{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,17]],"date-time":"2026-07-17T12:33:26Z","timestamp":1784291606322,"version":"3.55.0"},"reference-count":97,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2025,3,1]],"date-time":"2025-03-01T00:00:00Z","timestamp":1740787200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2025,3,1]],"date-time":"2025-03-01T00:00:00Z","timestamp":1740787200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2025,12,20]],"date-time":"2025-12-20T00:00:00Z","timestamp":1766188800000},"content-version":"am","delay-in-days":294,"URL":"http:\/\/www.elsevier.com\/open-access\/userlicense\/1.0\/"}],"funder":[{"DOI":"10.13039\/100000179","name":"Office of the Director","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000179","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R01 AI148383"],"award-info":[{"award-number":["R01 AI148383"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["S10OD021619"],"award-info":[{"award-number":["S10OD021619"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Metabolic Engineering"],"published-print":{"date-parts":[[2025,3]]},"DOI":"10.1016\/j.ymben.2024.11.008","type":"journal-article","created":{"date-parts":[[2024,11,22]],"date-time":"2024-11-22T20:55:53Z","timestamp":1732308953000},"page":"63-76","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":7,"special_numbering":"C","title":["Optimized production of concanamycins using a rational metabolic engineering strategy"],"prefix":"10.1016","volume":"88","author":[{"given":"Filipa","family":"Pereira","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Morgan","family":"McCauley","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Katherine","family":"Lev","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Linnea","family":"Verhey-Henke","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alanna R.","family":"Condren","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ralph J.","family":"Harte","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jesus","family":"Galvez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8334-3647","authenticated-orcid":false,"given":"David H.","family":"Sherman","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.ymben.2024.11.008_bib1","doi-asserted-by":"crossref","first-page":"11054","DOI":"10.1073\/pnas.1504076112","article-title":"Socially mediated induction and suppression of antibiosis during bacterial coexistence","volume":"112","author":"Abrudan","year":"2015","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.ymben.2024.11.008_bib2","series-title":"Proteomics: Methods and Protocols","first-page":"339","article-title":"Data Conversion with ProteoWizard msConvert","author":"Adusumilli","year":"2017"},{"key":"10.1016\/j.ymben.2024.11.008_bib3","doi-asserted-by":"crossref","first-page":"1009","DOI":"10.1093\/bioinformatics\/btv688","article-title":"hybridSPAdes: an algorithm for hybrid assembly of short and long reads","volume":"32","author":"Antipov","year":"2016","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ymben.2024.11.008_bib4","author":"Andrews"},{"key":"10.1016\/j.ymben.2024.11.008_bib5","doi-asserted-by":"crossref","first-page":"566","DOI":"10.1038\/nbt.4163","article-title":"KBase: the United States Department of energy systems Biology Knowledgebase","volume":"36","author":"Arkin","year":"2018","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.ymben.2024.11.008_bib6","doi-asserted-by":"crossref","first-page":"200","DOI":"10.1038\/s41573-020-00114-z","article-title":"Natural products in drug discovery: advances and opportunities","volume":"20","author":"Atanasov","year":"2021","journal-title":"Nat. Rev. Drug Discov."},{"key":"10.1016\/j.ymben.2024.11.008_bib7","doi-asserted-by":"crossref","first-page":"12181","DOI":"10.1073\/pnas.1511027112","article-title":"Exploiting a precise design of universal synthetic modular regulatory elements to unlock the microbial natural products in Streptomyces","volume":"112","author":"Bai","year":"2015","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.ymben.2024.11.008_bib8","doi-asserted-by":"crossref","DOI":"10.1021\/acssynbio.3c00464","article-title":"CUBIC: a Versatile cumate-based inducible CRISPRi system in Streptomyces","author":"Bai","year":"2023","journal-title":"ACS Synth. Biol."