco.2018.06.001
Kjeldgaard B, Listian SA, Ramaswamhi V, Richter A, Kiesewalter HT, Kovács ÁT 2019. Fungal hyphae colonization by Bacillus subtilis relies on biofilm matrix components. Biofilm, 1. https://doi.org/10.1016/j.bioflm.2019.100007
Kovács ÁT 2019 Bacillus subtilis. Trends in Microbiology, 27, 8. https://doi.org/10.1016/j.tim.2019.03.008
Kovács ÁT, Dragoš A 2019. Evolved Biofilm: Review on the Experimental Evolution Studies of Bacillus subtilis Pellicles. Journal of Molecular Biology, 431, 23. https://doi.org/10.1016/j.jmb.2019.02.005
Palazzotto E, Tong Y, Lee SY, Weber T 2019. Synthetic biology and metabolic engineering of actinomycetes for natural product discovery. Biotechnology Advances, 37, 6. https://doi.org/10.1016/j.biotechadv.2019.03.005
Phippen CBW, Jørgensen CM, Bentzon-Tilia M, Gotfredsen CH, Larsen TO, Gram L, Sonnenschein EC 2019. Isolation of Methyl Troposulfenin from Phaeobacter inhibens. Journal of Natural Products, 82, 1387-1390. https://doi.org/10.1021/acs.jnatprod.8b01097
Sartor F, Eelderink-Chen Z, Aronson B, Bosman J, Hibbert LE, Dodd AN, Kovács AT, Merrow M 2019. Are There Circadian Clocks in Non-Photosynthetic Bacteria?. MDPI Biology, 8, 8. http://dx.doi.org/10.3390/biology8020041
Sazinas P, Hansen ML, Aune MI, Fischer MH, Jelsbak L 2019. A Rare Thioquinolobactin Siderophore Present in a Bioactive Pseudomonas sp. DTU12.1. Genome Biology and Evolution, 11. https://doi.org/10.1093/gbe/evz267
Sazinas P, Aune MI, Fischer MH, Lauritsen JG, Gram L, Jelsbak L 2019. Complete Genome Sequence of a Bioactive Pseudomonas sp. Strain, DTU12.3, Isolated from Soil in Denmark. Microbiology Resource Announcements, 8, 16. https://doi.org/10.1128/mra.00121-19
2018
Dragos A, Kiesewalter HT, Martin M, Hsu CY, Hartmann R, Wechsler T, Eriksen C, Brix S, Drescher K, Stanley-Wall N, Kümmerli R, Kovács ÁT 2018. Division of Labor during Biofilm Matrix Production. Current Biology, 28, 12. https://doi.org/10.1016/j.cub.2018.04.046
Frisvad JC 2019. A critical review of producers of small lactone mycotoxins: patulin, penicillic acid and moniliformin. World Mycotoxin Journal, 11, 1. https://doi.org/10.3920/WMJ2017.2294
Kjærbølling I, Vesth TC, Frisvad JC, Nybo JL, Theobald S, Kuo A, Bowyer P, Matsuda Y, Mondo S, Lyhne EK, Kogle ME, Clum A, Lipzen A, Salamov A, Ngan CE, Daum C, Chiniquy J, Barry K, LaButti K, Haridas S, Simmons BA, Magnuson JK, Mortensen UH, Larsen TO, Grigoriev IV, Baker SE, Andersen MR 2018. Linking secondary metabolites to gene clusters through genome sequencing of six diverse Aspergillus species. Proceedings of the National Academy of Sciences of the United States of America, 115, 4. https://doi.org/10.1073/pnas.1715954115
Palazzotto E, Weber T 2018. Omics and multi-omics approaches to study the biosynthesis of secondary metabolites in microorganisms. Current Opinion in Microbiology, 45. https://doi.org/10.1016/j.mib.2018.03.004
Richter A, Hoelscher T, Pausch P, Sehrt T, Brockhaus F, Bange G, Kovács ÁT 2018. Hampered motility promotes the evolution of wrinkly phenotype in Bacillus subtilis. BMC Evolutionary Biology, 18, 1. https://doi.org/10.1186/s12862-018-1266-2
Vesth TC, Nybo JL, Theobald S, Frisvad, JC, Larsen, TO, Nielsen KF, Hoof, JB, Brandl J, Salamov A, Riley R, Gladden JM, Phatale P, Nielsen, MT, Lyhne EK, Kogle ME, Strasser K, McDonnell E, Barry K, Clum A, Chen C, LaButti K, Haridas S, Nolan M, Sandor L, Kuo A, Lipzen A, Hainaut M, Drula E, Tsang A, Magnuson JK, Henrissat B, Wiebenga A, Simmons BA, Mäkelä MR, de Vries RP, Grigoriev IV, Mortensen UH, Baker SE, Andersen MR 2018. Investigation of inter- and intraspecies variation through genome sequencing of Aspergillus section Nigri. Nature Genetics. 50. https://doi.org/10.1038/s41588-018-0246-1