{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,18]],"date-time":"2026-09-18T00:08:00Z","timestamp":1789690080163,"version":"4.0.1"},"reference-count":95,"publisher":"Springer Science and Business Media LLC","issue":"4","license":[{"start":{"date-parts":[[2026,2,2]],"date-time":"2026-02-02T00:00:00Z","timestamp":1769990400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2026,2,2]],"date-time":"2026-02-02T00:00:00Z","timestamp":1769990400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"funder":[{"name":"United States Department of Agriculture (USDA), Agricultural Research Service (ARS), CRIS","award":["2030-42000-055-00D"],"award-info":[{"award-number":["2030-42000-055-00D"]}]},{"name":"Ciencia de Frontera 2023","award":["Ciencia de Frontera 2023"],"award-info":[{"award-number":["Ciencia de Frontera 2023"]}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Arch Microbiol"],"published-print":{"date-parts":[[2026,4]]},"DOI":"10.1007\/s00203-026-04738-4","type":"journal-article","created":{"date-parts":[[2026,2,2]],"date-time":"2026-02-02T08:03:33Z","timestamp":1770019413000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["Pangenomics of high-risk international clones in Acinetobacter baumannii identifies distinctive virulence and antimicrobial resistance profiles"],"prefix":"10.1007","volume":"208","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2514-0651","authenticated-orcid":false,"given":"Alma Karen","family":"Orozco-Ochoa","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5010-9889","authenticated-orcid":false,"given":"Beatriz","family":"Qui\u00f1ones","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2962-3650","authenticated-orcid":false,"given":"Bertram G.","family":"Lee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2994-4358","authenticated-orcid":false,"given":"Jean Pierre","family":"Gonz\u00e1lez-G\u00f3mez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7558-3963","authenticated-orcid":false,"given":"Juan Daniel","family":"Lira-Morales","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0738-492X","authenticated-orcid":false,"given":"Nohelia","family":"Castro-del Campo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9155-6981","authenticated-orcid":false,"given":"Jos\u00e9 Benigno","family":"Valdez-Torres","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5071-8270","authenticated-orcid":false,"given":"Crist\u00f3bal","family":"Chaidez-Quiroz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,2,2]]},"reference":[{"key":"4738_CR1","doi-asserted-by":"publisher","first-page":"119","DOI":"10.1186\/s12864-016-3407-6","volume":"18","author":"J Ahrenfeldt","year":"2017","unstructured":"Ahrenfeldt J, Skaarup C, Hasman H, Pedersen AG, Aarestrup FM, Lund O (2017) Bacterial whole genome-based phylogeny: construction of a new benchmarking dataset and assessment of some existing methods. BMC Genomics 2017 18:119. https:\/\/doi.org\/10.1186\/s12864-016-3407-6","journal-title":"BMC Genomics 2017"},{"key":"4738_CR2","doi-asserted-by":"publisher","unstructured":"Al-Shamiri MM, Zhang S, Mi P, Liu Y, Xun M, Yang E, Ai L, Han L, Chen Y (2021) Phenotypic and genotypic characteristics of Acinetobacter baumannii enrolled in the relationship among antibiotic resistance, biofilm formation and motility. Microb Pathog 2021 155:104922 https:\/\/doi.org\/10.1016\/j.micpath.2021.104922","DOI":"10.1016\/j.micpath.2021.104922"},{"key":"4738_CR3","doi-asserted-by":"publisher","unstructured":"Alcantar-Curiel MD, Huerta-Cedeno M, Jarillo-Quijada MD, Gayosso-Vazquez C, Fernandez-Vazquez JL, Hernandez-Medel ML, Zavala-Pineda M, Morales-Gil MA, Hernandez-Guzman VA, Bolanos-Hernandez MI et al (2023) Gram-negative ESKAPE bacteria bloodstream infections in patients during the COVID-19 pandemic. PeerJ 2023 11:e15007 https:\/\/doi.org\/10.7717\/peerj.15007","DOI":"10.7717\/peerj.15007"},{"key":"4738_CR4","doi-asserted-by":"publisher","unstructured":"Alcock BP, Huynh W, Chalil R, Smith KW, Raphenya AR, Wlodarski MA, Edalatmand A, Petkau A, Syed SA, Tsang KK et al (2023) CARD 2023: expanded curation, support for machine learning, and resistome prediction at the Comprehensive Antibiotic Resistance Database. Nucleic Acids Res 2023 51:D1:D690-D699 https:\/\/doi.org\/10.1093\/nar\/gkac920","DOI":"10.1093\/nar\/gkac920"},{"key":"4738_CR5","doi-asserted-by":"publisher","first-page":"5715","DOI":"10.2147\/IJGM.S489514","volume":"17","author":"Y Almoghrabi","year":"2024","unstructured":"Almoghrabi Y, Daghistani H, Niyazi HA, Niyazi HA, AbdulMajed H, Juma NA, Daffa N, Helmi NR, Al-Rabia MW, Mokhtar JA et al (2024) Epidemiological and clinical insights into Acinetobacter baumannii: a six-year study on age, antibiotics, and specimens. Int J Gen Med 2024 17:5715\u20135725. https:\/\/doi.org\/10.2147\/IJGM.S489514","journal-title":"Int J Gen Med 2024"},{"issue":"1","key":"4738_CR6","doi-asserted-by":"publisher","first-page":"150","DOI":"10.1021\/acsinfecdis.9b00351","volume":"6","author":"SF Alquethamy","year":"2020","unstructured":"Alquethamy SF, Adams FG, Naidu V, Khorvash M, Pederick VG, Zang M, Paton JC, Paulsen IT, Hassan KA, Cain AK et al (2020) The role of zinc efflux during Acinetobacter baumannii infection. ACS Infect Dis 2020 6(1):150\u2013158. https:\/\/doi.org\/10.1021\/acsinfecdis.9b00351","journal-title":"ACS Infect Dis 2020"},{"key":"4738_CR7","doi-asserted-by":"publisher","first-page":"629","DOI":"10.1016\/S0140-6736(21)02724-0","volume":"399","author":"C Antimicrobial Resistance","year":"2022","unstructured":"Antimicrobial Resistance C (2022) Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis. Lancet 