},{"key":"10.1016\/j.ymben.2024.11.008_bib9","doi-asserted-by":"crossref","first-page":"6","DOI":"10.1128\/AAC.4.1.6","article-title":"Utilization of carbon and nitrogen sources by Streptomyces kanamyceticus for kanamycin production","volume":"4","author":"Basak","year":"1973","journal-title":"Antimicrob. Agents Chemother."},{"key":"10.1016\/j.ymben.2024.11.008_bib10","doi-asserted-by":"crossref","first-page":"43","DOI":"10.1016\/0378-1119(92)90627-2","article-title":"Plasmid cloning vectors for the conjugal transfer of DNA from Escherichia coli to Streptomyces spp","volume":"116","author":"Bierman","year":"1992","journal-title":"Gene"},{"key":"10.1016\/j.ymben.2024.11.008_bib11","doi-asserted-by":"crossref","first-page":"305","DOI":"10.1002\/jlac.199419940313","article-title":"The chemistry of unusual macrolides, 2. Spectroscopic and biosynthetic investigations of the V-type ATPase inhibitor concanamycin A","author":"Bindseil","year":"1994","journal-title":"Liebigs Ann. Chem."},{"key":"10.1016\/j.ymben.2024.11.008_bib12","doi-asserted-by":"crossref","first-page":"150","DOI":"10.1002\/hlca.19930760109","article-title":"Metabolic Products of Microorganisms. Part 265. Prelactones C and B, oligoketides from Streptomyces producing concanamycins and bafilomycins","volume":"76","author":"Bindseil","year":"1993","journal-title":"Helv. Chim. Acta"},{"key":"10.1016\/j.ymben.2024.11.008_bib13","doi-asserted-by":"crossref","first-page":"W46","DOI":"10.1093\/nar\/gkad344","article-title":"antiSMASH 7.0: new and improved predictions for detection, regulation, chemical structures and visualisation","volume":"51","author":"Blin","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ymben.2024.11.008_bib14","doi-asserted-by":"crossref","first-page":"25186","DOI":"10.1074\/jbc.M803105200","article-title":"Antibiotic overproduction in Streptomyces coelicolor A3(2) mediated by phosphofructokinase deletion","volume":"283","author":"Borodina","year":"2008","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.ymben.2024.11.008_bib15","doi-asserted-by":"crossref","first-page":"33131","DOI":"10.1074\/jbc.M404638200","article-title":"The bafilomycin\/concanamycin binding site in subunit c of the V-ATPases from Neurospora crassa and Saccharomyces cerevisiae","volume":"279","author":"Bowman","year":"2004","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.ymben.2024.11.008_bib16","doi-asserted-by":"crossref","first-page":"8365","DOI":"10.1038\/srep08365","article-title":"RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes","volume":"5","author":"Brettin","year":"2015","journal-title":"Sci. Rep."},{"key":"10.1016\/j.ymben.2024.11.008_bib17","doi-asserted-by":"crossref","first-page":"5825","DOI":"10.1093\/molbev\/msab293","article-title":"eggNOG-mapper v2: functional annotation, orthology assignments, and domain prediction at the Metagenomic scale","volume":"38","author":"Cantalapiedra","year":"2021","journal-title":"Mol. Biol. Evol."},{"key":"10.1016\/j.ymben.2024.11.008_bib18","author":"Carroll"},{"key":"10.1016\/j.ymben.2024.11.008_bib19","doi-asserted-by":"crossref","first-page":"1529","DOI":"10.1038\/s41417-022-00477-y","article-title":"The V-ATPases in cancer and cell death","volume":"29","author":"Chen","year":"2022","journal-title":"Cancer Gene Ther."