{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,26]],"date-time":"2026-09-26T11:47:04Z","timestamp":1790423224212,"version":"4.1.0"},"reference-count":67,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2020,12,10]],"date-time":"2020-12-10T00:00:00Z","timestamp":1607558400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"},{"start":{"date-parts":[[2020,12,10]],"date-time":"2020-12-10T00:00:00Z","timestamp":1607558400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"}],"funder":[{"DOI":"10.13039\/100008397","name":"Velux Fonden","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100008397","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008393","name":"Teknologi og Produktion, Det Frie Forskningsr\u00e5d","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100008393","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001732","name":"Danmarks Grundforskningsfond","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001732","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Sci Rep"],"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Novel antimicrobials are urgently needed due to the rapid spread of antibiotic resistant bacteria. In a genome-wide analysis of <jats:italic>Pseudoalteromonas<\/jats:italic> strains, one strain (S4498) was noticed due to its potent antibiotic activity. It did not produce the yellow antimicrobial pigment bromoalterochromide, which was produced by several related type strains with which it shared less than 95% average nucleotide identity. Also, it produced a sweet-smelling volatile not observed from other strains. Mining the genome of strain S4498 using the secondary metabolite prediction tool antiSMASH led to eight biosynthetic gene clusters with no homology to known compounds, and synteny analyses revealed that the yellow pigment bromoalterochromide was likely lost during evolution. Metabolome profiling of strain S4498 using HPLC-HRMS analyses revealed marked differences to the type strains. In particular, a series of quinolones known as pseudanes were identified and verified by NMR. The characteristic odor of the strain was linked to the pseudanes. The highly halogenated compound tetrabromopyrrole was detected as the major antibacterial component by bioassay-guided fractionation. Taken together, the polyphasic analysis demonstrates that strain S4498 belongs to a novel species within the genus <jats:italic>Pseudoalteromonas,<\/jats:italic> and we propose the name <jats:italic>Pseudoalteromonas galatheae<\/jats:italic> sp. nov. (type strain S4498<jats:sup>T<\/jats:sup>\u2009=\u2009NCIMB 15250<jats:sup>T<\/jats:sup>\u2009=\u2009LMG 31599<jats:sup>T<\/jats:sup>).<\/jats:p>","DOI":"10.1038\/s41598-020-78439-3","type":"journal-article","created":{"date-parts":[[2020,12,10]],"date-time":"2020-12-10T11:09:12Z","timestamp":1607598552000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":23,"title":["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."],"prefix":"10.1038","volume":"10","author":[{"given":"Sara Sk\u00f8tt","family":"Paulsen","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas","family":"Isbrandt","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Markus","family":"Kirkegaard","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yannick","family":"Buijs","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mikael Lenz","family":"Strube","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eva C.","family":"Sonnenschein","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas O.","family":"Larsen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lone","family":"Gram","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2020,12,10]]},"reference":[{"key":"78439_CR1","doi-asserted-by":"publisher","first-page":"318","DOI":"10.1016\/S1473-3099(17)30753-3","volume":"18","author":"E Tacconelli","year":"2018","unstructured":"Tacconelli, E. et al. Discovery, research, and development of new antibiotics: The WHO priority list of antibiotic-resistant bacteria and tuberculosis. Lancet Infect. Dis. 18, 318\u2013327 (2018).","journal-title":"Lancet Infect. Dis."