2022 399:10325:629\u2013655. https:\/\/doi.org\/10.1016\/S0140-6736(21)02724-0","journal-title":"Lancet 2022"},{"issue":"W1","key":"4738_CR8","doi-asserted-by":"publisher","first-page":"W16","DOI":"10.1093\/nar\/gkw387","volume":"44","author":"D Arndt","year":"2016","unstructured":"Arndt D, Grant JR, Marcu A, Sajed T, Pon A, Liang Y, Wishart DS (2016) PHASTER: a better, faster version of the PHAST phage search tool. Nucleic Acids Res 2016 44(W1):W16\u201321. https:\/\/doi.org\/10.1093\/nar\/gkw387","journal-title":"Nucleic Acids Res 2016"},{"key":"4738_CR9","doi-asserted-by":"publisher","first-page":"10e000128","DOI":"10.1099\/mgen.0.000128","volume":"3","author":"S Arredondo-Alonso","year":"2017","unstructured":"Arredondo-Alonso S, Willems RJ, van Schaik W, Schurch AC (2017) On the (im)possibility of reconstructing plasmids from whole-genome short-read sequencing data. Microb Genom 2017 3:10e000128. https:\/\/doi.org\/10.1099\/mgen.0.000128","journal-title":"Microb Genom 2017"},{"key":"4738_CR10","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1186\/1471-2164-9-75","volume":"9","author":"RK Aziz","year":"2008","unstructured":"Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M et al (2008) The RAST server: rapid annotations using subsystems technology. BMC Genomics 2008 9:75. https:\/\/doi.org\/10.1186\/1471-2164-9-75","journal-title":"BMC Genomics 2008"},{"issue":"D1","key":"4738_CR11","doi-asserted-by":"publisher","first-page":"D41","DOI":"10.1093\/nar\/gkx1094","volume":"46","author":"DA Benson","year":"2018","unstructured":"Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Ostell J, Pruitt KD, Sayers EW (2018) GenBank Nucleic Acids Res 2018 46(D1):D41\u2013D47. https:\/\/doi.org\/10.1093\/nar\/gkx1094","journal-title":"GenBank Nucleic Acids Res 2018"},{"issue":"3","key":"4738_CR12","doi-asserted-by":"publisher","first-page":"309","DOI":"10.1016\/j.ijantimicag.2014.10.022","volume":"45","author":"P Bocanegra-Ibarias","year":"2015","unstructured":"Bocanegra-Ibarias P, Pena-Lopez C, Camacho-Ortiz A, Llaca-Diaz J, Silva-Sanchez J, Barrios H, Garza-Ramos U, Rodriguez-Flores AM, Garza-Gonzalez E (2015) Genetic characterisation of drug resistance and clonal dynamics of Acinetobacter baumannii in a hospital setting in Mexico. Int J Antimicrob Agents 2015 45(3):309\u2013313. https:\/\/doi.org\/10.1016\/j.ijantimicag.2014.10.022","journal-title":"Int J Antimicrob Agents 2015"},{"key":"4738_CR13","doi-asserted-by":"publisher","first-page":"e190232","DOI":"10.1590\/0074-02760190232","volume":"114","author":"RV Caldart","year":"2019","unstructured":"Caldart RV, Fonseca EL, Freitas F, Rocha L, Vicente AC (2019) Acinetobacter baumannii infections in Amazon Region driven by extensively drug resistant international clones, 2016\u20132018. Mem Inst Oswaldo Cruz 2019 114:e190232. https:\/\/doi.org\/10.1590\/0074-02760190232","journal-title":"Mem Inst Oswaldo Cruz 2019"},{"key":"4738_CR14","doi-asserted-by":"publisher","first-page":"58","DOI":"10.1016\/j.ijfoodmicro.2016.12.001","volume":"243","author":"A Carvalheira","year":"2017","unstructured":"Carvalheira A, Casquete R, Silva J, Teixeira P (2017a) Prevalence and antimicrobial susceptibility of Acinetobacter spp. isolated from meat. Int J Food Microbiol 2017a 243:58\u201363. https:\/\/doi.org\/10.1016\/j.ijfoodmicro.2016.12.001","journal-title":"Int J Food Microbiol 2017a"},{"key":"4738_CR15","doi-asserted-by":"publisher","unstructured":"Carvalheira A, Silva J, Teixeira P (2017b) Lettuce and fruits as a source of multidrug resistant Acinetobacter spp. Food Microbiol 2017b 64:119\u2013125 https:\/\/doi.org\/10.1016\/j.fm.2016.12.005","DOI":"10.1016\/j.fm.2016.12.005"},{"key":"4738_CR17","doi-asserted-by":"publisher","unstructured":"Chen L, Yang J, Yu J, Yao Z, Sun L, Shen Y, Jin Q (2005) VFDB: a reference database for bacterial virulence factors. Nucleic Acids Res 325\u2013328 2005 33:Database issue:D. https:\/\/doi.org\/10.1093\/nar\/gki008","DOI":"10.1093\/nar\/gki008"},{"key":"4738_CR16","doi-asserted-by":"publisher","first-page":"4995","DOI":"10.1128\/AEM.00056-06","volume":"72","author":"F Chen","year":"2006","unstructured":"Chen F, Wang K, Stewart J, Belas R (2006) Induction of multiple prophages from a marine bacterium: a genomic approach. Appl Environ Microbiol 2006 72:7:4995\u20135001. https:\/\/doi.org\/10.1128\/AEM.00056-06","journal-title":"Appl Environ Microbiol 2006"},{"key":"4738_CR18","doi-asserted-by":"publisher","first-page":"8","DOI":"10.5923\/j.microbiology.20211101.02","volume":"11","author":"AA Cherinet Yigrem","year":"2021","unstructured":"Cherinet Yigrem AA, Broderick, Eribo (2021) Prevalence of carbapenem resistant Acinetobacter baumannii in leafy vegetable samples and clinical sources from Gondar Northwest Ethiopia. J Microbiol Res 2021 11:8\u201310. https:\/\/doi.org\/10.5923\/j.microbiology.20211101.02","journal-title":"J Microbiol Res 2021"},{"key":"4738_CR19","doi-asserted-by":"publisher","first-page":"13830","DOI":"10.1038\/s41598-024-51499-5","volume":"14","author":"PAA de Oliveira","year":"2024","unstructured":"de Oliveira PAA, Baboghlian J, Ramos COA, Mancano ASF, Porcari AM, Girardello R, Ferraz LFC (2024) Selection and validation of reference genes suitable for gene expression analysis by reverse transcription quantitative real-time PCR in Acinetobacter baumannii. Sci Rep 2024 14:13830. https:\/\/doi.org\/10.1038\/s41598-024-51499-5","journal-title":"Sci Rep 2024"},{"issue":"1","key":"4738_CR20","doi-asserted-by":"publisher","first-page":"58","DOI":"10.3855\/jidc.13545","volume":"15","author":"EM Duran-Manuel","year":"2021","unstructured":"Duran-Manuel