{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,8]],"date-time":"2026-07-08T16:53:10Z","timestamp":1783529590090,"version":"3.55.0"},"reference-count":54,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2025,3,19]],"date-time":"2025-03-19T00:00:00Z","timestamp":1742342400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"},{"start":{"date-parts":[[2025,3,19]],"date-time":"2025-03-19T00:00:00Z","timestamp":1742342400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Microbiol"],"DOI":"10.1186\/s12866-025-03860-5","type":"journal-article","created":{"date-parts":[[2025,3,19]],"date-time":"2025-03-19T02:35:56Z","timestamp":1742351756000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["Adoption of an in-silico analysis approach to assess the functional and structural impacts of rpoB-encoded protein mutations on Chlamydia pneumoniae sensitivity to antibiotics"],"prefix":"10.1186","volume":"25","author":[{"given":"Sanae","family":"Esskhayry","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ichrak","family":"Benamri","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Afaf","family":"Lamzouri","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ouafae","family":"Kaissi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rachida","family":"Fissoune","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ahmed","family":"Moussa","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fouzia","family":"Radouani","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2025,3,19]]},"reference":[{"issue":"8","key":"3860_CR1","doi-asserted-by":"publisher","first-page":"464","DOI":"10.1016\/j.tim.2014.04.013","volume":"22","author":"NL Bachmann","year":"2014","unstructured":"Bachmann NL, Polkinghorne A, Timms P. Chlamydia genomics: providing novel insights into chlamydial biology. Trends Microbiol. 2014;22(8):464\u201372. https:\/\/doi.org\/10.1016\/j.tim.2014.04.013.","journal-title":"Trends Microbiol"},{"key":"3860_CR2","doi-asserted-by":"publisher","first-page":"49","DOI":"10.1016\/j.meegid.2014.01.029","volume":"23","author":"A Nunes","year":"2014","unstructured":"Nunes A, Gomes JP. Evolution, phylogeny, and molecular epidemiology of Chlamydia. Infect Genet Evol. 2014;23:49\u201364. https:\/\/doi.org\/10.1016\/j.meegid.2014.01.029.","journal-title":"Infect Genet Evol"},{"issue":"4","key":"3860_CR3","doi-asserted-by":"publisher","first-page":"126200","DOI":"10.1016\/j.syapm.2021.126200","volume":"44","author":"F Vorimore","year":"2021","unstructured":"Vorimore F, H\u00f6lzer M, Liebler-Tenorio EM, Barf L-M., Delannoy S, Vittecoq M, et al. Evidence for the existence of a new genus Chlamydiifrater gen. nov. inside the family Chlamydiaceae with two new species isolated from flamingo (Phoenicopterus roseus): Chlamydiifrater phoenicopteri sp. nov. and Chlamydiifrater volucris sp. nov. Systematic and Applied Microbiology. 2021 Mar 30;44(4):126200. https:\/\/doi.org\/10.1016\/j.syapm.2021.126200","journal-title":"Syst Appl Microbiol"},{"key":"3860_CR4","doi-asserted-by":"publisher","first-page":"2174","DOI":"10.1016\/B978-1-4557-4801-3.00184-3","volume-title":"Mandell, Douglas, and Bennett\u2019s principles and practice of infectious diseases","author":"MR Hammerschlag","year":"2015","unstructured":"Hammerschlag MR, Kohlhoff SA, Gaydos CA. Chlamydia pneumoniae. In: Bennett JE, Dolin R, Blaser MJ, editors. Mandell, Douglas, and Bennett\u2019s principles and practice of infectious diseases. 8th ed. Philadelphia: Elsevier; 2015. pp. 2174\u2013e21822. https:\/\/doi.org\/10.1016\/B978-1-4557-4801-3.00184-3","edition":"8"},{"issue":"9","key":"3860_CR5","doi-asserted-by":"publisher","first-page":"1427","DOI":"10.2217\/fmb.10.96","volume":"5","author":"KM Sandoz","year":"2010","unstructured":"Sandoz KM, Rockey DD. Antibiotic resistance in Chlamydiae. Future Microbiol. 