},{"key":"78439_CR2","doi-asserted-by":"publisher","first-page":"392","DOI":"10.1093\/femsre\/fux005","volume":"41","author":"A van der Meij","year":"2017","unstructured":"van der Meij, A., Worsley, S. F., Hutchings, M. I. & van Wezel, G. P. Chemical ecology of antibiotic production by actinomycetes. FEMS Microbiol. Rev. 41, 392\u2013416 (2017).","journal-title":"FEMS Microbiol. Rev."},{"key":"78439_CR3","doi-asserted-by":"publisher","first-page":"700","DOI":"10.3390\/md11030700","volume":"11","author":"Z-Q Xiong","year":"2013","unstructured":"Xiong, Z.-Q., Wang, J.-F., Hao, Y.-Y. & Wang, Y. Recent advances in the discovery and development of marine microbial natural products. Mar. Drugs 11, 700\u2013717 (2013).","journal-title":"Mar. Drugs"},{"key":"78439_CR4","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1016\/bs.ampbs.2015.04.001","volume":"66","author":"D Giordano","year":"2015","unstructured":"Giordano, D. et al. Marine microbial secondary metabolites: Pathways, evolution and physiological roles. Adv Microb Physiol 66, 357\u2013428 (2015).","journal-title":"Adv Microb Physiol"},{"key":"78439_CR5","doi-asserted-by":"publisher","first-page":"122","DOI":"10.1039\/C8NP00092A","volume":"36","author":"AR Carroll","year":"2019","unstructured":"Carroll, A. R., Copp, B. R., Davis, R. A., Keyzers, R. A. & Prinsep, M. R. Marine natural products. Nat. Prod. Rep. 36, 122\u2013173 (2019).","journal-title":"Nat. Prod. Rep."},{"key":"78439_CR6","doi-asserted-by":"publisher","first-page":"439","DOI":"10.1007\/s10126-009-9233-y","volume":"12","author":"L Gram","year":"2010","unstructured":"Gram, L., Melchiorsen, J. & Bruhn, J. B. Antibacterial activity of marine culturable bacteria collected from a global sampling of ocean surface waters and surface swabs of marine organisms. Mar. Biotechnol. 12, 439\u2013451 (2010).","journal-title":"Mar. Biotechnol."},{"key":"78439_CR7","doi-asserted-by":"publisher","first-page":"1062","DOI":"10.1007\/s10126-011-9369-4","volume":"13","author":"NG Vynne","year":"2011","unstructured":"Vynne, N. G., M\u00e5nsson, M., Nielsen, K. F. & Gram, L. Bioactivity, chemical profiling, and 16S rRNA-based phylogeny of Pseudoalteromonas strains collected on a global research cruise. Mar. Biotechnol. 13, 1062\u20131073 (2011).","journal-title":"Mar. Biotechnol."},{"key":"78439_CR8","doi-asserted-by":"publisher","first-page":"179","DOI":"10.3354\/ame01443","volume":"61","author":"M Wietz","year":"2010","unstructured":"Wietz, M., Gram, L., J\u00f8rgensen, B. & Schramm, A. Latitudinal patterns in the abundance of major marine bacterioplankton groups. Aquat. Microb. Ecol. 61, 179\u2013189 (2010).","journal-title":"Aquat. Microb. Ecol."},{"key":"78439_CR9","doi-asserted-by":"publisher","first-page":"6885","DOI":"10.1128\/AEM.01987-13","volume":"79","author":"N Bernbom","year":"2013","unstructured":"Bernbom, N., Ng, Y. Y., Olsen, S. M. & Gram, L. Pseudoalteromonas spp. Serve as initial bacterial attractants in mesocosms of coastal waters but have subsequent antifouling capacity in mesocosms and when embedded in paint. Appl. Environ. Microbiol. 