EM, Cruz-Cruz C, Ibanez-Cervantes G, Bravata-Alcantara JC, Sosa-Hernandez O, Delgado-Balbuena L, Leon-Garcia G, Cortes-Ortiz IA, Cureno-Diaz MA, Castro-Escarpulli G et al (2021) Clonal dispersion of Acinetobacter baumannii in an intensive care unit designed to patients COVID-19. J Infect Dev Ctries 2021 15(1):58\u201368. https:\/\/doi.org\/10.3855\/jidc.13545","journal-title":"J Infect Dev Ctries 2021"},{"issue":"1","key":"4738_CR21","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1038\/s41564-020-00834-3","volume":"6","author":"AM Eren","year":"2021","unstructured":"Eren AM, Kiefl E, Shaiber A, Veseli I, Miller SE, Schechter MS, Fink I, Pan JN, Yousef M, Fogarty EC et al (2021) Community-led, integrated, reproducible multi-omics with anvi\u2019o. Nat Microbiol 2021 6(1):3\u20136. https:\/\/doi.org\/10.1038\/s41564-020-00834-3","journal-title":"Nat Microbiol 2021"},{"key":"4738_CR22","doi-asserted-by":"publisher","first-page":"1278819","DOI":"10.3389\/fcimb.2023.1278819","volume":"13","author":"JL Fernandez-Vazquez","year":"2023","unstructured":"Fernandez-Vazquez JL, Hernandez-Gonzalez IL, Castillo-Ramirez S, Jarillo-Quijada MD, Gayosso-Vazquez C, Mateo-Estrada VE, Morfin-Otero R, Rodriguez-Noriega E, Santos-Preciado JI, Alcantar-Curiel MD (2023) Pandrug-resistant Acinetobacter baumannii from different clones and regions in Mexico have a similar plasmid carrying the bla(OXA-72) gene. Front Cell Infect Microbiol 2023 13:1278819. https:\/\/doi.org\/10.3389\/fcimb.2023.1278819","journal-title":"Front Cell Infect Microbiol 2023"},{"key":"4738_CR23","doi-asserted-by":"publisher","unstructured":"Francisco AP, Bugalho M, Ramirez M, Carrico JA (2009) Global optimal eBURST analysis of multilocus typing data using a graphic matroid approach. BMC Bioinformatics 2009 10:152 https:\/\/doi.org\/10.1186\/1471-2105-10-152","DOI":"10.1186\/1471-2105-10-152"},{"issue":"12","key":"4738_CR24","doi-asserted-by":"publisher","first-page":"3851","DOI":"10.1007\/s00284-020-02214-w","volume":"77","author":"JP Gonzalez-Gomez","year":"2020","unstructured":"Gonzalez-Gomez JP, Soto-Rodriguez S, Lopez-Cuevas O, Castro-Del Campo N, Chaidez C, Gomez-Gil B (2020) Phylogenomic analysis supports two possible origins for Latin American strains of Vibrio parahaemolyticus associated with acute hepatopancreatic necrosis disease (AHPND). Curr Microbiol 2020 77(12):3851\u20133860. https:\/\/doi.org\/10.1007\/s00284-020-02214-w","journal-title":"Curr Microbiol 2020"},{"issue":"4","key":"4738_CR25","doi-asserted-by":"publisher","first-page":"2587","DOI":"10.1128\/AAC.02042-15","volume":"60","author":"AM Gonzalez-Villoria","year":"2016","unstructured":"Gonzalez-Villoria AM, Tamayo-Legorreta E, Garza-Ramos U, Barrios H, Sanchez-Perez A, Rodriguez-Medina N, Uribe-Avina N, Cevallos MA, Group CS, Silva-Sanchez J (2016) A multicenter study in Mexico finds Acinetobacter baumannii clinical isolates belonging to clonal complexes 636B (113B) and 92B harboring OXA-72, OXA-239, and OXA-469. Antimicrob Agents Chemother 2016 60(4):2587\u20132588. https:\/\/doi.org\/10.1128\/AAC.02042-15","journal-title":"Antimicrob Agents Chemother 2016"},{"key":"4738_CR26","doi-asserted-by":"publisher","unstructured":"Gopikrishnan M, Doss C, G.P (2025) Pangenomic framework and comparative genomics of carbapenem-resistant Acinetobacter baumannii clinical isolates across Asia: unraveling the molecular trajectories of antimicrobial resistance and virulence. https:\/\/doi.org\/10.1016\/j.microb.2025.100554. The Microbe 2025 9","DOI":"10.1016\/j.microb.2025.100554"},{"key":"4738_CR27","doi-asserted-by":"publisher","first-page":"9ofae458","DOI":"10.1093\/ofid\/ofae458","volume":"11","author":"E Graffice","year":"2024","unstructured":"Graffice E, Moates DB, Leal SM Jr., Amerson-Brown M, Calix JJ (2024) Epidemiological, phylogenetic, and resistance heterogeneity among Acinetobacter baumannii in a large U.S. Deep South healthcare system. Open Forum Infect Dis 2024 11:9ofae458. https:\/\/doi.org\/10.1093\/ofid\/ofae458","journal-title":"Open Forum Infect Dis 2024"},{"key":"4738_CR28","doi-asserted-by":"publisher","first-page":"7631","DOI":"10.2147\/IDR.S386641","volume":"15","author":"N Gupta","year":"2022","unstructured":"Gupta N, Angadi K, Jadhav S (2022) Molecular characterization of Carbapenem-Resistant Acinetobacter baumannii with special reference to carbapenemases: A systematic review. Infect Drug Resist 2022 15:7631\u20137650. https:\/\/doi.org\/10.2147\/IDR.S386641","journal-title":"Infect Drug Resist 2022"},{"key":"4738_CR29","doi-asserted-by":"publisher","first-page":"13333","DOI":"10.1038\/ncomms13333","volume":"7","author":"J Haaber","year":"2016","unstructured":"Haaber J, Leisner JJ, Cohn MT, Catalan-Moreno A, Nielsen JB, Westh H, Penades JR, Ingmer H (2016) Bacterial viruses enable their host to acquire antibiotic resistance genes from neighbouring cells. Nat Commun 2016 7:13333. https:\/\/doi.org\/10.1038\/ncomms13333","journal-title":"Nat Commun 2016"},{"key":"4738_CR30","doi-asserted-by":"publisher","unstructured":"Halim J, Carr RA, Fliorent R, Jonnalagadda K, Kurbonnazarova M, Kaur M, Millstein I, Carabetta VJ (2024) Combinations of antibiotics effective against extensively- and pandrug-resistant Acinetobacter baumannii patient isolates. microorganisms 2024 12:7 https:\/\/doi.org\/10.3390\/microorganisms12071353","DOI":"10.3390\/microorganisms12071353"},{"key":"4738_CR31","doi-asserted-by":"publisher","first-page":"1060","DOI":"10.1099\/mic.0.035188-0","volume":"4","author":"BG Hall","year":"2010","unstructured":"Hall BG, Ehrlich GD, Hu FZ (2010) Pan-genome analysis provides