2010;5(9):1427\u201342. https:\/\/doi.org\/10.2217\/fmb.10.96.","journal-title":"Future Microbiol"},{"issue":"6","key":"3860_CR6","doi-asserted-by":"publisher","first-page":"229","DOI":"10.1177\/2042098614554919","volume":"5","author":"C Llor","year":"2014","unstructured":"Llor C, Bjerrum L. Antimicrobial resistance: risk associated with antibiotic overuse and initiatives to reduce the problem. Ther Adv Drug Saf. 2014;5(6):229\u201341. https:\/\/doi.org\/10.1177\/2042098614554919.","journal-title":"Ther Adv Drug Saf"},{"issue":"12","key":"3860_CR7","doi-asserted-by":"publisher","first-page":"1750","DOI":"10.1016\/j.jiph.2021.10.020","volume":"14","author":"TM Uddin","year":"2021","unstructured":"Uddin TM, Chakraborty AJ, Khusro A, Zidan BRM, Mitra S, Emran TB, et al. Antibiotic resistance in microbes: History, mechanisms, therapeutic strategies and future prospects. Journal of Infection and Public Health. 2021 Oct 25;14(12):1750\u201366. https:\/\/doi.org\/10.1016\/j.jiph.2021.10.020","journal-title":"Journal of Infection and Public Health"},{"issue":"4","key":"3860_CR8","first-page":"277","volume":"40","author":"CL Ventola","year":"2015","unstructured":"Ventola CL. The antibiotic resistance crisis. P T. 2015;40(4):277\u201383.","journal-title":"P T"},{"issue":"10325","key":"3860_CR9","doi-asserted-by":"publisher","first-page":"629","DOI":"10.1016\/S0140-6736(21)02724-0","volume":"399","author":"CJL Murray","year":"2022","unstructured":"Murray CJL, Ikuta KS, Sharara F, Swetschinski L, Aguilar GR, Gray A, et al. Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis. The Lancet. 2022 Jan 19;399(10325):629\u201355.","journal-title":"The Lancet"},{"key":"3860_CR10","doi-asserted-by":"publisher","unstructured":"Tenover FC. Mechanisms of antimicrobial resistance in Bacteria. Am J Med. 2006;119(6 Suppl 1). https:\/\/doi.org\/10.1016\/j.amjmed.2006.03.011.","DOI":"10.1016\/j.amjmed.2006.03.011"},{"issue":"1","key":"3860_CR11","doi-asserted-by":"publisher","first-page":"59","DOI":"10.1186\/s12941-021-00465-4","volume":"20","author":"I Benamri","year":"2021","unstructured":"Benamri I, Azzouzi M, Sanak K, Moussa A, Radouani F. An overview of genes and mutations associated with Chlamydiae species\u2019 resistance to antibiotics. Ann Clin Microbiol Antimicrob. 2021;20(1):59. https:\/\/doi.org\/10.1186\/s12941-021-00465-4.","journal-title":"Ann Clin Microbiol Antimicrob"},{"issue":"3","key":"3860_CR12","doi-asserted-by":"publisher","first-page":"903","DOI":"10.1128\/AAC.49.3.903-907.2005","volume":"49","author":"A Kutlin","year":"2005","unstructured":"Kutlin A, Kohlhoff S, Roblin P, Hammerschlag MR, Riska P. Emergence of resistance to Rifampin and Rifalazil in Chlamydophila pneumoniae and Chlamydia trachomatis. Antimicrob Agents Chemother. 2005;49(3):903\u20137. https:\/\/doi.org\/10.1128\/AAC.49.3.903-907.2005.","journal-title":"Antimicrob Agents Chemother"},{"issue":"8","key":"3860_CR13","doi-asserted-by":"publisher","first-page":"489","DOI":"10.1038\/ja.2008.65","volume":"61","author":"DM Rothstein","year":"2008","unstructured":"Rothstein DM, Suchland RJ, Xia M, Murphy CK, Stamm WE. Rifalazil retains activity against rifampin-resistant mutants of Chlamydia pneumoniae. J Antibiot (Tokyo). 2008;61(8):489\u201395. https:\/\/doi.org\/10.1038\/ja.2008.65","journal-title":"J Antibiot (Tokyo)"},{"issue":"5","key":"3860_CR14","doi-asserted-by":"publisher","first-page":"574","DOI":"10.1016\/S1471-4892(02)00202-3","volume":"2","author":"D Michalovich","year":"2002","unstructured":"Michalovich D, Overington J, Fagan R. Protein sequence analysis in Silico: application of structure-based bioinformatics to genomic initiatives. Curr Opin Pharmacol. 