79, 6885\u20136893 (2013).","journal-title":"Appl. Environ. Microbiol."},{"key":"78439_CR10","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1038\/s41598-019-56847-4","volume":"10","author":"LH Peng","year":"2020","unstructured":"Peng, L. H., Liang, X., Xu, J. K., Dobretsov, S. & Yang, J. L. Monospecific biofilms of Pseudoalteromonas promote larval settlement and metamorphosis of Mytilus coruscus. Sci. Rep. 10, 1\u201312 (2020).","journal-title":"Sci. Rep."},{"key":"78439_CR11","doi-asserted-by":"publisher","first-page":"220","DOI":"10.3390\/md504220","volume":"5","author":"JP Bowman","year":"2007","unstructured":"Bowman, J. P. Bioactive compound synthetic capacity and ecological significance of marine bacterial genus Pseudoalteromonas. Mar. Drugs 5, 220\u2013241 (2007).","journal-title":"Mar. Drugs"},{"key":"78439_CR12","doi-asserted-by":"publisher","first-page":"e00060-19","DOI":"10.1128\/mSystems.00060-19","volume":"4","author":"SS Paulsen","year":"2019","unstructured":"Paulsen, S. S., Strube, M. L., Bech, P. K., Gram, L. & Sonnenschein, E. C. Marine chitinolytic Pseudoalteromonas represents an untapped reservoir of bioactive potential. mSystems 4, e00060-19 (2019).","journal-title":"mSystems"},{"key":"78439_CR13","doi-asserted-by":"publisher","first-page":"81","DOI":"10.1099\/ijs.0.64483-0","volume":"57","author":"J Goris","year":"2007","unstructured":"Goris, J. et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int. J. Syst. Evol. Microbiol. 57, 81\u201391 (2007).","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"78439_CR14","doi-asserted-by":"publisher","first-page":"99","DOI":"10.1016\/S0723-2020(88)80020-1","volume":"10","author":"LG Wayne","year":"1987","unstructured":"Wayne, L. G. International committee on systematic bacteriology: Announcement of the report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Syst. Appl. Microbiol. 10, 99\u2013100 (1987).","journal-title":"Syst. Appl. Microbiol."},{"key":"78439_CR15","doi-asserted-by":"publisher","first-page":"316","DOI":"10.1099\/ijs.0.054171-0","volume":"64","author":"J Chun","year":"2014","unstructured":"Chun, J. & Rainey, F. A. Integrating genomics into the taxonomy and systematics of the Bacteria and Archaea. Int. J. Syst. Evol. Microbiol. 64, 316\u2013324 (2014).","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"78439_CR16","first-page":"1","volume":"129","author":"C Offret","year":"2016","unstructured":"Offret, C., Desriac, F., Chevalier, P. L., Mounier, J. & J\u00e9gou, C. Spotlight on antimicrobial metabolites from the marine bacteria Pseudoalteromonas: Chemodiversity and ecological significance. Mar. Drugs 129, 1\u201326 (2016).","journal-title":"Mar. Drugs"},{"key":"78439_CR17","doi-asserted-by":"publisher","first-page":"36","DOI":"10.1038\/ja.2007.5","volume":"60","author":"M Speitling","year":"2007","unstructured":"Speitling, M., Smetanina, O. F., Kuznetsova, T. A. & Laatsch, H. Bromoalterochromides A and A\u2032, unprecedented chromopeptides from a marine Pseudoalteromonas maricaloris Strain KMM 636T. J. Antibiot. (Tokyo) 60, 36\u201342 (2007).","journal-title":"J. Antibiot. (Tokyo)"},{"key":"78439_CR18","doi-asserted-by":"publisher","first-page":"402","DOI":"10.1021\/np500775e","volume":"78","author":"KE Whalen","year":"2015","unstructured":"Whalen, K. E., Poulson-Ellestad, K. L., Deering, R. W., Rowley, D. C. & Mincer, T. J. Enhancement of antibiotic activity against multidrug-resistant bacteria by the efflux pump inhibitor 3,4-dibromopyrrole-2,5-dione isolated from a Pseudoalteromonas sp. J. Nat. Prod. 78, 402\u2013412 (2015).","journal-title":"J. Nat. Prod."