much higher strain typing resolution than multi-locus sequence typing. Microbiol (Reading) 2010 156:Pt 4:1060\u20131068. https:\/\/doi.org\/10.1099\/mic.0.035188-0","journal-title":"Microbiol (Reading) 2010 156:Pt"},{"key":"4738_CR32","doi-asserted-by":"publisher","unstructured":"Hamidian M, Nigro SJ (2019) Emergence, molecular mechanisms and global spread of carbapenem-resistant Acinetobacter baumannii. Microb Genom 2019 5:10. https:\/\/doi.org\/10.1099\/mgen.0.000306","DOI":"10.1099\/mgen.0.000306"},{"key":"4738_CR33","doi-asserted-by":"publisher","first-page":"2106866","DOI":"10.1016\/j.ijantimicag.2023.106866","volume":"62","author":"F Hansen","year":"2023","unstructured":"Hansen F, Porsbo LJ, Frandsen TH, Kaygisiz ANS, Roer L, Henius AE, Holzknecht BJ, Soes L, Schonning K, Roder BL et al (2023) Characterisation of carbapenemase-producing Acinetobacter baumannii isolates from Danish patients 2014\u20132021: detection of a new international clone - IC11. Int J Antimicrob Agents 2023 62:2106866. https:\/\/doi.org\/10.1016\/j.ijantimicag.2023.106866","journal-title":"Int J Antimicrob Agents 2023"},{"key":"4738_CR34","doi-asserted-by":"publisher","first-page":"91","DOI":"10.1038\/nrmicro.2017.148","volume":"16:2","author":"CM Harding","year":"2018","unstructured":"Harding CM, Hennon SW, Feldman MF (2018) Uncovering the mechanisms of Acinetobacter baumannii virulence. Nat Rev Microbiol 2018 16:2:91\u2013102. https:\/\/doi.org\/10.1038\/nrmicro.2017.148","journal-title":"Nat Rev Microbiol 2018"},{"key":"4738_CR35","doi-asserted-by":"publisher","first-page":"233","DOI":"10.1093\/jac\/dkp428","volume":"65","author":"PG Higgins","year":"2010","unstructured":"Higgins PG, Dammhayn C, Hackel M, Seifert H (2010) Global spread of carbapenem-resistant Acinetobacter baumannii. J Antimicrob Chemother 2010 65:2:233\u2013238. https:\/\/doi.org\/10.1093\/jac\/dkp428","journal-title":"J Antimicrob Chemother 2010"},{"key":"4738_CR36","doi-asserted-by":"publisher","first-page":"1499839","DOI":"10.3389\/fcimb.2024.1499839","volume":"14","author":"BC Humberto","year":"2024","unstructured":"Humberto BC, Luis LA, Josefina DB (2024) Genomic analysis of the main epidemiological lineages of Acinetobacter baumannii in Mexico. Front Cell Infect Microbiol 2024 14:1499839. https:\/\/doi.org\/10.3389\/fcimb.2024.1499839","journal-title":"Front Cell Infect Microbiol 2024"},{"key":"4738_CR37","doi-asserted-by":"publisher","first-page":"6987","DOI":"10.1007\/s11033-021-06690-6","volume":"48","author":"S Ibrahim","year":"2021","unstructured":"Ibrahim S, Al-Saryi N, Al-Kadmy IMS, Aziz SN (2021) Multidrug-resistant Acinetobacter baumannii as an emerging concern in hospitals. Mol Biol Rep 2021 48:10:6987\u20136998. https:\/\/doi.org\/10.1007\/s11033-021-06690-6","journal-title":"Mol Biol Rep 2021"},{"key":"4738_CR39","doi-asserted-by":"publisher","first-page":"12437","DOI":"10.1128\/JVI.02132-12","volume":"86:22","author":"J Jeon","year":"2012","unstructured":"Jeon J, Kim JW, Yong D, Lee K, Chong Y (2012) Complete genome sequence of the podoviral bacteriophage YMC\/09\/02\/B1251 ABA BP, which causes the lysis of an OXA-23-producing carbapenem-resistant Acinetobacter baumannii isolate from a septic patient. J Virol 2012 86:22:12437\u201312438. https:\/\/doi.org\/10.1128\/JVI.02132-12","journal-title":"J Virol 2012"},{"issue":"12","key":"4738_CR38","doi-asserted-by":"publisher","first-page":"3157","DOI":"10.1007\/s00705-015-2604-y","volume":"160","author":"J Jeon","year":"2015","unstructured":"Jeon J, D\u2019Souza R, Pinto N, Ryu CM, Park JH, Yong D, Lee K (2015) Complete genome sequence of the siphoviral bacteriophage Betavarphi-R3177, which lyses an OXA-66-producing carbapenem-resistant Acinetobacter baumannii isolate. Arch Virol 2015 160(12):3157\u20133160. https:\/\/doi.org\/10.1007\/s00705-015-2604-y","journal-title":"Arch Virol 2015"},{"key":"4738_CR40","doi-asserted-by":"publisher","unstructured":"Jolley KA, Bray JE, Maiden MCJ (2018) Open-access bacterial population genomics: BIGSdb software, the PubMLST.org website and their applications. Wellcome Open Res 2018 3(124). https:\/\/doi.org\/10.12688\/wellcomeopenres.14826.1","DOI":"10.12688\/wellcomeopenres.14826.1"},{"key":"4738_CR41","doi-asserted-by":"publisher","first-page":"5","DOI":"10.1093\/bioinformatics\/btae311","volume":"40","author":"B Kille","year":"2024","unstructured":"Kille B, Nute MG, Huang V, Kim E, Phillippy AM, Treangen TJ (2024) Parsnp 2.0: scalable core-genome alignment for massive microbial datasets. Bioinf 2024 40:5. https:\/\/doi.org\/10.1093\/bioinformatics\/btae311","journal-title":"Bioinf 2024"},{"key":"4738_CR42","doi-asserted-by":"publisher","unstructured":"Knirel YA, Dentovskaya SV, Bystrova OV, Kocharova NA, Senchenkova SN, Shaikhutdinova RZ, Titareva GM, Bakhteeva IV, Lindner B, Pier GB et al (2007) Relationship of the lipopolysaccharide structure of Yersinia pestis to resistance to antimicrobial factors. Adv Exp Med Biol 2007 603:88\u201396 https:\/\/doi.org\/10.1007\/978-0-387-72124-8_7","DOI":"10.1007\/978-0-387-72124-8_7"},{"key":"4738_CR43","doi-asserted-by":"publisher","first-page":"540","DOI":"10.1038\/s41587-019-0072-8","volume":"37:5","author":"M Kolmogorov","year":"2019","unstructured":"Kolmogorov M, Yuan J, Lin Y, Pevzner PA (2019) Assembly of long, error-prone reads using repeat graphs. Nat Biotechnol 2019 37:5:540\u2013546. https:\/\/doi.org\/10.1038\/s41587-019-0072-8","journal-title":"Nat Biotechnol 2019"},{"key":"4738_CR44","doi-asserted-by":"publisher","first-page":"4484","DOI":"10.3390\/ijms13044484","volume":"13","author":"S Kumar","year":"2012","unstructured":"Kumar