2002;2(5):574\u201380. https:\/\/doi.org\/10.1016\/S1471-4892(02)00202-3.","journal-title":"Curr Opin Pharmacol"},{"key":"3860_CR15","doi-asserted-by":"publisher","first-page":"18","DOI":"10.1016\/j.sbi.2015.01.003","volume":"32","author":"TG Kucukkal","year":"2015","unstructured":"Kucukkal TG, Petukh M, Li L, Alexov E. Structural and physicochemical effects of disease and nondisease NsSNPs on proteins. Curr Opin Struct Biol. 2015;32:18\u201324. https:\/\/doi.org\/10.1016\/j.sbi.2015.01.003.","journal-title":"Curr Opin Struct Biol"},{"issue":"1","key":"3860_CR16","doi-asserted-by":"publisher","first-page":"146","DOI":"10.1186\/s43141-022-00428-y","volume":"20","author":"I Benamri","year":"2022","unstructured":"Benamri I, Azzouzi M, Moussa A, Radouani F. An in Silico analysis of RpoB mutations to affect Chlamydia trachomatis sensitivity to rifamycin. J Genet Eng Biotechnol. 2022;20(1):146. https:\/\/doi.org\/10.1186\/s43141-022-00428-y.","journal-title":"J Genet Eng Biotechnol"},{"key":"3860_CR17","doi-asserted-by":"publisher","unstructured":"Varadi M, Bertoni D, Magana P, Paramval U, Pidruchna I, Radhakrishnan M, et al. AlphaFold Protein Structure Database in 2024: providing structure coverage for over 214 million protein sequences. Nucleic Acids Research. 2023 Nov 2;52(D1):D368\u201375. https:\/\/doi.org\/10.1093\/nar\/gkad1011","DOI":"10.1093\/nar\/gkad1011"},{"issue":"1","key":"3860_CR18","doi-asserted-by":"publisher","first-page":"5918","DOI":"10.1038\/s41467-020-19669-x","volume":"11","author":"V Pejaver","year":"2020","unstructured":"Pejaver V, Urresti J, Lugo-Martinez J, Pagel KA, Lin GN, Nam HJ, et al. Inferring the molecular and phenotypic impact of amino acid variants with MutPred2. Nature Communications. 2020 Nov 20;11(1). https:\/\/doi.org\/10.1038\/s41467-020-19669-x","journal-title":"Nat Commun"},{"key":"3860_CR19","doi-asserted-by":"publisher","unstructured":"Bendl J, Stourac J, Salanda O, Pavelka A, Wieben ED, Zendulka J, et al. PredictSNP: Robust and Accurate Consensus Classifier for Prediction of Disease-Related Mutations. PLoS Computational Biology. 2014 Jan 16;10(1):e1003440. https:\/\/doi.org\/10.1371\/journal.pcbi.1003440","DOI":"10.1371\/journal.pcbi.1003440"},{"issue":"13","key":"3860_CR20","doi-asserted-by":"publisher","first-page":"3812","DOI":"10.1093\/nar\/gkg509","volume":"31","author":"PC Ng","year":"2003","unstructured":"Ng PC, Henikoff S. SIFT: predicting amino acid changes that affect protein function. Nucleic Acids Res. 2003;31(13):3812\u20134. https:\/\/doi.org\/10.1093\/nar\/gkg509.","journal-title":"Nucleic Acids Res"},{"issue":"17","key":"3860_CR21","doi-asserted-by":"publisher","first-page":"3894","DOI":"10.1093\/nar\/gkf493","volume":"30","author":"V Ramensky","year":"2002","unstructured":"Ramensky V, Bork P, Sunyaev S. Human non-synonymous SNPs: server and survey. Nucleic Acids Res. 2002;30(17):3894\u2013900. https:\/\/doi.org\/10.1093\/nar\/gkf493.","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"3860_CR22","doi-asserted-by":"publisher","first-page":"7","DOI":"10.1002\/0471142905.hg0720s76","volume":"76","author":"I Adzhubei","year":"2013","unstructured":"Adzhubei I, Jordan DM, Sunyaev SR. Predicting functional effect of human missense mutations using PolyPhen-2. Curr Protoc Hum Genet. 