},{"key":"78439_CR19","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s40168-019-0711-9","volume":"7","author":"KE Whalen","year":"2019","unstructured":"Whalen, K. E. et al. Bacterial alkylquinolone signaling contributes to structuring microbial communities in the ocean. Microbiome 7, 1\u201317 (2019).","journal-title":"Microbiome"},{"key":"78439_CR20","doi-asserted-by":"publisher","first-page":"15498","DOI":"10.1038\/s41598-018-33945-3","volume":"8","author":"KE Whalen","year":"2018","unstructured":"Whalen, K. E. et al. The chemical cue tetrabromopyrrole induces rapid cellular stress and mortality in phytoplankton. Sci. Rep. 8, 15498 (2018).","journal-title":"Sci. Rep."},{"key":"78439_CR21","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3389\/fmicb.2016.00059","volume":"7","author":"EL Harvey","year":"2016","unstructured":"Harvey, E. L. et al. A bacterial quorum-sensing precursor induces mortality in the marine coccolithophore, Emiliania huxleyi. Front. Microbiol. 7, 1\u201312 (2016).","journal-title":"Front. Microbiol."},{"key":"78439_CR22","doi-asserted-by":"publisher","first-page":"1043","DOI":"10.1101\/gr.186072.114","volume":"25","author":"DH Parks","year":"2015","unstructured":"Parks, D. H., Imelfort, M., Skennerton, C. T., Hugenholtz, P. & Tyson, G. W. CheckM: Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res. 25, 1043\u20131055 (2015).","journal-title":"Genome Res."},{"key":"78439_CR23","doi-asserted-by":"publisher","first-page":"461","DOI":"10.1099\/ijsem.0.002516","volume":"68","author":"J Chun","year":"2018","unstructured":"Chun, J. et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int. J. Syst. Evol. Microbiol. 68, 461\u2013466 (2018).","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"78439_CR24","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3389\/fmicb.2018.01232","volume":"9","author":"RT Espejo","year":"2018","unstructured":"Espejo, R. T. & Plaza, N. Multiple ribosomal RNA operons in bacteria; their concerted evolution and potential consequences on the rate of evolution of their 16S rRNA. Front. Microbiol. 9, 1\u20136 (2018).","journal-title":"Front. Microbiol."},{"key":"78439_CR25","doi-asserted-by":"publisher","first-page":"2567","DOI":"10.1073\/pnas.0409727102","volume":"102","author":"KT Konstantinidis","year":"2005","unstructured":"Konstantinidis, K. T. & Tiedje, J. M. Genomic insights that advance the species definition for prokaryotes. Proc. Natl. Acad. Sci. U. S. A. 102, 2567\u20132572 (2005).","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"78439_CR26","doi-asserted-by":"publisher","first-page":"2386","DOI":"10.1099\/ijsem.0.002809","volume":"68","author":"S Ciufo","year":"2018","unstructured":"Ciufo, S. et al. Using average nucleotide identity to improve taxonomic assignments in prokaryotic genomes at the NCBI. Int. J. Syst. Evol. Microbiol. 68, 2386\u20132392 (2018).","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"78439_CR27","doi-asserted-by":"publisher","first-page":"W95","DOI":"10.1093\/nar\/gky418","volume":"46","author":"H Zhang","year":"2018","unstructured":"Zhang, H. et al. DbCAN2: A meta server for automated carbohydrate-active enzyme annotation. Nucleic Acids Res. 46, W95\u2013W101 (2018).","journal-title":"Nucleic Acids Res."},{"key":"78439_CR28","first-page":"1","volume":"1","author":"K Blin","year":"2019","unstructured":"Blin, K. et al. antiSMASH 5.0: Updates to the secondary metabolite genome mining pipeline. Nucleic Acids Res. 1, 1\u20137 (2019).","journal-title":"Nucleic Acids Res."