{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,10]],"date-time":"2026-09-10T14:06:02Z","timestamp":1789049162561,"version":"build-2803163510"},"reference-count":55,"publisher":"MDPI AG","issue":"9","license":[{"start":{"date-parts":[[2026,9,10]],"date-time":"2026-09-10T00:00:00Z","timestamp":1788998400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100003196","name":"Ministero della Salute","doi-asserted-by":"publisher","award":["RC IZSSi 08\/23"],"award-info":[{"award-number":["RC IZSSi 08\/23"]}],"id":[{"id":"10.13039\/501100003196","id-type":"DOI","asserted-by":"publisher"}]},{"award":["RC IZSSi 08\/23"],"award-info":[{"award-number":["RC IZSSi 08\/23"]}],"id":[{"id":"https:\/\/ror.org\/00789fa95","id-type":"ROR","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Mar. Drugs","Marine Drugs"],"abstract":"<jats:p>Rare actinobacteria are promising sources of specialized metabolites, yet genome mining still prioritizes genomes encoding many biosynthetic gene clusters (BGCs) rather than clusters that are distant from characterized chemistry. Here, we describe the isolation of a novel Jiangella strain reported from a marine, animal-associated plastisphere and place its biosynthetic repertoire in the context of the whole genus, providing a genome-based prioritization of candidate biosynthetic targets. Digital DNA-DNA hybridization (57.8%) and OrthoANIu (94.65%) values against its closest relative, J. alba DSM 45237\u1d40, support its assignment as a candidate novel species, although formal species description will require additional phenotypic and chemotaxonomic characterization. antiSMASH predicted twelve BGCs, within the range observed across the genus (7\u201313), of which only one matched a characterized pathway, and the Biosynthetic Novelty Index of the genome was 865.3, the fourth highest among the twelve genomes analyzed. Across these genomes, 124 BGCs grouped into 70 gene cluster families, 74% of them strain-specific. Two families without any characterized representative, a lasso-peptide family and a RiPP recognition element-containing family, were instead conserved across a subclade, down to nearly identical precursor peptides. No antimicrobial activity was detected under the conditions tested. Genus-wide comparison therefore identifies conserved yet uncharacterized families as rational priorities that cluster counts alone would miss.<\/jats:p>","DOI":"10.3390\/md24090319","type":"journal-article","created":{"date-parts":[[2026,9,10]],"date-time":"2026-09-10T13:04:57Z","timestamp":1789045497000},"page":"319","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Comparative Genome Mining of Jiangella sp. GA3 from Turtle-Ingested Plastic Reveals Conserved Biosynthetic Gene Clusters"],"prefix":"10.3390","volume":"24","author":[{"ORCID":"https:\/\/orcid.org\/0009-0006-2808-0745","authenticated-orcid":false,"given":"Ruggero","family":"Baviera","sequence":"first","affiliation":[{"name":"Dipartimento Scienze e Tecnologia Biologiche, Chimiche e Farmaceutiche, Viale delle Scienze, Universit\u00e0 Di Palermo, 90133 Palermo, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4857-6538","authenticated-orcid":false,"given":"Fanny Claire","family":"Capri","sequence":"additional","affiliation":[{"name":"Dipartimento Scienze e Tecnologia Biologiche, Chimiche e Farmaceutiche, Viale delle Scienze, Universit\u00e0 Di Palermo, 90133 Palermo, Italy"},{"name":"National Biodiversity Future Center (NBFC), Piazza Marina, 61, 90133 Palermo, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1766-5327","authenticated-orcid":false,"given":"Paola","family":"Galluzzo","sequence":"additional","affiliation":[{"name":"Istituto Zooprofilattico Sperimentale della Sicilia \u201cMirri\u201d, Via G. Marinuzzi 3, 90129 Palermo, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1054-6915","authenticated-orcid":false,"given":"Rosa","family":"Alduina","sequence":"additional","affiliation":[{"name":"Dipartimento Scienze e Tecnologia Biologiche, Chimiche e Farmaceutiche, Viale delle Scienze, Universit\u00e0 Di Palermo, 90133 Palermo, Italy"},{"name":"National Biodiversity Future Center (NBFC), Piazza Marina, 61, 90133 Palermo, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,9,10]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"102385","DOI":"10.1016\/j.mib.2023.102385","article-title":"Antibiotics from Rare Actinomycetes, beyond the Genus Streptomyces","volume":"76","author":"Parra","year":"2023","journal-title":"Curr. Opin. Microbiol."