2013;76(1):7\u201320. https:\/\/doi.org\/10.1002\/0471142905.hg0720s76.","journal-title":"Curr Protoc Hum Genet"},{"issue":"7","key":"3860_CR23","doi-asserted-by":"publisher","first-page":"978","DOI":"10.1101\/gr.3804205","volume":"15","author":"EA Stone","year":"2005","unstructured":"Stone EA, Sidow A. Physicochemical constraint violation by missense substitutions mediates impairment of protein function and disease severity. Genome Res. 2005;15(7):978\u201386. https:\/\/doi.org\/10.1101\/gr.3804205.","journal-title":"Genome Res"},{"issue":"22","key":"3860_CR24","doi-asserted-by":"publisher","first-page":"2729","DOI":"10.1093\/bioinformatics\/btl423","volume":"22","author":"E Capriotti","year":"2006","unstructured":"Capriotti E, Calabrese R, Casadio R. Predicting the insurgence of human genetic diseases associated to single point protein mutations with support vector machines and evolutionary information. Bioinformatics. 2006;22(22):2729\u201334. https:\/\/doi.org\/10.1093\/bioinformatics\/btl423.","journal-title":"Bioinformatics"},{"issue":"11","key":"3860_CR25","doi-asserted-by":"publisher","first-page":"3823","DOI":"10.1093\/nar\/gkm238","volume":"35","author":"Y Bromberg","year":"2007","unstructured":"Bromberg Y, Rost B. SNAP: predict effect of non-synonymous polymorphisms on function. Nucleic Acids Res. 2007;35(11):3823\u201335. https:\/\/doi.org\/10.1093\/nar\/gkm238.","journal-title":"Nucleic Acids Res"},{"issue":"14","key":"3860_CR26","doi-asserted-by":"publisher","first-page":"2230","DOI":"10.1093\/bioinformatics\/btw222","volume":"32","author":"H Tang","year":"2016","unstructured":"Tang H, Thomas PD. PANTHER-PSEP: predicting disease-causing genetic variants using position-specific evolutionary preservation. Bioinformatics. 2016;32(14):2230\u20132. https:\/\/doi.org\/10.1093\/bioinformatics\/btw222.","journal-title":"Bioinformatics"},{"issue":"4","key":"3860_CR27","doi-asserted-by":"publisher","first-page":"1125","DOI":"10.1002\/prot.20810","volume":"62","author":"J Cheng","year":"2006","unstructured":"Cheng J, Randall A, Baldi P. Prediction of protein stability changes for single-site mutations using support vector machines. Proteins. 2006;62(4):1125\u201332. https:\/\/doi.org\/10.1002\/prot.20810.","journal-title":"Proteins"},{"key":"3860_CR28","doi-asserted-by":"publisher","unstructured":"Bao L, Zhou M, Cui Y. NsSNPAnalyzer: identifying disease-associated nonsynonymous single nucleotide polymorphisms. Nucleic Acids Res. 2005;W480\u20132. https:\/\/doi.org\/10.1093\/nar\/gki372. 33(Web Server issue).","DOI":"10.1093\/nar\/gki372"},{"key":"3860_CR29","doi-asserted-by":"publisher","first-page":"1968","DOI":"10.1016\/j.csbj.2020.07.011","volume":"18","author":"T Sanavia","year":"2020","unstructured":"Sanavia T, Birolo G, Montanucci L, Turina P, Capriotti E, Fariselli P. Limitations and challenges in protein stability prediction upon genome variations: towards future applications in precision medicine. Computational and Structural Biotechnology Journal. 2020 Jan 1;18:1968\u201379. https:\/\/doi.org\/10.1016\/j.csbj.2020.07.011","journal-title":"Comput Struct Biotechnol J"},{"issue":"2","key":"3860_CR30","doi-asserted-by":"publisher","first-page":"bbab555","DOI":"10.1093\/bib\/bbab555","volume":"23","author":"C Pancotti","year":"2022","unstructured":"Pancotti C, Benevenuta S, Birolo G, Alberini V, Repetto V, Sanavia T, et al. Predicting protein stability changes upon single-point mutation: a thorough comparison of the available tools on a new dataset. Brief Bioinform. 