{"database":"BioModels","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Xlsx":["https://www.ebi.ac.uk/biomodels/model/download/MODEL2504040001?filename=iJD1249.xlsx"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"submitter":["Javier Alejandro Delgado Nungaray"],"curationStatus":["Non-curated"],"modellingApproach":["steady-state model"],"levelVersion":["*"],"full_dataset_link":["https://www.ebi.ac.uk/biomodels/MODEL2504040001"],"isPrivate":["false"],"repository":["BioModels"],"modelFormat":["Other"],"omics_type":["Models"],"tokenised_name":["iJD1249   Pseudomonas aeruginosa PAO1"],"submissionId":["MODEL2504040001"],"publication_authors":["Javier Alejandro Delgado Nungaray, Orfil Gonzalez-Reynoso"],"first_author":["Javier Alejandro Delgado Nungaray"],"publication":["10.3390/metabo15040236,\n                            first_pagesettingsOrder Article Reprints\nOpen AccessArticle\nInfluence of Amino Acids on Quorum Sensing-Related Pathways in Pseudomonas aeruginosa PAO1: Insights from the GEM iJD1249\nby Javier Alejandro Delgado-Nungaray 1ORCID,Luis Joel Figueroa-Yáñez 2ORCID,Eire Reynaga-Delgado 3ORCID,Mario Alberto García-Ramírez 4ORCID,Karla Esperanza Aguilar-Corona 5 andOrfil Gonzalez-Reynoso 1,*ORCID\n1\nChemical Engineering Department, University Center for Exact and Engineering Sciences, University of Guadalajara, Blvd. M. García Barragán # 1451, Guadalajara 44430, Mexico\n2\nIndustrial Biotechnology Unit, Center for Research and Assistance in Technology and Design of the State of Jalisco, A.C. (CIATEJ), Zapopan 45019, Mexico\n3\nPharmacobiology Department, University Center for Exact and Engineering Sciences, University of Guadalajara, Blvd. M. García Barragán # 1451, Guadalajara 44430, Mexico\n4\nElectronics Department, University Center for Exact and Engineering Sciences, University of Guadalajara, Blvd. M. García Barragán # 1451, Guadalajara 44430, Mexico\n5\nFood Engineering and Biotechnology, University Center for Exact and Engineering Sciences, University of Guadalajara, Blvd. M. García Barragán # 1451, Guadalajara 44430, Mexico\n*\nAuthor to whom correspondence should be addressed.\nMetabolites 2025, 15(4), 236; https://doi.org/10.3390/metabo15040236\nSubmission received: 7 March 2025 / Revised: 20 March 2025 / Accepted: 26 March 2025 / Published: 29 March 2025\n(This article belongs to the Special Issue Biostatistics and Bioinformatics in Metabolomics Research: From Study Design and Analytics to Clinical Insights and Public Health Implications)\nDownloadkeyboard_arrow_down Browse Figures Review Reports Versions Notes\n\nAbstract\nBackground/objectives: Amino acids (AAs) play a critical role in diseases such as cystic fibrosis where Pseudomonas aeruginosa PAO1 adapts its metabolism in response to host-derived nutrients. The adaptation influences virulence and complicates antibiotic treatment mainly for the antimicrobial resistance context. D- and L-AAs have been analyzed for their impact on quorum sensing (QS), a mechanism that regulates virulence factors. This research aimed to reconstruct the genome-scale metabolic model (GEM) of P. aeruginosa PAO1 to investigate the metabolic roles of D- and L-AAs in QS-related pathways. Methods: The updated GEM, iJD1249, was reconstructed by using protocols to integrate data from previous models and refined with well-standardized in silico media (LB, M9, and SCFM) to improve flux balance analysis accuracy. The model was used to explore the metabolic impact of D-Met, D-Ala, D-Glu, D-Ser, L-His, L-Glu, L-Arg, and L-Ornithine (L-Orn) at 5 and 50 mM in QS-related pathways, focusing on the effects on bacterial growth and carbon flux distributions. Results: Among the tested AAs, D-Met was the only one that did not enhance the growth rate of P. aeruginosa PAO1, while L-Arg and L-Orn increased fluxes in the L-methionine biosynthesis pathway, influencing the metH gene. These findings suggest a differential metabolic role for D-and L-AAs in QS-related pathways. Conclusions: Our results shed some light on the metabolic impact of AAs on QS-related pathways and their potential role in P. aeruginosa virulence. Future studies should assess D-Met as a potential adjuvant in antimicrobial strategies, optimizing the concentration in combination with antibiotics to maximize its therapeutic effectiveness. null, null.\n                            Universidad de Guadalajara"],"submitter_mail":["javier.dnungaray@gmail.com"],"publication_doi":["10.3390/metabo15040236"],"submitter_affiliation":["Universidad de Guadalajara"],"additional_accession":[]},"is_claimable":false,"name":"iJD1249 - Pseudomonas aeruginosa PAO1","description":"No description","dates":{"last_modification":"2025-04-04","publication":"2025-04-07","submission":"2025-04-04"},"accession":"MODEL2504040001","cross_references":{"biomodels__db":["MODEL2504040001"],"doi":["10.3390/metabo15040236"]}}