S, Varela MF (2012) Biochemistry of bacterial multidrug efflux pumps. Int J Mol Sci 2012 13:4:4484\u20134495. https:\/\/doi.org\/10.3390\/ijms13044484","journal-title":"Int J Mol Sci 2012"},{"key":"4738_CR45","doi-asserted-by":"publisher","first-page":"997897","DOI":"10.3389\/fcimb.2022.997897","volume":"12","author":"SN Kumkar","year":"2022","unstructured":"Kumkar SN, Kamble EE, Chavan NS, Dhotre DP, Pardesi KR (2022) Diversity of resistant determinants, virulence factors, and mobile genetic elements in Acinetobacter baumannii from India: A comprehensive in silico genome analysis. Front Cell Infect Microbiol 2022 12:997897. https:\/\/doi.org\/10.3389\/fcimb.2022.997897","journal-title":"Front Cell Infect Microbiol 2022"},{"key":"4738_CR46","doi-asserted-by":"publisher","first-page":"3","DOI":"10.3390\/pathogens10030373","volume":"10","author":"I Kyriakidis","year":"2021","unstructured":"Kyriakidis I, Vasileiou E, Pana ZD, Tragiannidis A (2021) Acinetobacter baumannii antibiotic resistance mechanisms. Pathogens 2021 10:3. https:\/\/doi.org\/10.3390\/pathogens10030373","journal-title":"Pathogens 2021"},{"key":"4738_CR47","doi-asserted-by":"publisher","unstructured":"Lam MMC, Wick RR, Judd LM, Holt KE, Wyres KL (2022) Kaptive 2.0: updated capsule and lipopolysaccharide locus typing for the Klebsiella pneumoniae species complex. Microb Genom 2022 8:3. https:\/\/doi.org\/10.1099\/mgen.0.000800","DOI":"10.1099\/mgen.0.000800"},{"key":"4738_CR48","doi-asserted-by":"publisher","first-page":"320","DOI":"10.3343\/alm.2016.36.4.320","volume":"36","author":"Y Lee","year":"2016","unstructured":"Lee Y, D\u2019Souza R, Yong D, Lee K (2016) Prediction of putative resistance islands in a carbapenem-Resistant Acinetobacter baumannii global clone 2 clinical isolate. Ann Lab Med 2016 36:4:320\u2013324. https:\/\/doi.org\/10.3343\/alm.2016.36.4.320","journal-title":"Ann Lab Med 2016"},{"key":"4738_CR49","doi-asserted-by":"publisher","unstructured":"Letunic I, Bork P (2024) Interactive tree of life (iTOL) v6: recent updates to the phylogenetic tree display and annotation tool. Nucleic Acids Res 2024 52. https:\/\/doi.org\/10.1093\/nar\/gkae268. W1:W78-W82","DOI":"10.1093\/nar\/gkae268"},{"key":"4738_CR50","doi-asserted-by":"publisher","first-page":"18315","DOI":"10.1038\/s41467-024-52450-y","volume":"15","author":"H Liao","year":"2024","unstructured":"Liao H, Liu C, Zhou S, Liu C, Eldridge DJ, Ai C, Wilhelm SW, Singh BK, Liang X, Radosevich M et al (2024) Prophage-encoded antibiotic resistance genes are enriched in human-impacted environments. Nat Commun 2024 15:18315. https:\/\/doi.org\/10.1038\/s41467-024-52450-y","journal-title":"Nat Commun 2024"},{"key":"4738_CR51","doi-asserted-by":"publisher","first-page":"52017","DOI":"10.1128\/IAI.00016-10","volume":"78","author":"NR Luke","year":"2010","unstructured":"Luke NR, Sauberan SL, Russo TA, Beanan JM, Olson R, Loehfelm TW, Cox AD, St Michael F, Vinogradov EV, Campagnari AA (2010) Identification and characterization of a glycosyltransferase involved in Acinetobacter baumannii lipopolysaccharide core biosynthesis. Infect Immun 2010 78:52017\u201352023. https:\/\/doi.org\/10.1128\/IAI.00016-10","journal-title":"Infect Immun 2010"},{"key":"4738_CR52","doi-asserted-by":"publisher","first-page":"6","DOI":"10.3390\/vaccines9060570","volume":"9","author":"C Ma","year":"2021","unstructured":"Ma C, McClean S (2021) Mapping global prevalence of Acinetobacter baumannii and recent vaccine development to tackle it. Vaccines (Basel) 2021 9:6. https:\/\/doi.org\/10.3390\/vaccines9060570","journal-title":"Vaccines (Basel) 2021"},{"key":"4738_CR53","doi-asserted-by":"publisher","unstructured":"Magrini E, Rando E, Liguoro B, Salvati F, Vecchio PD, Fantoni M, Torti C, Murri R (2025) Risk factors associated with bloodstream infections caused by Acinetobacter baumannii in hospital settings: A systematic review and meta-analysis. CMI Communications 2025 2:1 https:\/\/doi.org\/10.1016\/j.cmicom.2025.105060","DOI":"10.1016\/j.cmicom.2025.105060"},{"key":"4738_CR54","doi-asserted-by":"publisher","unstructured":"Mancilla-Rojano J, Ochoa SA, Reyes-Grajeda JP, Flores V, Medina-Contreras O, Espinosa-Mazariego K, Parra-Ortega I, Rosa-Zamboni D, Castellanos-Cruz MDC, Arellano-Galindo J et al (2020) Molecular epidemiology of Acinetobacter calcoaceticus-Acinetobacter baumannii complex isolated from children at the hospital infantil de Mexico Federico Gomez. Front Microbiol 2020 11:576673. https:\/\/doi.org\/10.3389\/fmicb.2020.576673","DOI":"10.3389\/fmicb.2020.576673"},{"key":"4738_CR55","unstructured":"MapChart (2025) Create your own custom maps \u2014 MapChart. Website Create your own custom maps \u2014 MapChart. https:\/\/www.mapchart.net\/. Accessed cited 2025 Jun 18"},{"key":"4738_CR56","doi-asserted-by":"publisher","first-page":"108248","DOI":"10.1016\/j.ijfoodmicro.2019.108248","volume":"305","author":"M Mari-Almirall","year":"2019","unstructured":"Mari-Almirall M, Cosgaya C, Pons MJ, Nemec A, Ochoa TJ, Ruiz J, Roca I, Vila J (2019) Pathogenic Acinetobacter species including the novel Acinetobacter dijkshoorniae recovered from market meat in Peru. Int J Food Microbiol 2019 305:108248. https:\/\/doi.org\/10.1016\/j.ijfoodmicro.2019.108248","journal-title":"Int J Food Microbiol 2019"},{"key":"4738_CR57","doi-asserted-by":"publisher","first-page":"154","DOI":"10.1145\/6497.214326","volume":"12","author":"CR Mehta","year":"1986","unstructured":"Mehta CR, Patel NR (1986) Algorithm 643. ACM Trans Math Softw 1986 12:2:154\u2013161. https:\/\/doi.org\/10.1145\/6497.214326","journal-title":"ACM Trans Math Softw 