2022;23(2):bbab555.","journal-title":"Brief Bioinform"},{"issue":"1","key":"3860_CR31","doi-asserted-by":"publisher","first-page":"60","DOI":"10.1002\/pro.3942","volume":"30","author":"CHM Rodrigues","year":"2021","unstructured":"Rodrigues CHM, Pires DEV, Ascher DB. DynaMut2: assessing changes in stability and flexibility upon single and multiple point missense mutations. Protein Sci Publ Protein Soc. 2021;30(1):60\u20139.","journal-title":"Protein Sci Publ Protein Soc"},{"issue":"2","key":"3860_CR32","doi-asserted-by":"publisher","first-page":"606","DOI":"10.3390\/ijms22020606","volume":"22","author":"G Li","year":"2021","unstructured":"Li G, Panday SK, Alexov E. SAAFEC-SEQ: A Sequence-Based method for predicting the effect of single point mutations on protein thermodynamic stability. Int J Mol Sci. 2021;22(2):606.","journal-title":"Int J Mol Sci"},{"key":"3860_CR33","doi-asserted-by":"publisher","unstructured":"Ashkenazy H, Abadi S, Martz E, Chay O, Mayrose I, Pupko T, et al. ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules. Nucleic Acids Research. 2016 May 10;44(W1):W344\u201350. https:\/\/doi.org\/10.1093\/nar\/gkw408","DOI":"10.1093\/nar\/gkw408"},{"key":"3860_CR34","doi-asserted-by":"publisher","unstructured":"Goldenberg O, Erez E, Nimrod G, Ben-Tal N. The ConSurf-DB: precalculated evolutionary conservation profiles of protein structures. Nucleic Acids Res. 2009;37(Database issue). https:\/\/doi.org\/10.1093\/nar\/gkn822.","DOI":"10.1093\/nar\/gkn822"},{"key":"3860_CR35","doi-asserted-by":"publisher","unstructured":"Ashkenazy H, Erez E, Martz E, Pupko T, Ben-Tal N. ConSurf 2010: calculating evolutionary conservation in sequence and structure of proteins and nucleic acids. Nucleic Acids Res. 2010;38(Web Server issue). https:\/\/doi.org\/10.1093\/nar\/gkq399.","DOI":"10.1093\/nar\/gkq399"},{"issue":"5","key":"3860_CR36","doi-asserted-by":"publisher","first-page":"652","DOI":"10.1002\/pro.2449","volume":"23","author":"CN Pace","year":"2014","unstructured":"Pace CN, Fu H, Fryar KL, Landua J, Trevino SR, Schell D, et al. Contribution of hydrogen bonds to protein stability. Protein Sci Publ Protein Soc. 2014;23(5):652\u201361. https:\/\/doi.org\/10.1002\/pro.2449.","journal-title":"Protein Sci Publ Protein Soc"},{"issue":"15","key":"3860_CR37","doi-asserted-by":"publisher","first-page":"2714","DOI":"10.1002\/elps.1150181505","volume":"18","author":"N Guex","year":"1997","unstructured":"Guex N, Peitsch MC. SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modelling. Electrophoresis. 1997;18(15):2714\u201323. https:\/\/doi.org\/10.1002\/elps.1150181505.","journal-title":"Electrophoresis"},{"issue":"W1","key":"3860_CR38","doi-asserted-by":"publisher","first-page":"W296","DOI":"10.1093\/nar\/gky427","volume":"46","author":"A Waterhouse","year":"2018","unstructured":"Waterhouse A, Bertoni M, Bienert S, Studer G, Tauriello G, Gumienny R, et al. SWISS-MODEL: homology modelling of protein structures and complexes. Nucleic Acids Res. 2018;46(W1):W296\u2013303. https:\/\/doi.org\/10.1093\/nar\/gky427.","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"3860_CR39","doi-asserted-by":"publisher","first-page":"293","DOI":"10.1002\/pro.3330","volume":"27","author":"CJ Williams","year":"2018","unstructured":"Williams CJ, Headd JJ, Moriarty NW, Prisant MG, Videau LL, Deis LN, et al. MolProbity: More and better reference data for improved all\u2010atom structure validation. Protein Science. 2017 Oct 25;27(1):293\u2013315. https:\/\/doi.org\/10.1002\/pro.3330","journal-title":"Protein Science"},{"issue":"13","key":"3860_CR40","doi-asserted-by":"publisher","first-page":"1605","DOI":"10.1002\/jcc.20084","volume":"25","author":"EF Pettersen","year":"2004","unstructured":"Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC, et al. UCSF Chimera\u2013a visualization system for exploratory research and analysis. J Comput Chem. 2004;25(13):1605\u201312. https:\/\/doi.org\/10.1002\/jcc.20084.","journal-title":"J Comput