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"60","DOI":"10.1038\/s41589-019-0400-9","article-title":"A Computational Framework to Explore Large-Scale Biosynthetic Diversity","volume":"16","author":"Mullowney","year":"2020","journal-title":"Nat. Chem. Biol."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"3277","DOI":"10.1007\/s00253-019-09708-z","article-title":"Detecting and Prioritizing Biosynthetic Gene Clusters for Bioactive Compounds in Bacteria and Fungi","volume":"103","author":"Tran","year":"2019","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"ref_4","first-page":"000921","article-title":"Biosynthetic Novelty Index Reveals the Metabolic Potential of Rare Actinobacteria Isolated from Highly Oligotrophic Sediments","volume":"9","author":"Quezada","year":"2023","journal-title":"Microb. Genom."},{"key":"ref_5","doi-asserted-by":"crossref","unstructured":"Malit, J., Leung, H., and Qian, P.-Y. (2022). Targeted Large-Scale Genome Mining and Candidate Prioritization for Natural Product Discovery. Mar. Drugs, 20.","DOI":"10.3390\/md20060398"},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"E1130","DOI":"10.1073\/pnas.1324161111","article-title":"Diversity and Evolution of Secondary Metabolism in the Marine Actinomycete Genus Salinispora","volume":"111","author":"Ziemert","year":"2014","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_7","doi-asserted-by":"crossref","unstructured":"Adamek, M., Alanjary, M., Sales-Ortells, H., Goodfellow, M., Bull, A.T., Winkler, A., Wibberg, D., Kalinowski, J., and Ziemert, N. (2018). Comparative Genomics Reveals Phylogenetic Distribution Patterns of Secondary Metabolites in Amycolatopsis Species. BMC Genom., 19.","DOI":"10.1186\/s12864-018-4809-4"},{"key":"ref_8","doi-asserted-by":"crossref","unstructured":"Caicedo-Montoya, C., Manzo-Ruiz, M., and R\u00edos-Estepa, R. (2021). Pan-Genome of the Genus Streptomyces and Prioritization of Biosynthetic Gene Clusters with Potential to Produce Antibiotic Compounds. Front. Microbiol., 12.","DOI":"10.3389\/fmicb.2021.677558"},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"630","DOI":"10.1111\/jam.14386","article-title":"Extreme Environments: Microbiology Leading to Specialized Metabolites","volume":"128","author":"Sayed","year":"2020","journal-title":"J. Appl. Microbiol."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"7137","DOI":"10.1021\/es401288x","article-title":"Life in the \u201cPlastisphere\u201d: Microbial Communities on Plastic Marine Debris","volume":"47","author":"Zettler","year":"2013","journal-title":"Environ. Sci. Technol."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1038\/s41579-019-0308-0","article-title":"Ecology of the Plastisphere","volume":"18","author":"Zettler","year":"2020","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"121466","DOI":"10.1016\/j.envpol.2023.121466","article-title":"Clinically Important E. coli Strains Can Persist, and Retain Their Pathogenicity, on Environmental Plastic and Fabric Waste","volume":"326","author":"Ormsby","year":"2023","journal-title":"Environ. Pollut."