},{"key":"10.1016\/j.ymben.2024.11.008_bib20","doi-asserted-by":"crossref","DOI":"10.1073\/pnas.2212930119","article-title":"Microbiome composition modulates secondary metabolism in a multispecies bacterial community","volume":"119","author":"Chevrette","year":"2022","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.ymben.2024.11.008_bib21","doi-asserted-by":"crossref","first-page":"2816","DOI":"10.1021\/bi001759q","article-title":"Semisynthetic derivatives of concanamycin A and C, as inhibitors of V- and P-type ATPases: structure\u2212Activity investigations and developments of photoaffinity probes","volume":"40","author":"Dr\u00f6se","year":"2001","journal-title":"Biochemistry"},{"key":"10.1016\/j.ymben.2024.11.008_bib22","doi-asserted-by":"crossref","first-page":"472","DOI":"10.1099\/mic.0.033167-0","article-title":"Regulation of valanimycin biosynthesis in Streptomyces viridifaciens: characterization of VlmI as a Streptomyces antibiotic regulatory protein (SARP)","volume":"156","author":"Garg","year":"2010","journal-title":"Microbiology"},{"key":"10.1016\/j.ymben.2024.11.008_bib23","doi-asserted-by":"crossref","DOI":"10.7554\/eLife.47691","article-title":"Silencing cryptic specialized metabolism in Streptomyces by the nucleoid-associated protein Lsr2","volume":"8","author":"Gehrke","year":"2019","journal-title":"Elife"},{"key":"10.1016\/j.ymben.2024.11.008_bib24","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"},{"key":"10.1016\/j.ymben.2024.11.008_bib25","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":"10.1016\/j.ymben.2024.11.008_bib26","doi-asserted-by":"crossref","first-page":"327","DOI":"10.1016\/0014-5793(94)00695-4","article-title":"Concanamycin A blocks influenza virus entry into cells under acidic conditions","volume":"349","author":"Guinea","year":"1994","journal-title":"FEBS Lett."},{"key":"10.1016\/j.ymben.2024.11.008_bib27","doi-asserted-by":"crossref","first-page":"1072","DOI":"10.1093\/bioinformatics\/btt086","article-title":"QUAST: quality assessment tool for genome assemblies","volume":"29","author":"Gurevich","year":"2013","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ymben.2024.11.008_bib28","doi-asserted-by":"crossref","first-page":"1294","DOI":"10.7164\/antibiotics.44.1294","article-title":"Isolation and structural elucidation of new 18-membered macrolide antibiotics, viranamycins A and B","author":"Hayakawa","year":"1991","journal-title":"J. Antibiot."},{"key":"10.1016\/j.ymben.2024.11.008_bib29","doi-asserted-by":"crossref","first-page":"3161","DOI":"10.1099\/mic.0.28194-0","article-title":"Organization of the biosynthetic gene cluster for the macrolide concanamycin A in Streptomyces neyagawaensis ATCC 27449","volume":"151","author":"Haydock","year":"2005","journal-title":"Microbiology"},{"issue":"Suppl. 1","key":"10.1016\/j.ymben.2024.11.008_bib30","doi-asserted-by":"crossref","first-page":"S96","DOI":"10.1093\/bioinformatics\/18.suppl_1.S96","article-title":"Variance stabilization applied to microarray data calibration and to the quantification of differential expression","volume":"18","author":"Huber","year":"2002","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ymben.2024.11.008_bib31","doi-asserted-by":"crossref","first-page":"40544","DOI":"10.1074\/jbc.M207345200","article-title":"Concanamycin A, the specific inhibitor of V-ATPases, binds to the Vo Subunit c","volume":"277","author":"Huss","year":"2002","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.ymben.2024.11.008_bib32","doi-asserted-by":"crossref","unstructured":"Ingenhorst, G., Bindseil, K. U., Boddien, C., Dr\u00f6se, S., Gabel, M., Altendorf, K., Zeeck, A., 2001. Synthesis of a Doubly Labelled concanamycin derivative for ATPase binding studies. Eur. J. Org. Chem., 4525-4532.","DOI":"10.1002\/1099-0690(200112)2001:23<4525::AID-EJOC4525>3.0.CO;2-S"},{"key":"10.1016\/j.ymben.2024.11.008_bib33","doi-asserted-by":"crossref","first-page":"12","DOI":"10.7164\/antibiotics.48.12","article-title":"TAN-1323 C and D, new concanamycin-group antibiotics; Detection of the angiostatic acitvity with a wide range of macrolide antibiotics","author":"Ishii","year":"1995","journal-title":"J. Antibiot."},{"key":"10.1016\/j.ymben.2024.11.008_bib34","doi-asserted-by":"crossref","first-page":"488","DOI":"10.7164\/antibiotics.48.488","article-title":"Concanamycin B inhibits the expression of newly-synthesized MHC class II molecules on the cell surface","volume":"48","author":"Ito","year":"1995","journal-title":"J. Antibiot."},{"key":"10.1016\/j.ymben.2024.11.008_bib35","doi-asserted-by":"crossref","first-page":"5114","DOI":"10.1038\/s41467-018-07641-9","article-title":"High-throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries","volume":"9","author":"Jain","year":"2018","journal-title":"Nat. Commun."