},{"key":"78439_CR29","doi-asserted-by":"publisher","DOI":"10.1111\/1462-2920.14532","author":"J Busch","year":"2019","unstructured":"Busch, J. et al. Diversity and distribution of the bmp gene cluster and its products in the genus Pseudoalteromonas. Environ. Microbiol. https:\/\/doi.org\/10.1111\/1462-2920.14532 (2019).","journal-title":"Environ. Microbiol."},{"key":"78439_CR30","first-page":"1352","volume":"29","author":"D Meleshko","year":"2019","unstructured":"Meleshko, D. et al. BiosyntheticSPAdes: Reconstructing biosynthetic gene clusters from assembly graphs. Under Rev. 29, 1352\u20131362 (2019).","journal-title":"Under Rev."},{"key":"78439_CR31","doi-asserted-by":"publisher","first-page":"968","DOI":"10.1016\/j.tim.2016.07.006","volume":"24","author":"PR Jensen","year":"2016","unstructured":"Jensen, P. R. Natural products and the gene cluster revolution. Trends Microbiol. 24, 968\u2013977 (2016).","journal-title":"Trends Microbiol."},{"key":"78439_CR32","doi-asserted-by":"publisher","first-page":"3660","DOI":"10.1111\/1462-2920.13867","volume":"19","author":"AC Letzel","year":"2017","unstructured":"Letzel, A. C. et al. Genomic insights into specialized metabolism in the marine actinomycete Salinispora. Environ. Microbiol. 19, 3660\u20133673 (2017).","journal-title":"Environ. Microbiol."},{"key":"78439_CR33","doi-asserted-by":"crossref","first-page":"1843","DOI":"10.1093\/genetics\/143.4.1843","volume":"143","author":"JG Lawrence","year":"1996","unstructured":"Lawrence, J. G. & Roth, J. R. Selfish operons: Horizontal transfer may drive the evolution of gene clusters. Genetics 143, 1843\u20131860 (1996).","journal-title":"Genetics"},{"key":"78439_CR34","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pone.0116457","volume":"10","author":"RF Seipke","year":"2015","unstructured":"Seipke, R. F. Strain-level diversity of secondary metabolism in Streptomyces albus. PLoS ONE 10, 1\u201314 (2015).","journal-title":"PLoS ONE"},{"key":"78439_CR35","doi-asserted-by":"publisher","first-page":"19","DOI":"10.1016\/j.jchromb.2017.06.002","volume":"1071","author":"T Depke","year":"2017","unstructured":"Depke, T., Franke, R. & Br\u00f6nstrup, M. Clustering of MS2 spectra using unsupervised methods to aid the identification of secondary metabolites from Pseudomonas aeruginosa. J. Chromatogr. B 1071, 19\u201328 (2017).","journal-title":"J. Chromatogr. B"},{"key":"78439_CR36","doi-asserted-by":"publisher","first-page":"3632","DOI":"10.1016\/j.tetlet.2018.08.062","volume":"59","author":"B Lohrer","year":"2018","unstructured":"Lohrer, B. & Bracher, F. A short and divergent route to 2-alkenyl-4-quinolones. Tetrahedron. Lett. 59, 3632\u20133635 (2018).","journal-title":"Tetrahedron. Lett."},{"key":"78439_CR37","first-page":"1","volume":"27","author":"CE Dulcey","year":"2013","unstructured":"Dulcey, C. E. et al. The end of a long-standing hypothesis: The Pseudomonas signalling molecules 4-hydroxy-2-alkylquinolines are derived from fatty acids, not 3-ketofatty acids. Chem. Biol. 27, 1\u201319 (2013).","journal-title":"Chem. Biol."},{"key":"78439_CR38","first-page":"1","volume":"14","author":"WJ Kim","year":"2016","unstructured":"Kim, W. J. et al. Liquid chromatography-mass spectrometry-based rapid secondary-metabolite profiling of marine Pseudoalteromonas sp. M2. Mar. Drugs 14, 1\u201311 (2016).","journal-title":"Mar. Drugs"},{"key":"78439_CR39","doi-asserted-by":"publisher","first-page":"413","DOI":"10.1111\/j.1574-6941.2011.01121.x","volume":"77","author":"FJ Reen","year":"2011","unstructured":"Reen, F. J. et al. The Pseudomonas quinolone signal (PQS), and its precursor HHQ, modulate interspecies and interkingdom behaviour. FEMS Microbiol. Ecol. 77, 413\u2013428 (2011).","journal-title":"FEMS Microbiol. Ecol."