},{"key":"ref_13","doi-asserted-by":"crossref","unstructured":"Oliveira, J., Almeida, P.L., Sobral, R.G., Louren\u00e7o, N.D., and Gaud\u00eancio, S.P. (2022). Marine-Derived Actinomycetes: Biodegradation of Plastics and Formation of PHA Bioplastics\u2014A Circular Bioeconomy Approach. Mar. Drugs, 20.","DOI":"10.3390\/md20120760"},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"118427","DOI":"10.1016\/j.marpolbul.2025.118427","article-title":"Analysis of Marine Litter Ingested by Sea Turtles Stranded in Sicily: A 7-Year Report","volume":"220","author":"Galluzzo","year":"2025","journal-title":"Mar. Pollut. Bull."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"154159","DOI":"10.1016\/j.scitotenv.2022.154159","article-title":"Ingestion and Characterization of Plastic Debris by Loggerhead Sea Turtle, Caretta caretta, in the Balearic Islands","volume":"826","author":"Solomando","year":"2022","journal-title":"Sci. Total Environ."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"881","DOI":"10.1099\/ijs.0.63353-0","article-title":"Jiangella gansuensis Gen. Nov., Sp. Nov., a Novel Actinomycete from a Desert Soil in North-West China","volume":"55","author":"Song","year":"2005","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"1176","DOI":"10.1099\/ijs.0.65479-0","article-title":"Jiangella alkaliphila Sp. Nov., an Actinobacterium Isolated from a Cave","volume":"58","author":"Lee","year":"2008","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"2569","DOI":"10.1099\/ijs.0.000303","article-title":"Jiangella mangrovi Sp. Nov., Isolated from Mangrove Soil","volume":"65","author":"Suksaard","year":"2015","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"2162","DOI":"10.1099\/ijs.0.009001-0","article-title":"Jiangella alba Sp. Nov., an Endophytic Actinomycete Isolated from the Stem of Maytenus austroyunnanensis","volume":"59","author":"Qin","year":"2009","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"1533","DOI":"10.1039\/D4NP00075G","article-title":"Trends in Metabolite Discovery from Actinomycetes","volume":"42","author":"Monciardini","year":"2025","journal-title":"Nat. Prod. Rep."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"2605","DOI":"10.1021\/np500402a","article-title":"Jiangrines A\u2013F and Jiangolide from an Actinobacterium, Jiangella gansuensis","volume":"77","author":"Han","year":"2014","journal-title":"J. Nat. Prod."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"1344","DOI":"10.1039\/D5NP00012B","article-title":"Recent Insights into the Biosynthesis and Biological Activities of the Peptide-Derived Redox Cofactor Mycofactocin","volume":"42","author":"Ellerhorst","year":"2025","journal-title":"Nat. Prod. Rep."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"461","DOI":"10.1099\/ijsem.0.002516","article-title":"Proposed Minimal Standards for the Use of Genome Data for the Taxonomy of Prokaryotes","volume":"68","author":"Chun","year":"2018","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"887","DOI":"10.1007\/s10482-018-01222-y","article-title":"Jiangella anatolica Sp. Nov. Isolated from Coastal Lake Soil","volume":"112","author":"Ay","year":"2019","journal-title":"Antonie Van. Leeuwenhoek"},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"17029","DOI":"10.1038\/nmicrobiol.2017.29","article-title":"Widespread Distribution of Encapsulin Nanocompartments Reveals Functional Diversity","volume":"2","author":"Giessen","year":"2017","journal-title":"Nat. Microbiol."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"2638","DOI":"10.1128\/JB.01784-08","article-title":"HtaA Is an Iron-Regulated Hemin Binding Protein Involved in the Utilization of Heme Iron in Corynebacterium diphtheriae","volume":"191","author":"Allen","year":"2009","journal-title":"J. Bacteriol."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"497","DOI":"10.1042\/bj20031945","article-title":"Iron-Regulatory Proteins DmdR1 and DmdR2 of Streptomyces coelicolor Form Two Different DNA-Protein Complexes with Iron Boxes","volume":"380","author":"Flores","year":"2004","journal-title":"Biochem. J."