},{"key":"10.1016\/j.ymben.2024.11.008_bib36","doi-asserted-by":"crossref","first-page":"1972","DOI":"10.1128\/AEM.02296-07","article-title":"Enhanced heterologous production of Desosaminyl macrolides and their Hydroxylated derivatives by overexpression of the pikD regulatory gene in Streptomyces venezuelae","volume":"74","author":"Jung","year":"2008","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.ymben.2024.11.008_bib37","doi-asserted-by":"crossref","first-page":"619","DOI":"10.1021\/acschembio.1c00894","article-title":"Cryo-EM of the yeast VO complex reveals distinct binding sites for macrolide V-ATPase inhibitors","volume":"17","author":"Keon","year":"2022","journal-title":"ACS Chem. Biol."},{"key":"10.1016\/j.ymben.2024.11.008_bib38","doi-asserted-by":"crossref","first-page":"147","DOI":"10.1038\/s41396-018-0265-z","article-title":"Inter-Kingdom beach warfare: microbial chemical communication activates natural chemical defences","volume":"13","author":"Khalil","year":"2019","journal-title":"ISME J."},{"key":"10.1016\/j.ymben.2024.11.008_bib39","doi-asserted-by":"crossref","first-page":"1333","DOI":"10.7164\/antibiotics.37.1333","article-title":"Isolation and characterization of concanamycins A, B and C","volume":"37","author":"Kinashi","year":"1984","journal-title":"J. Antibiot."},{"key":"10.1016\/j.ymben.2024.11.008_bib40","doi-asserted-by":"crossref","first-page":"4615","DOI":"10.1039\/D0CS00155D","article-title":"Tools and strategies of systems metabolic engineering for the development of microbial cell factories for chemical production","volume":"49","author":"Ko","year":"2020","journal-title":"Chem. Soc. Rev."},{"key":"10.1016\/j.ymben.2024.11.008_bib41","first-page":"1","article-title":"Capability of a large bacterial artificial chromosome clone harboring multiple biosynthetic gene clusters for the production of diverse compounds","author":"Kudo","year":"2024","journal-title":"J. Antibiot."},{"key":"10.1016\/j.ymben.2024.11.008_bib42","article-title":"Acyltransferase domain Exchange between two independent type I polyketide Synthases in the same producer strain of macrolide antibiotics","author":"Kundo","year":"2023","journal-title":"Chembiochem"},{"key":"10.1016\/j.ymben.2024.11.008_bib43","doi-asserted-by":"crossref","first-page":"W293","DOI":"10.1093\/nar\/gkab301","article-title":"Interactive Tree of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation","volume":"49","author":"Letunic","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ymben.2024.11.008_bib44","doi-asserted-by":"crossref","DOI":"10.1177\/17475198221109161","article-title":"Concanamycin H from the soil actinomycete Streptomyces sp. R1706-8","volume":"46","author":"Li","year":"2022","journal-title":"J. Chem. Res."},{"key":"10.1016\/j.ymben.2024.11.008_bib45","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1016\/S1004-9541(07)60049-4","article-title":"Effects of propionate on Streptolydigin production and carbon Flux distribution in Streptomyces lydicus AS 4.2501","volume":"15","author":"Li","year":"2007","journal-title":"Chin. J. Chem. Eng."},{"key":"10.1016\/j.ymben.2024.11.008_bib46","doi-asserted-by":"crossref","first-page":"7095","DOI":"10.1074\/jbc.M116.751255","article-title":"Complete elucidation of the late steps of bafilomycin biosynthesis in Streptomyces lohii","volume":"292","author":"Li","year":"2017","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.ymben.2024.11.008_bib47","doi-asserted-by":"crossref","first-page":"29","DOI":"10.3390\/md19010029","article-title":"Engineering bafilomycin high-producers by manipulating regulatory and biosynthetic genes in the marine bacterium Streptomyces lohii","volume":"19","author":"Li","year":"2021","journal-title":"Mar. Drugs"},{"key":"10.1016\/j.ymben.2024.11.008_bib48","doi-asserted-by":"crossref","first-page":"250","DOI":"10.1007\/s11274-022-03414-1","article-title":"Roles of LuxR-family regulators in the biosynthesis of secondary metabolites in Actinobacteria","volume":"38","author":"Li","year":"2022","journal-title":"World J. Microbiol. Biotechnol."