1986"},{"key":"4738_CR58","doi-asserted-by":"publisher","unstructured":"Moreno-Manjon J, Castillo-Ramirez S, Jolley KA, Maiden MCJ, Gayosso-Vazquez C, Fernandez-Vazquez JL, Mateo-Estrada V, Giono-Cerezo S, Alcantar-Curiel MD (2023) Acinetobacter baumannii IC2 and IC5 Isolates with Co-Existing bla(OXA-143-like) and bla(OXA-72) and Exhibiting Strong Biofilm Formation in a Mexican Hospital. Microorganisms 2023 11:9 https:\/\/doi.org\/10.3390\/microorganisms11092316","DOI":"10.3390\/microorganisms11092316"},{"key":"4738_CR59","unstructured":"Morpheus BI (2024) Accessed November 13) Morpheus tool (RRID:SCR_017386). Website Morpheus tool (RRID:SCR_017386). https:\/\/software.broadinstitute.org\/morpheus"},{"issue":"1","key":"4738_CR60","doi-asserted-by":"publisher","first-page":"35","DOI":"10.3201\/eid1601.090852","volume":"16","author":"PD Mugnier","year":"2010","unstructured":"Mugnier PD, Poirel L, Naas T, Nordmann P (2010) Worldwide dissemination of the blaOXA-23 carbapenemase gene of Acinetobacter baumannii. Emerg Infect Dis 2010 16(1):35\u201340. https:\/\/doi.org\/10.3201\/eid1601.090852","journal-title":"Emerg Infect Dis 2010"},{"key":"4738_CR61","doi-asserted-by":"publisher","first-page":"6e0226023","DOI":"10.1128\/mbio.02260-23","volume":"14","author":"C Muller","year":"2023","unstructured":"Muller C, Reuter S, Wille J, Xanthopoulou K, Stefanik D, Grundmann H, Higgins PG, Seifert H (2023) A global view on carbapenem-resistant Acinetobacter baumannii. mBio 2023 14:6e0226023. https:\/\/doi.org\/10.1128\/mbio.02260-23","journal-title":"mBio 2023"},{"key":"4738_CR62","doi-asserted-by":"publisher","unstructured":"Muzahid NH, Hussain MH, Huet MAL, Dwiyanto J, Su TT, Reidpath D, Mustapha F, Ayub Q, Tan HS, Rahman S (2023) Molecular characterization and comparative genomic analysis of Acinetobacter baumannii isolated from the community and the hospital: an epidemiological study in Segamat, Malaysia. Microb Genom 2023 9:4. https:\/\/doi.org\/10.1099\/mgen.0.000977","DOI":"10.1099\/mgen.0.000977"},{"issue":"1","key":"4738_CR63","doi-asserted-by":"publisher","first-page":"128","DOI":"10.1093\/bioinformatics\/btw582","volume":"33","author":"M Nascimento","year":"2017","unstructured":"Nascimento M, Sousa A, Ramirez M, Francisco AP, Carrico JA, Vaz C (2017) PHYLOViZ 2.0: providing scalable data integration and visualization for multiple phylogenetic inference methods. Bioinf 2017 33(1):128\u2013129. https:\/\/doi.org\/10.1093\/bioinformatics\/btw582","journal-title":"Bioinf 2017"},{"key":"4738_CR64","doi-asserted-by":"publisher","unstructured":"Nodari CS, Cayo R, Streling AP, Lei F, Wille J, Almeida MS, de Paula AI, Pignatari ACC, Seifert H, Higgins PG et al (2020) Genomic analysis of Carbapenem-Resistant Acinetobacter baumannii isolates belonging to major endemic clones in South America. Front Microbiol 2020 11:584603. https:\/\/doi.org\/10.3389\/fmicb.2020.584603","DOI":"10.3389\/fmicb.2020.584603"},{"key":"4738_CR65","doi-asserted-by":"publisher","first-page":"785","DOI":"10.1016\/j.bjm.2016.06.005","volume":"47:4","author":"M Pagano","year":"2016","unstructured":"Pagano M, Martins AF, Barth AL (2016) Mobile genetic elements related to Carbapenem Resistance in Acinetobacter baumannii. Braz J Microbiol 2016 47:4:785\u2013792. https:\/\/doi.org\/10.1016\/j.bjm.2016.06.005","journal-title":"Braz J Microbiol 2016"},{"key":"4738_CR66","doi-asserted-by":"publisher","unstructured":"Papazachariou A, Tziolos RN, Karakonstantis S, Ioannou P, Samonis G, Kofteridis DP (2024) Treatment strategies of colistin resistance Acinetobacter baumannii infections. antibiotics (Basel) 2024 13:5 https:\/\/doi.org\/10.3390\/antibiotics13050423","DOI":"10.3390\/antibiotics13050423"},{"key":"4738_CR67","doi-asserted-by":"publisher","first-page":"4","DOI":"10.1128\/CMR.00088-17","volume":"31","author":"SR Partridge","year":"2018","unstructured":"Partridge SR, Kwong SM, Firth N, Jensen SO (2018) Mobile genetic elements associated with antimicrobial resistance. Clin Microbiol Rev 2018 31:4. https:\/\/doi.org\/10.1128\/CMR.00088-17","journal-title":"Clin Microbiol Rev 2018"},{"issue":"1","key":"4738_CR68","doi-asserted-by":"publisher","first-page":"12","DOI":"10.1039\/c5ay02550h","volume":"8","author":"L Pritchard","year":"2016","unstructured":"Pritchard L, Glover RH, Humphris S, Elphinstone JG, Toth IK (2016) Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens. Anal Methods 2016 8(1):12\u201324. https:\/\/doi.org\/10.1039\/c5ay02550h","journal-title":"Anal Methods 2016"},{"key":"4738_CR69","doi-asserted-by":"publisher","first-page":"100883","DOI":"10.1016\/j.nmni.2021.100883","volume":"2021 42","author":"P Rashvand","year":"2021","unstructured":"Rashvand P, Peymani A, Mohammadi M, Karami AA, Samimi R, Hajian S, Porasgari D, Habibollah-Pourzereshki N (2021) Molecular survey of aminoglycoside-resistant Acinetobacter baumannii isolated from tertiary hospitals in Qazvin, Iran. New Microbes New Infect 2021 42:100883. https:\/\/doi.org\/10.1016\/j.nmni.2021.100883","journal-title":"New Microbes New Infect"},{"key":"4738_CR71","unstructured":"RHOVE (2024) Health Care Associated Infections Bulletin [internet]. Journal 2024 Julio. www.gob.mx\/salud"},{"key":"4738_CR70","unstructured":"RHOVE-Sinaloa (2025) State Bulletin. Epidemiological overview of infections associated with health care. J 2025 January. https:\/\/saludsinaloa.gob.mx\/"},{"key":"4738_CR72","doi-asserted-by":"publisher","first-page":"8","DOI":"10.1099\/mgen.0.000206","volume":"4","author":"J Robertson","year":"2018","unstructured":"Robertson J, Nash JHE (2018) MOB-suite: software tools for clustering, reconstruction and