},{"key":"78439_CR40","doi-asserted-by":"publisher","first-page":"56","DOI":"10.1186\/1471-2466-10-56","volume":"10","author":"AJ Scott-Thomas","year":"2010","unstructured":"Scott-Thomas, A. J. et al. 2-Aminoacetophenone as a potential breath biomarker for Pseudomonas aeruginosa in the cystic fibrosis lung. BMC Pulm. Med. 10, 56 (2010).","journal-title":"BMC Pulm. Med."},{"key":"78439_CR41","doi-asserted-by":"publisher","first-page":"3258","DOI":"10.1039\/C4CC10393A","volume":"51","author":"I Kviatkovski","year":"2015","unstructured":"Kviatkovski, I. et al. Pseudomonas aeruginosa activates the quorum sensing LuxR response regulator through secretion of 2-aminoacetophenone. Chem. Commun. 51, 3258\u20133261 (2015).","journal-title":"Chem. Commun."},{"key":"78439_CR42","first-page":"20133086","volume":"281","author":"JM Sneed","year":"2014","unstructured":"Sneed, J. M., Sharp, K. H., Ritchie, K. B. & Paul, V. J. The chemical cue tetrabromopyrrole from a biofilm bacterium induces settlement of multiple Caribbean corals. Proc. Biol. Sci. 281, 20133086 (2014).","journal-title":"Proc. Biol. Sci."},{"key":"78439_CR43","doi-asserted-by":"publisher","first-page":"3797","DOI":"10.1073\/pnas.1519695113","volume":"113","author":"AE Gamal","year":"2016","unstructured":"Gamal, A. E. et al. Biosynthesis of coral settlement cue tetrabromopyrrole in marine bacteria by a uniquely adapted brominase-thioesterase enzyme pair. Proc. Natl. Acad. Sci. U. S. A. 113, 3797\u20133802 (2016).","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"78439_CR44","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00730-16","author":"S Giubergia","year":"2016","unstructured":"Giubergia, S., Phippen, C., Gotfredsen, C. H., Nielsen, K. F. & Gram, L. Influence of niche-specific nutrients on secondary metabolism in Vibrionaceae. Appl. Environ. Microbiol. https:\/\/doi.org\/10.1128\/AEM.00730-16 (2016).","journal-title":"Appl. Environ. Microbiol."},{"key":"78439_CR45","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1128\/mSystems.00141-16","volume":"2","author":"S Giubergia","year":"2017","unstructured":"Giubergia, S., Phippen, C., Nielsen, K. F. & Gram, L. Growth on chitin impacts the transcriptome and metabolite profiles of antibiotic-producing Vibrio coralliilyticus S2052 and Photobacterium galathea S2753. mSystems 2, 1\u201312 (2017).","journal-title":"mSystems"},{"key":"78439_CR46","doi-asserted-by":"publisher","first-page":"146","DOI":"10.3109\/10408410903489576","volume":"36","author":"B Ruiz","year":"2010","unstructured":"Ruiz, B. et al. Production of microbial secondary metabolites: Regulation by the carbon source. Crit. Rev. Microbiol. 36, 146\u2013167 (2010).","journal-title":"Crit. Rev. Microbiol."},{"key":"78439_CR47","doi-asserted-by":"publisher","first-page":"83","DOI":"10.1016\/0378-1097(91)90690-C","volume":"86","author":"J \u00d6stling","year":"1991","unstructured":"\u00d6stling, J., Goodman, A. & Kjelleberg, S. Behaviour of IncP-1 plasmids and a miniMu transposon in a marine Vibrio sp.: Isolation of starvation inducible lac operon fusions. FEMS Microbiol. Lett. 86, 83\u201394 (1991).","journal-title":"FEMS Microbiol. Lett."},{"key":"78439_CR48","doi-asserted-by":"publisher","first-page":"123","DOI":"10.1007\/BF00498806","volume":"5","author":"T Gregersen","year":"1978","unstructured":"Gregersen, T. Rapid method for distinction of gram-negative from gram-positive bacteria. Eur. J. Appl. Microbiol. Biotechnol. 