},{"key":"10.1016\/j.ymben.2024.11.008_bib49","doi-asserted-by":"crossref","first-page":"56","DOI":"10.1186\/1471-2164-9-56","article-title":"Genome-wide transcriptome analysis reveals that a pleiotropic antibiotic regulator, AfsS, modulates nutritional stress response in Streptomyces coelicolor A3(2)","volume":"9","author":"Lian","year":"2008","journal-title":"BMC Genom."},{"key":"10.1016\/j.ymben.2024.11.008_bib50","doi-asserted-by":"crossref","first-page":"390","DOI":"10.1007\/s10600-022-03689-8","article-title":"Secondary metabolites and antifungal activity of the Endophytic Fungus Streptomyces humidus SCB0232 from water Chestnut","volume":"58","author":"Lv","year":"2022","journal-title":"Chem. Nat. Compd."},{"key":"10.1016\/j.ymben.2024.11.008_bib51","doi-asserted-by":"crossref","DOI":"10.1128\/aem.00278-22","article-title":"Zinc-responsive regulator Zur regulates zinc Homeostasis, secondary metabolism, and morphological differentiation in Streptomyces avermitilis","volume":"88","author":"Lyu","year":"2022","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.ymben.2024.11.008_bib52","doi-asserted-by":"crossref","first-page":"109","DOI":"10.1016\/j.resmic.2009.12.003","article-title":"Improvement in doxorubicin productivity by overexpression of regulatory genes in Streptomyces peucetius","volume":"161","author":"Malla","year":"2010","journal-title":"Res. Microbiol."},{"key":"10.1016\/j.ymben.2024.11.008_bib53","doi-asserted-by":"crossref","first-page":"440","DOI":"10.1007\/BF02925768","article-title":"Propionate and the production of monensins in Streptomyces cinnamonensis","volume":"33","author":"Mat\u011bj\u016f","year":"1988","journal-title":"Folia Microbiol."},{"key":"10.1016\/j.ymben.2024.11.008_bib54","doi-asserted-by":"crossref","first-page":"4483","DOI":"10.1021\/acs.jmedchem.3c01574","article-title":"Structure\u2013activity relationships of natural and Semisynthetic plecomacrolides suggest distinct pathways for HIV-1 immune Evasion and vacuolar ATPase-dependent lysosomal acidification","volume":"67","author":"McCauley","year":"2024","journal-title":"J. Med. Chem."},{"key":"10.1016\/j.ymben.2024.11.008_bib55","doi-asserted-by":"crossref","first-page":"E1","DOI":"10.1002\/ijc.27811","article-title":"Inhibitors of vacuolar ATPase proton pumps inhibit human prostate cancer cell invasion and prostate-specific antigen expression and secretion","volume":"132","author":"Michel","year":"2013","journal-title":"Int. J. Cancer"},{"key":"10.1016\/j.ymben.2024.11.008_bib56","doi-asserted-by":"crossref","first-page":"7567","DOI":"10.3390\/ijms22147567","article-title":"A regulator based \u201cSemi-targeted\u201d approach to activate silent biosynthetic gene clusters","volume":"22","author":"Mingyar","year":"2021","journal-title":"Int. J. Mol. Sci."},{"key":"10.1016\/j.ymben.2024.11.008_bib57","doi-asserted-by":"crossref","first-page":"411","DOI":"10.3186\/jjphytopath.62.411","article-title":"Production of phytotoxins, concanamycins A and B by Streptomyces spp. causing potato scab","author":"Natsume","year":"1996","journal-title":"Ann. Phytopathol. Soc. Jpn."},{"key":"10.1016\/j.ymben.2024.11.008_bib58","doi-asserted-by":"crossref","first-page":"78","DOI":"10.1007\/s10327-017-0696-9","article-title":"Effects of concanamycins produced by Streptomyces scabies on lesion type of common scab of potato","volume":"83","author":"Natsume","year":"2017","journal-title":"J. Gen. Plant Pathol."},{"key":"10.1016\/j.ymben.2024.11.008_bib59","doi-asserted-by":"crossref","first-page":"770","DOI":"10.1021\/acs.jnatprod.9b01285","article-title":"Natural products as sources of new drugs over the nearly four decades from 01\/1981 to 09\/2019","volume":"83","author":"Newman","year":"2020","journal-title":"J. Nat. Prod."