{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,27]],"date-time":"2026-04-27T22:41:48Z","timestamp":1777329708297,"version":"3.51.4"},"reference-count":40,"publisher":"Oxford University Press (OUP)","issue":"W1","license":[{"start":{"date-parts":[[2023,5,19]],"date-time":"2023-05-19T00:00:00Z","timestamp":1684454400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100009139","name":"German Center for Infection Research","doi-asserted-by":"publisher","award":["DZIF TTU09.716"],"award-info":[{"award-number":["DZIF TTU09.716"]}],"id":[{"id":"10.13039\/100009139","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003766","name":"Ministry of National Education","doi-asserted-by":"publisher","award":["[Law: 1416"],"award-info":[{"award-number":["[Law: 1416"]}],"id":[{"id":"10.13039\/501100003766","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001659","name":"Deutsche Forschungsgemeinschaft","doi-asserted-by":"publisher","award":["EXC 2124 \u2013 390838134"],"award-info":[{"award-number":["EXC 2124 \u2013 390838134"]}],"id":[{"id":"10.13039\/501100001659","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,7,5]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>There is an urgent need to diversify the pipeline for discovering novel natural products due to the increase in multi-drug resistant infections. Like bacteria, fungi also produce secondary metabolites that have potent bioactivity and rich chemical diversity. To avoid self-toxicity, fungi encode resistance genes which are often present within the biosynthetic gene clusters (BGCs) of the corresponding bioactive compounds. Recent advances in genome mining tools have enabled the detection and prediction of BGCs responsible for the biosynthesis of secondary metabolites. The main challenge now is to prioritize the most promising BGCs that produce bioactive compounds with novel modes of action. With target-directed genome mining methods, it is possible to predict the mode of action of a compound encoded in an uncharacterized BGC based on the presence of resistant target genes. Here, we introduce the \u2018fungal bioactive compound resistant target seeker\u2019 (FunARTS) available at https:\/\/funarts.ziemertlab.com. This is a specific and efficient mining tool for the identification of fungal bioactive compounds with interesting and novel targets. FunARTS rapidly links housekeeping and known resistance genes to BGC proximity and duplication events, allowing for automated, target-directed mining of fungal genomes. Additionally, FunARTS generates gene cluster networking by comparing the similarity of BGCs from multi-genomes.<\/jats:p>","DOI":"10.1093\/nar\/gkad386","type":"journal-article","created":{"date-parts":[[2023,5,19]],"date-time":"2023-05-19T20:21:44Z","timestamp":1684527704000},"page":"W191-W197","source":"Crossref","is-referenced-by-count":19,"title":["FunARTS, the Fungal bioActive compound Resistant Target\u00a0Seeker, an exploration engine for target-directed genome mining in fungi"],"prefix":"10.1093","volume":"51","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-6544-4345","authenticated-orcid":false,"given":"Turgut Mesut","family":"Y\u0131lmaz","sequence":"first","affiliation":[{"name":"Translational Genome Mining for Natural Products, Interfaculty Institute of Microbiology and Infection Medicine T\u00fcbingen (IMIT), Interfaculty Institute for Biomedical Informatics (IBMI), University of T\u00fcbingen , Auf der Morgenstelle 28, 72076 , T\u00fcbingen , Germany"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5603-9890","authenticated-orcid":false,"given":"Mehmet Diren\u00e7","family":"Mungan","sequence":"additional","affiliation":[{"name":"Translational Genome Mining for Natural Products, Interfaculty Institute of Microbiology and Infection Medicine T\u00fcbingen (IMIT), Interfaculty Institute for Biomedical Informatics (IBMI), University of T\u00fcbingen , Auf der Morgenstelle 28, 72076 , T\u00fcbingen , Germany"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7317-8139","authenticated-orcid":false,"given":"Aileen","family":"Berasategui","sequence":"additional","affiliation":[{"name":"University of T\u00fcbingen, Cluster of Excellence \u2018Controlling Microbes to Fight Infections\u2019 , Auf der Morgenstelle 28, T\u00fcbingen 72076, Germany"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7264-1857","authenticated-orcid":false,"given":"Nadine","family":"Ziemert","sequence":"additional","affiliation":[{"name":"Translational Genome Mining for Natural Products, Interfaculty Institute of Microbiology and Infection Medicine T\u00fcbingen (IMIT), Interfaculty Institute for Biomedical Informatics (IBMI), University of T\u00fcbingen , Auf der Morgenstelle 28, 72076 , T\u00fcbingen , Germany"},{"name":"German Center for Infection Research (DZIF) , Partner Site T\u00fcbingen, T\u00fcbingen , Germany"}]}],"member":"286","published-online":{"date-parts":[[2023,5,19]]},"reference":[{"key":"2023070505024972500_B1","doi-asserted-by":"crossref","first-page":"e01966-21","DOI":"10.1128\/mBio.01966-21","article-title":"Why do antibiotics exist?","volume":"12","author":"Spagnolo","year":"2021","journal-title":"Mbio"},{"key":"2023070505024972500_B2","doi-asserted-by":"crossref","first-page":"e51034","DOI":"10.15252\/embr.202051034","article-title":"Antibiotic resistance and persistence-Implications for human health and treatment perspectives","volume":"21","author":"Huemer","year":"2020","journal-title":"EMBO Rep."},{"key":"2023070505024972500_B3","doi-asserted-by":"crossref","first-page":"1837","DOI":"10.3390\/pharmaceutics14091837","article-title":"How to completely squeeze a fungus\u2014advanced genome mining tools for novel bioactive substances","volume":"14","author":"Sch\u00fcller","year":"2022","journal-title":"Pharmaceutics"},{"key":"2023070505024972500_B4","doi-asserted-by":"crossref","first-page":"2275","DOI":"10.1021\/acschembio.6b00213","article-title":"Resistance gene-guided genome mining: serial promoter exchanges in Aspergillus nidulans reveal the biosynthetic pathway for fellutamide B, a proteasome inhibitor","volume":"11","author":"Yeh","year":"2016","journal-title":"ACS Chem. 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