5, 123\u2013127 (1978).","journal-title":"Eur. J. Appl. Microbiol. Biotechnol."},{"key":"78439_CR49","unstructured":"Cowan, S. T. Cowan and steel\u2019s manual for the identification of medical bacteria. In Cowan and Steel\u2019s Manual for the Identification of Medical Bacteria (Cambridge University Press (CUP), Cambridge, 1974)."},{"key":"78439_CR50","doi-asserted-by":"publisher","first-page":"455","DOI":"10.1089\/cmb.2012.0021","volume":"19","author":"A Bankevich","year":"2012","unstructured":"Bankevich, A. et al. SPAdes: A new genome assembly algorithm and its applications to single-cell sequencing. J. Comput. Biol. 19, 455\u2013477 (2012).","journal-title":"J. Comput. Biol."},{"key":"78439_CR51","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pcbi.1005595","volume":"13","author":"RR Wick","year":"2017","unstructured":"Wick, R. R., Judd, L. M., Gorrie, C. L. & Holt, K. E. Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads. PLoS Comput. Biol. 13, 1\u201322 (2017).","journal-title":"PLoS Comput. Biol."},{"key":"78439_CR52","doi-asserted-by":"publisher","first-page":"2068","DOI":"10.1093\/bioinformatics\/btu153","volume":"30","author":"T Seemann","year":"2014","unstructured":"Seemann, T. Prokka: Rapid prokaryotic genome annotation. Bioinformatics 30, 2068\u20132069 (2014).","journal-title":"Bioinformatics"},{"key":"78439_CR53","doi-asserted-by":"publisher","first-page":"1072","DOI":"10.1093\/bioinformatics\/btt086","volume":"29","author":"A Gurevich","year":"2013","unstructured":"Gurevich, A., Saveliev, V., Vyahhi, N. & Tesler, G. QUAST: Quality assessment tool for genome assemblies. Bioinformatics 29, 1072\u20131075 (2013).","journal-title":"Bioinformatics"},{"key":"78439_CR54","doi-asserted-by":"publisher","first-page":"265","DOI":"10.1099\/00207713-50-1-265","volume":"50","author":"T Sawabe","year":"2000","unstructured":"Sawabe, T. et al. Assignment of Alteromonas elyakovii KMM 162(T) and five strains isolated from spot-wounded fronds of Laminaria japonica to Pseudoalteromonas elyakovii comb. nov. and the extended description of the species. Int. J. Syst. Evol. Microbiol. 50, 265\u2013271 (2000).","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"78439_CR55","doi-asserted-by":"publisher","first-page":"613","DOI":"10.1093\/nar\/gkt1111","volume":"42","author":"AC Parte","year":"2014","unstructured":"Parte, A. C. LPSN\u2014List of prokaryotic names with standing in nomenclature. Nucleic Acids Res. 42, 613\u2013616 (2014).","journal-title":"Nucleic Acids Res."},{"key":"78439_CR56","unstructured":"Pritchard, L. calculate_ani.py. Github Repos (2014)."},{"key":"78439_CR57","doi-asserted-by":"publisher","first-page":"1100","DOI":"10.1099\/ijsem.0.000760","volume":"66","author":"I Lee","year":"2016","unstructured":"Lee, I., Kim, Y. O., Park, S. C. & Chun, J. OrthoANI: An improved algorithm and software for calculating average nucleotide identity. Int. J. Syst. Evol. Microbiol. 66, 1100\u20131103 (2016).","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"78439_CR58","doi-asserted-by":"publisher","first-page":"60","DOI":"10.1186\/1471-2105-14-60","volume":"14","author":"JP Meier-Kolthoff","year":"2013","unstructured":"Meier-Kolthoff, J. P., Auch, A. F., Klenk, H. P. & G\u00f6ker, M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinform. 14, 60 (2013).","journal-title":"BMC Bioinform."},{"key":"78439_CR59","unstructured":"Kolde, R. R Package \u2018Pheatmap 1.0.10\u2019. 1\u20138 (2018)."