},{"key":"10.1016\/j.ymben.2024.11.008_bib60","doi-asserted-by":"crossref","first-page":"905","DOI":"10.1038\/s41592-020-0933-6","article-title":"Feature-based molecular networking in the GNPS analysis environment","volume":"17","author":"Nothias","year":"2020","journal-title":"Nat. Methods"},{"key":"10.1016\/j.ymben.2024.11.008_bib61","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0007025","article-title":"Identification of antifungal compounds active against Candida albicans using an improved high-throughput Caenorhabditis elegans Assay","volume":"4","author":"Okoli","year":"2009","journal-title":"PLoS One"},{"key":"10.1016\/j.ymben.2024.11.008_bib62","doi-asserted-by":"crossref","first-page":"23835","DOI":"10.1073\/pnas.2008615117","article-title":"Concanamycin A counteracts HIV-1 Nef to enhance immune clearance of infected primary cells by cytotoxic T lymphocytes","volume":"117","author":"Painter","year":"2020","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"10.1016\/j.ymben.2024.11.008_bib63","doi-asserted-by":"crossref","first-page":"1043","DOI":"10.1101\/gr.186072.114","article-title":"CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes","volume":"25","author":"Parks","year":"2015","journal-title":"Genome Res."},{"key":"10.1016\/j.ymben.2024.11.008_bib64","doi-asserted-by":"crossref","first-page":"142","DOI":"10.1186\/s12859-015-0544-x","article-title":"Pydna: a simulation and documentation tool for DNA assembly strategies using python","volume":"16","author":"Pereira","year":"2015","journal-title":"BMC Bioinf."},{"issue":"10","key":"10.1016\/j.ymben.2024.11.008_bib65","doi-asserted-by":"crossref","first-page":"1404","DOI":"10.3389\/fmicb.2019.01404","article-title":"A review of the microbial production of bioactive natural products and Biologics","volume":"10","author":"Pham","year":"2019","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.ymben.2024.11.008_bib66","doi-asserted-by":"crossref","first-page":"30","DOI":"10.1007\/BF02922494","article-title":"Effect of precursors on biosynthesis of monensins A and B","volume":"30","author":"Pospiil","year":"1985","journal-title":"Folia Microbiol."},{"key":"10.1016\/j.ymben.2024.11.008_bib67","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0009490","article-title":"FastTree 2 \u2013 Approximately maximum-likelihood trees for large Alignments","volume":"5","author":"Price","year":"2010","journal-title":"PLoS One"},{"key":"10.1016\/j.ymben.2024.11.008_bib68","doi-asserted-by":"crossref","first-page":"210","DOI":"10.1016\/j.ymben.2023.12.007","article-title":"Building a highly efficient Streptomyces super-chassis for secondary metabolite production by reprogramming naturally-evolved multifaceted shifts","volume":"81","author":"Qiu","year":"2024","journal-title":"Metab. Eng."},{"key":"10.1016\/j.ymben.2024.11.008_bib69","doi-asserted-by":"crossref","first-page":"e47","DOI":"10.1093\/nar\/gkv007","article-title":"Limma powers differential expression analyses for RNA-sequencing and microarray studies","volume":"43","author":"Ritchie","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ymben.2024.11.008_bib70","doi-asserted-by":"crossref","DOI":"10.1002\/biot.201700465","article-title":"Toward systems metabolic engineering of Streptomycetes for secondary metabolites production","volume":"13","author":"Robertsen","year":"2018","journal-title":"Biotechnol. J."},{"key":"10.1016\/j.ymben.2024.11.008_bib71","doi-asserted-by":"crossref","first-page":"442","DOI":"10.1038\/ja.2010.78","article-title":"Carbon source regulation of antibiotic production","volume":"63","author":"S\u00e1nchez","year":"2010","journal-title":"J. Antibiot."},{"key":"10.1016\/j.ymben.2024.11.008_bib72","doi-asserted-by":"crossref","first-page":"895","DOI":"10.1016\/S0141-0229(02)00172-2","article-title":"Metabolic regulation of fermentation processes","volume":"31","author":"Sanchez","year":"2002","journal-title":"Enzym. Microb. Technol."},{"key":"10.1016\/j.ymben.2024.11.008_bib73","doi-asserted-by":"crossref","first-page":"447","DOI":"10.1038\/s41587-023-01690-2","article-title":"Integrative analysis of multimodal mass spectrometry data in MZmine 3","volume":"41","author":"Schmid","year":"2023","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.ymben.2024.11.008_bib74","doi-asserted-by":"crossref","first-page":"655","DOI":"10.7164\/antibiotics.57.655","article-title":"Biosynthetic investigations of the V-type ATPase inhibitors bafilomycin A1, B1 and concanamycin A","volume":"57","author":"Schuhmann","year":"2004","journal-title":"J. Antibiot."