typing of plasmids from draft assemblies. Microb Genom 2018 4:8. https:\/\/doi.org\/10.1099\/mgen.0.000206","journal-title":"Microb Genom 2018"},{"key":"4738_CR73","doi-asserted-by":"publisher","unstructured":"Roshini J, Patro LPP, Sundaresan S, Rathinavelan T (2023) Structural diversity among Acinetobacter baumannii K-antigens and its implication in the in silico serotyping. Front Microbiol 2023 14:1191542 https:\/\/doi.org\/10.3389\/fmicb.2023.1191542","DOI":"10.3389\/fmicb.2023.1191542"},{"key":"4738_CR74","doi-asserted-by":"publisher","first-page":"72","DOI":"10.1016\/j.nmni.2015.06.005","volume":"7","author":"L Rouli","year":"2015","unstructured":"Rouli L, Merhej V, Fournier PE, Raoult D (2015) The bacterial pangenome as a new tool for analysing pathogenic bacteria. New Microbes New Infect 2015 7:72\u201385. https:\/\/doi.org\/10.1016\/j.nmni.2015.06.005","journal-title":"New Microbes New Infect 2015"},{"issue":"4","key":"4738_CR75","doi-asserted-by":"publisher","first-page":"389","DOI":"10.1016\/j.ijantimicag.2007.12.008","volume":"31","author":"SY Saavedra","year":"2008","unstructured":"Saavedra SY, Nunez JC, Pulido IY, Gonzalez EB, Valenzuela EM, Reguero MT, Mantilla JR, Arango AI, Bravo P (2008) Characterisation of carbapenem-resistant Acinetobacter calcoaceticus\u2013A. baumannii complex isolates in a third-level hospital in Bogota, Colombia. Int J Antimicrob Agents 2008 31(4):389\u2013391. https:\/\/doi.org\/10.1016\/j.ijantimicag.2007.12.008","journal-title":"Int J Antimicrob Agents 2008"},{"key":"4738_CR76","doi-asserted-by":"publisher","unstructured":"Salam MA, Al-Amin MY, Salam MT, Pawar JS, Akhter N, Rabaan AA, Alqumber MAA (2023) Antimicrobial Resistance: A growing serious threat for global public health. healthcare (Basel) 2023 11:13 https:\/\/doi.org\/10.3390\/healthcare11131946","DOI":"10.3390\/healthcare11131946"},{"key":"4738_CR77","doi-asserted-by":"publisher","unstructured":"Scoffone VC, Trespidi G, Barbieri G, Arshad A, Israyilova A, Buroni S (2025) The evolution of antimicrobial resistance in Acinetobacter baumannii and new strategies to fight it. antibiotics (Basel) 2025 14:1 https:\/\/doi.org\/10.3390\/antibiotics14010085","DOI":"10.3390\/antibiotics14010085"},{"key":"4738_CR78","doi-asserted-by":"publisher","first-page":"142068","DOI":"10.1093\/bioinformatics\/btu153","volume":"30","author":"T Seemann","year":"2014","unstructured":"Seemann T (2014) Prokka: rapid prokaryotic genome annotation. Bioinf 2014 30:142068\u2013142069. https:\/\/doi.org\/10.1093\/bioinformatics\/btu153","journal-title":"Bioinf 2014"},{"key":"4738_CR79","doi-asserted-by":"publisher","unstructured":"Shelenkov A, Akimkin V, Mikhaylova Y (2023) International clones of high risk of Acinetobacter baumannii-definitions, history, properties and perspectives. 8. Microorganisms 2023 11: https:\/\/doi.org\/10.3390\/microorganisms11082115","DOI":"10.3390\/microorganisms11082115"},{"key":"4738_CR80","doi-asserted-by":"publisher","first-page":"1332108","DOI":"10.3389\/fmicb.2024.1332108","volume":"15","author":"J Shi","year":"2024","unstructured":"Shi J, Cheng J, Liu S, Zhu Y, Zhu M (2024) Acinetobacter baumannii: an evolving and cunning opponent. Front Microbiol 2024 15:1332108. https:\/\/doi.org\/10.3389\/fmicb.2024.1332108","journal-title":"Front Microbiol 2024"},{"key":"4738_CR81","doi-asserted-by":"publisher","unstructured":"Siguier P, Perochon J, Lestrade L, Mahillon J, Chandler M (2006) ISfinder: the reference centre for bacterial insertion sequences. Nucleic Acids Res 32\u201336 2006 34:Database issue:D. https:\/\/doi.org\/10.1093\/nar\/gkj014","DOI":"10.1093\/nar\/gkj014"},{"key":"4738_CR82","doi-asserted-by":"publisher","first-page":"178","DOI":"10.1038\/s44259-025-00151-x","volume":"3","author":"C Smyth","year":"2025","unstructured":"Smyth C, Leigh RJ, Do TT, Walsh F (2025) Communities of plasmids as strategies for antimicrobial resistance gene survival in wastewater treatment plant effluent. NPJ Antimicrob Resist 2025 3:178. https:\/\/doi.org\/10.1038\/s44259-025-00151-x","journal-title":"NPJ Antimicrob Resist 2025"},{"key":"4738_CR83","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu033","author":"A Stamatakis","year":"2014","unstructured":"Stamatakis A (2014) Bioinf 2014 30:9:1312\u20131313. https:\/\/doi.org\/10.1093\/bioinformatics\/btu033."},{"key":"4738_CR85","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1002\/nmi2.60","volume":"2","author":"EM Tamayo-Legorreta","year":"2014","unstructured":"Tamayo-Legorreta EM, Garza-Ramos U, Barrios-Camacho H, Sanchez-Perez A, Galicia-Paredes A, Meza-Chavez A, Silva-Sanchez J (2014) Identification of OXA-23 carbapenemases: novel variant OXA-239 in Acinetobacter baumannii ST758 clinical isolates in Mexico. New Microbes New Infect 2014 2:6:173\u2013174. https:\/\/doi.org\/10.1002\/nmi2.60","journal-title":"New Microbes New Infect 2014"},{"issue":"2","key":"4738_CR84","doi-asserted-by":"publisher","first-page":"129","DOI":"10.1089\/mdr.2015.0157","volume":"22","author":"E Tamayo-Legorreta","year":"2016","unstructured":"Tamayo-Legorreta E, Turrubiartes-Martinez E, Garza-Ramos U, Nino-Moreno P, Barrios H, Sanchez-Perez A, Reyna-Flores F, Tovar-Oviedo J, Magana-Aquino M, Cevallos MA et al (2016) Outbreak caused by blaOXA-72-Producing Acinetobacter baumannii ST417 detected in clinical and environmental isolates. Microb Drug Resist 2016 22(2):129\u2013133. https:\/\/doi.org\/10.1089\/mdr.2015.0157","journal-title":"Microb Drug Resist 2016"},{"key":"4738_CR86","doi-asserted-by":"publisher","first-page":"12111367","DOI":"10.1016\/j.isci.2024.111367","volume":"27","author":"A