Chem"},{"issue":"3","key":"3860_CR41","doi-asserted-by":"publisher","first-page":"475","DOI":"10.1080\/07391102.1991.10507930","volume":"9","author":"RM Kini","year":"1991","unstructured":"Kini RM, Evans HJ. Molecular modelling of proteins: a strategy for energy minimization by molecular mechanics in the AMBER force field. J Biomol Struct Dyn. 1991;9(3):475\u201388. https:\/\/doi.org\/10.1080\/07391102.1991.10507930.","journal-title":"J Biomol Struct Dyn"},{"issue":"8","key":"3860_CR42","doi-asserted-by":"publisher","first-page":"853","DOI":"10.1002\/PROT.25499","volume":"86","author":"S Suvethigaa","year":"2018","unstructured":"Suvethigaa S, Chomilier J, Carpentier M. Structural effects of point mutations in proteins. Proteins. 2018;86(8):853\u201367. https:\/\/doi.org\/10.1002\/PROT.25499.","journal-title":"Proteins"},{"issue":"1","key":"3860_CR43","first-page":"148","volume":"36","author":"K Ramanathan","year":"2016","unstructured":"Ramanathan K. A systematic review on molecular Docking algorithms and its challenges. Int J Pharm Sci Rev Res. 2016;36(1):148\u201356.","journal-title":"Int J Pharm Sci Rev Res"},{"key":"3860_CR44","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1007\/978-1-4939-9752-7_9","volume":"2053","author":"G Bitencourt-Ferreira","year":"2019","unstructured":"Bitencourt-Ferreira G, Pintro VO, de Azevedo WF Jr. Docking with AutoDock4. Methods Mol Biol. 2019;2053:125\u201348. https:\/\/doi.org\/10.1007\/978-1-4939-9752-7_9.","journal-title":"Methods Mol Biol"},{"issue":"W1","key":"3860_CR45","doi-asserted-by":"publisher","first-page":"W374","DOI":"10.1093\/nar\/gky380","volume":"46","author":"Y Xu","year":"2018","unstructured":"Xu Y, Wang S, Hu Q, Gao S, Ma X, Zhang W, et al. CavityPlus: a web server for protein cavity detection with pharmacophore modelling, allosteric site identification and covalent ligand binding ability prediction. Nucleic Acids Research. 2018 Apr 30;46(W1):W374\u20139. https:\/\/doi.org\/10.1093\/nar\/gky380","journal-title":"Nucleic Acids Research"},{"issue":"1","key":"3860_CR46","doi-asserted-by":"publisher","first-page":"134","DOI":"10.1186\/s13568-023-01640-w","volume":"13","author":"A Sakhawat","year":"2023","unstructured":"Sakhawat A, Khan MU, Rehman R, Khan S, Shan MA, Batool A, et al. Natural compound targeting BDNF V66M variant: insights from in silico docking and molecular analysis. AMB Express. 2023 Nov 28;13(1). https:\/\/doi.org\/10.1186\/s13568-023-01640-w","journal-title":"AMB Express"},{"issue":"6","key":"3860_CR47","doi-asserted-by":"publisher","first-page":"288","DOI":"10.5501\/wjv.v10.i6.288","volume":"10","author":"QA Farooq","year":"2021","unstructured":"Farooq QA, Shaukat Z, Aiman S, Li CH. Protein\u2013protein interactions: methods, databases, and applications in virus\u2013host study. World J Virol. 2021;10(6):288\u2013300. https:\/\/doi.org\/10.5501\/wjv.v10.i6.288.","journal-title":"World J Virol"},{"key":"3860_CR48","doi-asserted-by":"publisher","unstructured":"Szklarczyk D, Gable AL, Lyon D, Junge A, Wyder S, Huerta-Cepas J, et al. STRING v11: protein\u2013protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Research. 2018 Nov 17;47(D1):D607\u201313. https:\/\/doi.org\/10.1093\/nar\/gky1131","DOI":"10.1093\/nar\/gky1131"},{"issue":"2","key":"3860_CR49","doi-asserted-by":"publisher","first-page":"409","DOI":"10.1128\/AAC.46.2.409-412.2002","volume":"46","author":"A Kutlin","year":"2002","unstructured":"Kutlin A, Roblin PM, Hammerschlag MR. Effect of prolonged treatment with Azithromycin, clarithromycin, or Levofloxacin on Chlamydia pneumoniae in a Continuous-Infection model. Antimicrob Agents Chemother. 