},{"key":"10.1016\/j.ymben.2024.11.008_bib75","author":"Shah"},{"key":"10.1016\/j.ymben.2024.11.008_bib76","doi-asserted-by":"crossref","first-page":"2498","DOI":"10.1101\/gr.1239303","article-title":"Cytoscape: a software environment for integrated models of biomolecular interaction networks","volume":"13","author":"Shannon","year":"2003","journal-title":"Genome Res."},{"key":"10.1016\/j.ymben.2024.11.008_bib77","doi-asserted-by":"crossref","first-page":"784","DOI":"10.1038\/nbt1183-784","article-title":"A Broad host range Mobilization system for in vivo genetic engineering: Transposon Mutagenesis in Gram Negative Bacteria","volume":"1","author":"Simon","year":"1983","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.ymben.2024.11.008_bib78","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0122479","article-title":"Genome-wide analysis of in vivo binding of the master regulator DasR in Streptomyces coelicolor identifies novel non-canonical targets","volume":"10","author":"\u015awi\u0105tek-Po\u0142aty\u0144ska","year":"2015","journal-title":"PLoS One"},{"key":"10.1016\/j.ymben.2024.11.008_bib79","doi-asserted-by":"crossref","first-page":"254","DOI":"10.1016\/j.ymben.2018.06.008","article-title":"Pirin: a novel redox-sensitive modulator of primary and secondary metabolism in Streptomyces","volume":"48","author":"Tal\u00e0","year":"2018","journal-title":"Metab. Eng."},{"key":"10.1016\/j.ymben.2024.11.008_bib80","doi-asserted-by":"crossref","first-page":"127","DOI":"10.1023\/A:1007995212658","article-title":"Concanamycin A, a vacuolar type H+-ATPase inhibitor, induces cell death in activated CD8+ CTL","volume":"25","author":"Togashi","year":"1997","journal-title":"Cytotechnology"},{"key":"10.1016\/j.ymben.2024.11.008_bib81","doi-asserted-by":"crossref","first-page":"1708","DOI":"10.1021\/jo001377q","article-title":"The first total synthesis of concanamycin F (Concanolide A)","volume":"66","author":"Toshima","year":"2001","journal-title":"J. Org. Chem."},{"key":"10.1016\/j.ymben.2024.11.008_bib82","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.00459-13","article-title":"Interspecies interactions stimulate diversification of the Streptomyces coelicolor secreted metabolome","volume":"4","author":"Traxler","year":"2013","journal-title":"mBio"},{"key":"10.1016\/j.ymben.2024.11.008_bib83","doi-asserted-by":"crossref","first-page":"392","DOI":"10.1093\/femsre\/fux005","article-title":"Chemical ecology of antibiotic production by actinomycetes","volume":"41","author":"van der Meij","year":"2017","journal-title":"FEMS Microbiol. Rev."},{"key":"10.1016\/j.ymben.2024.11.008_bib84","doi-asserted-by":"crossref","first-page":"2447","DOI":"10.1007\/s00253-017-8136-5","article-title":"Comparative proteomic and metabolomic analysis of Streptomyces tsukubaensis reveals the metabolic mechanism of FK506 overproduction by feeding soybean oil","volume":"101","author":"Wang","year":"2017","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"10.1016\/j.ymben.2024.11.008_bib85","doi-asserted-by":"crossref","first-page":"828","DOI":"10.1038\/nbt.3597","article-title":"Sharing and community curation of mass spectrometry data with global natural products social molecular networking","volume":"34","author":"Wang","year":"2016","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.ymben.2024.11.008_bib86","doi-asserted-by":"crossref","first-page":"4484","DOI":"10.1128\/AEM.00985-13","article-title":"An engineered strong promoter for Streptomycetes","volume":"79","author":"Wang","year":"2013","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.ymben.2024.11.008_bib87","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pbio.3002528","article-title":"Structural and functional characterization of AfsR, an SARP family transcriptional activator of antibiotic biosynthesis in Streptomyces","volume":"22","author":"Wang","year":"2024","journal-title":"PLoS Biol."