},{"key":"78439_CR60","unstructured":"R Core Team. R: A Language and Environment for Statistical Computing. (2020)."},{"key":"78439_CR61","doi-asserted-by":"publisher","first-page":"2182","DOI":"10.1038\/s41467-019-10210-3","volume":"10","author":"JP Meier-Kolthoff","year":"2019","unstructured":"Meier-Kolthoff, J. P. & G\u00f6ker, M. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat. Commun. 10, 2182 (2019).","journal-title":"Nat. Commun."},{"key":"78439_CR62","doi-asserted-by":"publisher","first-page":"1792","DOI":"10.1093\/nar\/gkh340","volume":"32","author":"RC Edgar","year":"2004","unstructured":"Edgar, R. C. MUSCLE: Multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792\u20131797 (2004).","journal-title":"Nucleic Acids Res."},{"issue":"3","key":"78439_CR63","doi-asserted-by":"publisher","first-page":"e9490","DOI":"10.1371\/journal.pone.0009490","volume":"5","author":"MN Price","year":"2010","unstructured":"Price, M. N., Dehal, P. S. & Arkin, A. P. FastTree 2\u2014Approximately maximum-likelihood trees for large alignments. PLoS One 5(3), e9490 (2010).","journal-title":"PLoS One"},{"key":"78439_CR64","doi-asserted-by":"publisher","first-page":"625","DOI":"10.1038\/nchembio.1890","volume":"11","author":"MH Medema","year":"2015","unstructured":"Medema, M. H. et al. Minimum information about a biosynthetic gene cluster. Nat. Chem. Biol. 11, 625\u2013631 (2015).","journal-title":"Nat. Chem. Biol."},{"key":"78439_CR65","first-page":"2334","volume":"27","author":"L Guy","year":"2011","unstructured":"Guy, L., Kultima, J. R., Andersson, S. G. E. & Quackenbush, J. GenoPlotR: Comparative gene and genome visualization in R. Bioinformatics 27, 2334\u20132335 (2011).","journal-title":"Bioinformatics"},{"key":"78439_CR66","doi-asserted-by":"publisher","first-page":"519","DOI":"10.1016\/j.chembiol.2014.01.013","volume":"21","author":"DK Holm","year":"2014","unstructured":"Holm, D. K. et al. Molecular and chemical characterization of the biosynthesis of the 6-MSA-derived meroterpenoid yanuthone D in Aspergillus niger. Chem. Biol. 21, 519\u2013529 (2014).","journal-title":"Chem. Biol."},{"key":"78439_CR67","doi-asserted-by":"publisher","first-page":"1540","DOI":"10.1128\/AEM.61.4.1540-1545.1995","volume":"61","author":"MN Skov","year":"1995","unstructured":"Skov, M. N., Pedersen, K. & Larsen, J. L. Comparison of pulsed-field gel electrophoresis, ribotyping, and plasmid profiling for typing of Vibrio anguillarum Serovar O1. Appl. Environ. Microbiol. 61, 1540\u20131545 (1995).","journal-title":"Appl. Environ. Microbiol."}],"container-title":["Scientific Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41598-020-78439-3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-020-78439-3","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-020-78439-3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,12,7]],"date-time":"2022-12-07T00:23:08Z","timestamp":1670372588000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41598-020-78439-3"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2020,12,10]]},"references-count":67,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2020,12]]}},"alternative-id":["78439"],"URL":"https:\/\/doi.org\/10.1038\/s41598-020-78439-3","relation":{},"ISSN":["2045-2322"],"issn-type":[{"value":"2045-2322","type":"electronic"}],"subject":[],"published":{"date-parts":[[2020,12,10]]},"assertion":[{"value":"6 December 2019","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"25 November 2020","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"10 December 2020","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"21630"}}