2002;46(2):409\u201312. https:\/\/doi.org\/10.1128\/AAC.46.2.409-412.2002","journal-title":"Antimicrob Agents Chemother"},{"issue":"7","key":"3860_CR50","doi-asserted-by":"publisher","first-page":"2327","DOI":"10.1128\/AAC.47.7.2327-2329.2003","volume":"47","author":"S Ameyama","year":"2003","unstructured":"Ameyama S, Shinmura Y, Takahata M. Inhibitory activities of quinolones against DNA gyrase of Chlamydia pneumoniae. Antimicrob Agents Chemother. 2003;47(7):2327\u20139. https:\/\/doi.org\/10.1128\/AAC.47.7.2327-2329.2003","journal-title":"Antimicrob Agents Chemother"},{"issue":"suppl3","key":"3860_CR51","doi-asserted-by":"publisher","first-page":"35","DOI":"10.1093\/jac\/45.suppl_3.35","volume":"45","author":"MR Hammerschlag","year":"2000","unstructured":"Hammerschlag MR. Activity of Gemifloxacin and other new quinolones against Chlamydia pneumoniae: a review. J Antimicrob Chemother. 2000;45(suppl3):35. https:\/\/doi.org\/10.1093\/jac\/45.suppl_3.35","journal-title":"J Antimicrob Chemother"},{"issue":"1","key":"3860_CR52","doi-asserted-by":"publisher","first-page":"22","DOI":"10.3390\/antibiotics9010022","volume":"9","author":"R Patini","year":"2020","unstructured":"Patini R, Mangino G, Martellacci L, Quaranta G, Masucci L, Gallenzi P. The effect of different antibiotic regimens on bacterial resistance: a systematic review. Antibiotics. 2020 Jan 8;9(1):22. https:\/\/doi.org\/10.3390\/antibiotics9010022","journal-title":"Antibiotics"},{"issue":"1","key":"3860_CR53","doi-asserted-by":"publisher","first-page":"2","DOI":"10.1136\/ejhpharm-2021-002914","volume":"29","author":"RK Mahmood","year":"2022","unstructured":"Mahmood RK, Gillani SW, Alzaabi MJ, Gulam SM. Evaluation of inappropriate antibiotic prescribing and management through pharmacist-led antimicrobial stewardship programmes: a meta-analysis of evidence. Eur J Hosp Pharm. 2022;29(1):2\u20137. https:\/\/doi.org\/10.1136\/ejhpharm-2021-002914.","journal-title":"Eur J Hosp Pharm"},{"key":"3860_CR54","doi-asserted-by":"publisher","unstructured":"Sulis G, Daniels B, Kwan A, Gandra S, Daftary A, Das J, et al. Antibiotic overuse in the primary health care setting: a secondary data analysis of standardised patient studies from India, China and Kenya. BMJ Global Health. 2020 Sep 1;5(9):e003393. https:\/\/doi.org\/10.1136\/bmjgh-2020-003393","DOI":"10.1136\/bmjgh-2020-003393"}],"container-title":["BMC Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/s12866-025-03860-5.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1186\/s12866-025-03860-5\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/s12866-025-03860-5.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,3,19]],"date-time":"2025-03-19T02:36:00Z","timestamp":1742351760000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcmicrobiol.biomedcentral.com\/articles\/10.1186\/s12866-025-03860-5"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,3,19]]},"references-count":54,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2025,12]]}},"alternative-id":["3860"],"URL":"https:\/\/doi.org\/10.1186\/s12866-025-03860-5","relation":{},"ISSN":["1471-2180"],"issn-type":[{"value":"1471-2180","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,3,19]]},"assertion":[{"value":"20 September 2024","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"3 March 2025","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"19 March 2025","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"Not applicable.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval and consent to participate"}},{"value":"Not applicable.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}},{"value":"The authors declare no competing interests.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"157"}}