Thacharodi","year":"2024","unstructured":"Thacharodi A, Vithlani A, Hassan S, Alqahtani A, Pugazhendhi A (2024) Carbapenem-resistant Acinetobacter baumannii raises global alarm for new antibiotic regimens. iScience 2024 27:12111367. https:\/\/doi.org\/10.1016\/j.isci.2024.111367","journal-title":"iScience 2024"},{"issue":"1","key":"4738_CR87","doi-asserted-by":"publisher","first-page":"43","DOI":"10.1089\/dna.2021.0588","volume":"41","author":"V Tiku","year":"2022","unstructured":"Tiku V (2022) Acinetobacter baumannii: virulence strategies and host defense mechanisms. DNA Cell Biol 2022 41(1):43\u201348. https:\/\/doi.org\/10.1089\/dna.2021.0588","journal-title":"DNA Cell Biol 2022"},{"key":"4738_CR88","unstructured":"Torsten S (2020) ABRicate. Website ABRicate. https:\/\/github.com\/tseemann\/abricate. Accessed 21 November 2024"},{"key":"4738_CR89","doi-asserted-by":"publisher","first-page":"116961","DOI":"10.1038\/s41598-018-35377-5","volume":"8","author":"G Traglia","year":"2018","unstructured":"Traglia G, Chiem K, Quinn B, Fernandez JS, Montana S, Almuzara M, Mussi MA, Tolmasky ME, Iriarte A, Centron D et al (2018) Genome sequence analysis of an extensively drug-resistant Acinetobacter baumannii indigo-pigmented strain depicts evidence of increase genome plasticity. Sci Rep 2018 8:116961. https:\/\/doi.org\/10.1038\/s41598-018-35377-5","journal-title":"Sci Rep 2018"},{"issue":"D1","key":"4738_CR90","doi-asserted-by":"publisher","first-page":"D535","DOI":"10.1093\/nar\/gkw1017","volume":"45","author":"AR Wattam","year":"2017","unstructured":"Wattam AR, Davis JJ, Assaf R, Boisvert S, Brettin T, Bun C, Conrad N, Dietrich EM, Disz T, Gabbard JL et al (2017) Improvements to PATRIC, the all-bacterial bioinformatics database and analysis resource center. Nucleic Acids Res 2017 45(D1):D535\u2013D542. https:\/\/doi.org\/10.1093\/nar\/gkw1017","journal-title":"Nucleic Acids Res 2017"},{"key":"4738_CR91","doi-asserted-by":"publisher","first-page":"1e55142","DOI":"10.1371\/journal.pone.0055142","volume":"8","author":"BS Weber","year":"2013","unstructured":"Weber BS, Miyata ST, Iwashkiw JA, Mortensen BL, Skaar EP, Pukatzki S, Feldman MF (2013) Genomic and functional analysis of the type VI secretion system in Acinetobacter. PLoS One 2013 8:1e55142. https:\/\/doi.org\/10.1371\/journal.pone.0055142","journal-title":"PLoS One 2013"},{"key":"4738_CR92","doi-asserted-by":"publisher","unstructured":"Wyres KL, Cahill SM, Holt KE, Hall RM, Kenyon JJ (2020) Identification of Acinetobacter baumannii loci for capsular polysaccharide (KL) and lipooligosaccharide outer core (OCL) synthesis in genome assemblies using curated reference databases compatible with Kaptive. Microb Genom 2020 6:3. https:\/\/doi.org\/10.1099\/mgen.0.000339","DOI":"10.1099\/mgen.0.000339"},{"key":"4738_CR93","doi-asserted-by":"publisher","first-page":"8151464","DOI":"10.1016\/j.ijmm.2020.151464","volume":"310","author":"Q Xu","year":"2020","unstructured":"Xu Q, Hua X, He J, Zhang D, Chen Q, Zhang L, Loh B, Leptihn S, Wen Y, Higgins PG et al (2020) The distribution of mutations and hotspots in transcription regulators of resistance-nodulation-cell division efflux pumps in tigecycline non-susceptible Acinetobacter baumannii in China. Int J Med Microbiol 2020 310:8151464. https:\/\/doi.org\/10.1016\/j.ijmm.2020.151464","journal-title":"Int J Med Microbiol 2020"},{"key":"4738_CR94","doi-asserted-by":"publisher","unstructured":"Zhou Y, Liang Y, Lynch KH, Dennis JJ, Wishart DS (2011) PHAST: a fast phage search tool. Nucleic Acids Res 347\u2013352 2011 39:Web Server issue:W. https:\/\/doi.org\/10.1093\/nar\/gkr485","DOI":"10.1093\/nar\/gkr485"},{"key":"4738_CR95","doi-asserted-by":"publisher","first-page":"1395","DOI":"10.1101\/gr.232397.117","volume":"28","author":"Z Zhou","year":"2018","unstructured":"Zhou Z, Alikhan NF, Sergeant MJ, Luhmann N, Vaz C, Francisco AP, Carrico JA, Achtman M (2018) GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Res 2018 28:9:1395\u20131404. https:\/\/doi.org\/10.1101\/gr.232397.117","journal-title":"Genome Res 2018"}],"container-title":["Archives of Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00203-026-04738-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s00203-026-04738-4","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00203-026-04738-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,3,28]],"date-time":"2026-03-28T11:59:46Z","timestamp":1774699186000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s00203-026-04738-4"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,2,2]]},"references-count":95,"journal-issue":{"issue":"4","published-print":{"date-parts":[[2026,4]]}},"alternative-id":["4738"],"URL":"https:\/\/doi.org\/10.1007\/s00203-026-04738-4","relation":{"references":[{"id-type":"doi","id":"10.1093\/bioinformatics\/btu033","asserted-by":"subject"}]},"ISSN":["0302-8933","1432-072X"],"issn-type":[{"value":"0302-8933","type":"print"},{"value":"1432-072X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,2,2]]},"assertion":[{"value":"30 September 2025","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"19 December 2025","order":2,"name":"revised","label":"Revised","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"13 January 2026","order":3,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"2 February 2026","order":4,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The authors declare no conflicts of interest.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Conflict of interest"}},{"value":"Not applicable.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethical approval"}}],"article-number":"173"}}