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"1880","DOI":"10.1039\/c2cc17211a","article-title":"The Role of a Conserved Threonine Residue in the Leader Peptide of Lasso Peptide Precursors","volume":"48","author":"Pan","year":"2012","journal-title":"Chem. Commun."},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"950","DOI":"10.1016\/j.tig.2024.08.002","article-title":"Advances in Lasso Peptide Discovery, Biosynthesis, and Function","volume":"40","author":"Barrett","year":"2024","journal-title":"Trends Genet."},{"key":"ref_30","doi-asserted-by":"crossref","unstructured":"Cheng, C., and Hua, Z.-C. (2020). Lasso Peptides: Heterologous Production and Potential Medical Application. Front. Bioeng. Biotechnol., 8.","DOI":"10.3389\/fbioe.2020.571165"},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"13983","DOI":"10.1074\/jbc.M710461200","article-title":"Phenolic Lipids Synthesized by Type III Polyketide Synthase Confer Penicillin Resistance on Streptomyces griseus","volume":"283","author":"Funabashi","year":"2008","journal-title":"J. Biol. Chem."},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"W32","DOI":"10.1093\/nar\/gkaf334","article-title":"antiSMASH 8.0: Extended Gene Cluster Detection Capabilities and Analyses of Chemistry, Enzymology, and Regulation","volume":"53","author":"Blin","year":"2025","journal-title":"Nucleic Acids Res."},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"e110","DOI":"10.1093\/nar\/gkz654","article-title":"A Deep Learning Genome-Mining Strategy for Biosynthetic Gene Cluster Prediction","volume":"47","author":"Hannigan","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"509","DOI":"10.1038\/nrmicro3496","article-title":"Discovery of Microbial Natural Products by Activation of Silent Biosynthetic Gene Clusters","volume":"13","author":"Rutledge","year":"2015","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"249","DOI":"10.1099\/ijs.0.016949-0","article-title":"Notes on the Characterization of Prokaryote Strains for Taxonomic Purposes","volume":"60","author":"Tindall","year":"2010","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"A.3D.1","DOI":"10.1002\/cpmc.14","article-title":"Direct PCR of Intact Bacteria (Colony PCR)","volume":"42","author":"Woodman","year":"2016","journal-title":"Curr. Protoc. Microbiol."},{"key":"ref_37","unstructured":"Kieser, T., Bibb, M.J., Buttner, M.J., Chater, K.F., and Hopwood, D.A. (2000). Practical Streptomyces Genetics, Innes."},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"6614","DOI":"10.1093\/nar\/gkw569","article-title":"NCBI Prokaryotic Genome Annotation Pipeline","volume":"44","author":"Tatusova","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"1925","DOI":"10.1093\/bioinformatics\/btz848","article-title":"GTDB-Tk: A Toolkit to Classify Genomes with the Genome Taxonomy Database","volume":"36","author":"Chaumeil","year":"2020","journal-title":"Bioinformatics"},{"key":"ref_40","doi-asserted-by":"crossref","first-page":"D884","DOI":"10.1093\/nar\/gkaf1110","article-title":"TYGS and LPSN in 2025: A Global Core Biodata Resource for Genome-Based Classification and Nomenclature of Prokaryotes within DSMZ Digital Diversity","volume":"54","author":"Freese","year":"2026","journal-title":"Nucleic Acids Res."},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"D801","DOI":"10.1093\/nar\/gkab902","article-title":"TYGS and LPSN: A Database Tandem for Fast and Reliable Genome-Based Classification and Nomenclature of Prokaryotes","volume":"50","author":"Carbasse","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"2182","DOI":"10.1038\/s41467-019-10210-3","article-title":"TYGS Is an Automated High-Throughput Platform for State-of-the-Art Genome-Based Taxonomy","volume":"10","year":"2019","journal-title":"Nat. Commun."},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"132","DOI":"10.1186\/s13059-016-0997-x","article-title":"Mash: Fast Genome and Metagenome Distance Estimation Using MinHash","volume":"17","author":"Ondov","year":"2016","journal-title":"Genome Biol."