Unraveling the Complex Antimicrobial Resistance Gene Network of Pseudomonas aeruginosa using Systems Biology Approach
The World Health Organization (WHO) has recognized antimicrobial resistance to be one of the top 10 threats to mankind in the coming future. Therefore, it requires solutions that are targeted, sustainable, and economically effective. Carbapenem-resistant Pseudomonas aeruginosa is associated with nos...
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Journal of Pure and Applied Microbiology
2025-03-01
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| Series: | Journal of Pure and Applied Microbiology |
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| Online Access: | https://microbiologyjournal.org/unraveling-the-complex-antimicrobial-resistance-gene-network-of-pseudomonas-aeruginosa-using-systems-biology-approach/ |
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| author | Debolina Chatterjee Karthikeyan Sivashanmugam |
| author_facet | Debolina Chatterjee Karthikeyan Sivashanmugam |
| author_sort | Debolina Chatterjee |
| collection | DOAJ |
| description | The World Health Organization (WHO) has recognized antimicrobial resistance to be one of the top 10 threats to mankind in the coming future. Therefore, it requires solutions that are targeted, sustainable, and economically effective. Carbapenem-resistant Pseudomonas aeruginosa is associated with nosocomial infections affecting mostly patients with chronic lung disease. The goal of the current investigation was to gain insight into significant P. aeruginosa genes responsible for carbapenems, beta-lactams, and other antimicrobials resistance through a systems biology approach. To proceed with the methodology, 866 genes were retrieved from the NDARO database and a gene interaction network of 45 genes and 195 functional partners was constructed using STRING v9.0 with high confidence and analyzed using Cytoscape 3.10.0. Using clustering analysis, four closely linked clusters (C1-C4) associated with mechanisms of multidrug-resistance were identified. The enrichment analysis revealed a substantial role for 43 genes in biological processes, 36 genes in molecular function, and 40 genes in cellular components. The gene interaction network analysis found that the genes oprD, oprM, oprN, mexR, nfxB, mexB, mexT, mexA, nalD, and nalC had the greatest number of gene interactions, which can be further used as potential drug targets for the development of novel therapeutics to manage the antimicrobial resistance associated with Pseudomonas aeruginosa. |
| format | Article |
| id | doaj-art-f174ca9a47fa451cb52f81a3dba8fe2a |
| institution | Kabale University |
| issn | 0973-7510 2581-690X |
| language | English |
| publishDate | 2025-03-01 |
| publisher | Journal of Pure and Applied Microbiology |
| record_format | Article |
| series | Journal of Pure and Applied Microbiology |
| spelling | doaj-art-f174ca9a47fa451cb52f81a3dba8fe2a2025-08-20T03:42:37ZengJournal of Pure and Applied MicrobiologyJournal of Pure and Applied Microbiology0973-75102581-690X2025-03-01191106117https://doi.org/10.22207/JPAM.19.1.01Unraveling the Complex Antimicrobial Resistance Gene Network of Pseudomonas aeruginosa using Systems Biology ApproachDebolina ChatterjeeKarthikeyan Sivashanmugamhttps://orcid.org/0000-0002-9692-8633The World Health Organization (WHO) has recognized antimicrobial resistance to be one of the top 10 threats to mankind in the coming future. Therefore, it requires solutions that are targeted, sustainable, and economically effective. Carbapenem-resistant Pseudomonas aeruginosa is associated with nosocomial infections affecting mostly patients with chronic lung disease. The goal of the current investigation was to gain insight into significant P. aeruginosa genes responsible for carbapenems, beta-lactams, and other antimicrobials resistance through a systems biology approach. To proceed with the methodology, 866 genes were retrieved from the NDARO database and a gene interaction network of 45 genes and 195 functional partners was constructed using STRING v9.0 with high confidence and analyzed using Cytoscape 3.10.0. Using clustering analysis, four closely linked clusters (C1-C4) associated with mechanisms of multidrug-resistance were identified. The enrichment analysis revealed a substantial role for 43 genes in biological processes, 36 genes in molecular function, and 40 genes in cellular components. The gene interaction network analysis found that the genes oprD, oprM, oprN, mexR, nfxB, mexB, mexT, mexA, nalD, and nalC had the greatest number of gene interactions, which can be further used as potential drug targets for the development of novel therapeutics to manage the antimicrobial resistance associated with Pseudomonas aeruginosa.https://microbiologyjournal.org/unraveling-the-complex-antimicrobial-resistance-gene-network-of-pseudomonas-aeruginosa-using-systems-biology-approach/systems biology approachpseudomonas aeruginosaantimicrobial resistance genesndaroenrichment analysisgene interaction networknosocomial infections |
| spellingShingle | Debolina Chatterjee Karthikeyan Sivashanmugam Unraveling the Complex Antimicrobial Resistance Gene Network of Pseudomonas aeruginosa using Systems Biology Approach Journal of Pure and Applied Microbiology systems biology approach pseudomonas aeruginosa antimicrobial resistance genes ndaro enrichment analysis gene interaction network nosocomial infections |
| title | Unraveling the Complex Antimicrobial Resistance Gene Network of Pseudomonas aeruginosa using Systems Biology Approach |
| title_full | Unraveling the Complex Antimicrobial Resistance Gene Network of Pseudomonas aeruginosa using Systems Biology Approach |
| title_fullStr | Unraveling the Complex Antimicrobial Resistance Gene Network of Pseudomonas aeruginosa using Systems Biology Approach |
| title_full_unstemmed | Unraveling the Complex Antimicrobial Resistance Gene Network of Pseudomonas aeruginosa using Systems Biology Approach |
| title_short | Unraveling the Complex Antimicrobial Resistance Gene Network of Pseudomonas aeruginosa using Systems Biology Approach |
| title_sort | unraveling the complex antimicrobial resistance gene network of pseudomonas aeruginosa using systems biology approach |
| topic | systems biology approach pseudomonas aeruginosa antimicrobial resistance genes ndaro enrichment analysis gene interaction network nosocomial infections |
| url | https://microbiologyjournal.org/unraveling-the-complex-antimicrobial-resistance-gene-network-of-pseudomonas-aeruginosa-using-systems-biology-approach/ |
| work_keys_str_mv | AT debolinachatterjee unravelingthecomplexantimicrobialresistancegenenetworkofpseudomonasaeruginosausingsystemsbiologyapproach AT karthikeyansivashanmugam unravelingthecomplexantimicrobialresistancegenenetworkofpseudomonasaeruginosausingsystemsbiologyapproach |