},{"key":"10.1016\/j.ymben.2024.11.008_bib88","doi-asserted-by":"crossref","first-page":"468","DOI":"10.1007\/BF00422072","article-title":"Construction and characterisation of a series of multi-copy promoter-probe plasmid vectors for Streptomyces using the aminoglycoside phosphotransferase gene from Tn5 as indicator","volume":"203","author":"Ward","year":"1986","journal-title":"Mol. Gen. Genet."},{"key":"10.1016\/j.ymben.2024.11.008_bib89","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.02729-20","article-title":"Competition Sensing changes antibiotic production in Streptomyces","volume":"12","author":"Westhoff","year":"2021","journal-title":"mBio"},{"key":"10.1016\/j.ymben.2024.11.008_bib90","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1005595","article-title":"Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads","volume":"13","author":"Wick","year":"2017","journal-title":"PLoS Comput. Biol."},{"key":"10.1016\/j.ymben.2024.11.008_bib91","author":"Wick"},{"key":"10.1016\/j.ymben.2024.11.008_bib92","doi-asserted-by":"crossref","first-page":"3468","DOI":"10.1128\/JB.183.11.3468-3475.2001","article-title":"Characterization and analysis of the PikD regulatory factor in the pikromycin biosynthetic pathway of Streptomyces venezuelae","volume":"183","author":"Wilson","year":"2001","journal-title":"J. Bacteriol."},{"key":"10.1016\/j.ymben.2024.11.008_bib93","doi-asserted-by":"crossref","first-page":"297","DOI":"10.1248\/bpb.19.297","article-title":"Concanamycin B, a vacuolar H(+)-ATPase specific inhibitor suppresses bone resorption in vitro","volume":"19","author":"Woo","year":"1996","journal-title":"Biol. Pharm. Bull."},{"key":"10.1016\/j.ymben.2024.11.008_bib94","doi-asserted-by":"crossref","first-page":"1108","DOI":"10.7164\/antibiotics.45.1108","article-title":"Isolation, characterization and biological activities of concanamycins as inhibitors of lysosomal acidification","volume":"45","author":"Woo","year":"1992","journal-title":"J. Antibiot."},{"key":"10.1016\/j.ymben.2024.11.008_bib95","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1089\/omi.2011.0118","article-title":"clusterProfiler: an R Package for comparing biological themes among gene clusters","volume":"16","author":"Yu","year":"2012","journal-title":"OMICS A J. Integr. Biol."},{"key":"10.1016\/j.ymben.2024.11.008_bib96","doi-asserted-by":"crossref","first-page":"2669","DOI":"10.1093\/bioinformatics\/btt476","article-title":"The MaSuRCA genome assembler","volume":"29","author":"Zimin","year":"2013","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ymben.2024.11.008_bib97","doi-asserted-by":"crossref","first-page":"4350","DOI":"10.1093\/bioinformatics\/btaa213","article-title":"DNA Features Viewer: a sequence annotation formatting and plotting library for Python","volume":"36","author":"Zulkower","year":"2020","journal-title":"Bioinformatics"}],"container-title":["Metabolic Engineering"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1096717624001502?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1096717624001502?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,6,17]],"date-time":"2025-06-17T05:07:39Z","timestamp":1750136859000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1096717624001502"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,3]]},"references-count":97,"alternative-id":["S1096717624001502"],"URL":"https:\/\/doi.org\/10.1016\/j.ymben.2024.11.008","relation":{},"ISSN":["1096-7176"],"issn-type":[{"value":"1096-7176","type":"print"}],"subject":[],"published":{"date-parts":[[2025,3]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Optimized production of concanamycins using a rational metabolic engineering strategy","name":"articletitle","label":"Article Title"},{"value":"Metabolic Engineering","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.ymben.2024.11.008","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2024 International Metabolic Engineering Society. Published by Elsevier Inc. All rights are reserved, including those for text and data mining, AI training, and similar technologies.","name":"copyright","label":"Copyright"}]}}