},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"3100","DOI":"10.1093\/nar\/gkm160","article-title":"RNAmmer: Consistent and Rapid Annotation of Ribosomal RNA Genes","volume":"35","author":"Lagesen","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"ref_45","doi-asserted-by":"crossref","unstructured":"Camacho, C., Coulouris, G., Avagyan, V., Ma, N., Papadopoulos, J., Bealer, K., and Madden, T.L. (2009). BLAST+: Architecture and Applications. BMC Bioinform., 10.","DOI":"10.1186\/1471-2105-10-421"},{"key":"ref_46","doi-asserted-by":"crossref","unstructured":"Meier-Kolthoff, J.P., Auch, A.F., Klenk, H.-P., and G\u00f6ker, M. (2013). Genome Sequence-Based Species Delimitation with Confidence Intervals and Improved Distance Functions. BMC Bioinform., 14.","DOI":"10.1186\/1471-2105-14-60"},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"W45","DOI":"10.1093\/nar\/gkaf397","article-title":"AutoMLST2: A Web Server for Phylogeny and Microbial Taxonomy","volume":"53","author":"Pourmohsenin","year":"2025","journal-title":"Nucleic Acids Res."},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"W78","DOI":"10.1093\/nar\/gkae268","article-title":"Interactive Tree of Life (iTOL) v6: Recent Updates to the Phylogenetic Tree Display and Annotation Tool","volume":"52","author":"Letunic","year":"2024","journal-title":"Nucleic Acids Res."},{"key":"ref_49","doi-asserted-by":"crossref","first-page":"1281","DOI":"10.1007\/s10482-017-0844-4","article-title":"A Large-Scale Evaluation of Algorithms to Calculate Average Nucleotide Identity","volume":"110","author":"Yoon","year":"2017","journal-title":"Antonie Van. Leeuwenhoek"},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"W484","DOI":"10.1093\/nar\/gkad326","article-title":"Proksee: In-Depth Characterization and Visualization of Bacterial Genomes","volume":"51","author":"Grant","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"D678","DOI":"10.1093\/nar\/gkae1115","article-title":"MIBiG 4.0: Advancing Biosynthetic Gene Cluster Curation through Global Collaboration","volume":"53","author":"Zdouc","year":"2025","journal-title":"Nucleic Acids Res."},{"key":"ref_52","doi-asserted-by":"crossref","first-page":"W278","DOI":"10.1093\/nar\/gky383","article-title":"BAGEL4: A User-Friendly Web Server to Thoroughly Mine RiPPs and Bacteriocins","volume":"46","author":"Song","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"470","DOI":"10.1038\/nchembio.2319","article-title":"A New Genome-Mining Tool Redefines the Lasso Peptide Biosynthetic Landscape","volume":"13","author":"Tietz","year":"2017","journal-title":"Nat. Chem. Biol."},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"2000","DOI":"10.1038\/s41467-026-68733-5","article-title":"BiG-SCAPE 2.0 and BiG-SLiCE 2.0: Scalable, Accurate and Interactive Sequence Clustering of Metabolic Gene Clusters","volume":"17","author":"Draisma","year":"2026","journal-title":"Nat. Commun."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"2473","DOI":"10.1093\/bioinformatics\/btab007","article-title":"Clinker & Clustermap.Js: Automatic Generation of Gene Cluster Comparison Figures","volume":"37","author":"Gilchrist","year":"2021","journal-title":"Bioinformatics"}],"container-title":["Marine Drugs"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/1660-3397\/24\/9\/319\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,9,10]],"date-time":"2026-09-10T13:06:30Z","timestamp":1789045590000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/1660-3397\/24\/9\/319"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,9,10]]},"references-count":55,"journal-issue":{"issue":"9","published-online":{"date-parts":[[2026,9]]}},"alternative-id":["md24090319"],"URL":"https:\/\/doi.org\/10.3390\/md24090319","relation":{},"ISSN":["1660-3397"],"issn-type":[{"value":"1660-3397","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,9,10]]}}}