{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,11]],"date-time":"2026-09-11T05:07:03Z","timestamp":1789103223274,"version":"build-2803163510"},"reference-count":16,"publisher":"MDPI AG","issue":"9","license":[{"start":{"date-parts":[[2026,9,9]],"date-time":"2026-09-09T00:00:00Z","timestamp":1788912000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Zonguldak B\u00fclent Ecevit University"},{"id":[{"id":"https:\/\/ror.org\/01dvabv26","id-type":"ROR","asserted-by":"publisher"}]},{"name":"Coordination of Scientific Research","award":["2024-33496813-02"],"award-info":[{"award-number":["2024-33496813-02"]}]},{"name":"Coordination of Scientific Research","award":["2024-33496813-01"],"award-info":[{"award-number":["2024-33496813-01"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Microorganisms"],"abstract":"<jats:p>Clostridium tyrobutyricum is a major cause of late blowing defects (LBDs) in cheese, resulting in substantial economic losses. Early detection is critical for maintaining product quality. In this study, we developed a rapid detection approach integrating genome-scale metabolic modeling (GEM) with systematic culture optimization. Three media were evaluated, identifying RCM at 38.5 \u00b0C as the optimal condition for reducing the lag phase. Flux Balance Analysis (FBA) revealed that targeted supplementation with magnesium, zinc, Vitamin B6, and L-tryptophan significantly enhanced metabolic flux through nucleotide biosynthesis and energy transfer pathways, particularly reaction rxn01219_c0. Validation using artificially contaminated milk confirmed that the optimized 0.5\u00d7 supplementation mixture synergistically reduced detection time by approximately 35 h compared to conventional MPN methods. This study demonstrates that bridging systems biology with traditional microbiology provides a cost-effective and mechanistic framework for rapid pathogen detection in the dairy industry.<\/jats:p>","DOI":"10.3390\/microorganisms14091999","type":"journal-article","created":{"date-parts":[[2026,9,9]],"date-time":"2026-09-09T12:26:11Z","timestamp":1788956771000},"page":"1999","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Integrating Metabolic Modeling and Targeted Supplementation for the Rapid Detection of Clostridium tyrobutyricum in Dairy Products"],"prefix":"10.3390","volume":"14","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-7634-7148","authenticated-orcid":false,"given":"Idris","family":"Arslan","sequence":"first","affiliation":[{"name":"Faculty of Science Molecular Biology and Genetics, Zonguldak B\u00fclent Ecevit University, Zonguldak 67100, T\u00fcrkiye"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,9,9]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","unstructured":"Faour-Klingbeil, D., and CD Todd, E. (2020). Prevention and control of foodborne diseases in Middle-East North African countries: Review of national control systems. Int. J. Environ. Res. Public Health, 17.","DOI":"10.3390\/ijerph17010070"},{"key":"ref_2","unstructured":"Moi, I.M., Ibrahim, Z., Abubakar, B.M., Katagum, Y.M., Abdullahi, A., Yiga, G.A., Abdullahi, B., Mustapha, I., Ali, J., and Mahmud, Z. (2022). Properties of Foodborne Pathogens and Their Diseases. Foodborne Pathogens, IntechOpen."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"297","DOI":"10.4014\/jmb.1310.10013","article-title":"Advances in rapid detection methods for foodborne pathogens","volume":"24","author":"Zhao","year":"2014","journal-title":"J. Microbiol. Biotech."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"2035","DOI":"10.1093\/gbe\/evz096","article-title":"Revisiting the Evolution and Taxonomy of Clostridia, a Phylogenomic Update","volume":"11","author":"Orellana","year":"2019","journal-title":"Genome Biol. 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