{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,24]],"date-time":"2026-09-24T09:16:21Z","timestamp":1790241381380,"version":"4.1.0"},"reference-count":78,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2019,4,2]],"date-time":"2019-04-02T00:00:00Z","timestamp":1554163200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"DOI":"10.3389\/fmicb.2019.00542","type":"journal-article","created":{"date-parts":[[2019,4,2]],"date-time":"2019-04-02T05:34:12Z","timestamp":1554183252000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":95,"title":["Diversity, Virulence, and Antimicrobial Resistance in Isolates From the Newly Emerging Klebsiella pneumoniae ST101 Lineage"],"prefix":"10.3389","volume":"10","author":[{"given":"Chandler C.","family":"Roe","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Adam J.","family":"Vazquez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eliana Pia","family":"Esposito","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Raffaele","family":"Zarrilli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jason W.","family":"Sahl","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2019,4,2]]},"reference":[{"key":"B1","year":"2013","journal-title":"Centers for Disease Control and Prevention."},{"key":"B2","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.02457-17","article-title":"Characterization of extensively drug-resistant or pandrug-resistant sequence type 147 and 101 OXA-48-producing Klebsiella pneumoniae causing bloodstream infections in patients in an intensive care unit.","volume":"62","author":"Avgoulea","year":"2018","journal-title":"Antimicrob. Agents Chemother."},{"key":"B3","doi-asserted-by":"publisher","first-page":"1812","DOI":"10.3201\/eid2011.140206","article-title":"Genomic definition of hypervirulent and multidrug-resistant Klebsiella pneumoniae clonal groups.","volume":"20","author":"Bialek-Davenet","year":"","journal-title":"Emerg. Infect. Dis."},{"key":"B4","doi-asserted-by":"publisher","first-page":"1608","DOI":"10.1099\/jmm.0.081448-0","article-title":"Development of a multiplex PCR assay for identification of Klebsiella pneumoniae hypervirulent clones of capsular serotype K2.","volume":"63","author":"Bialek-Davenet","year":"","journal-title":"J. Med. Microbiol."},{"key":"B5","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0133727","article-title":"Genomic analysis of the emergence and rapid global dissemination of the clonal group 258 Klebsiella pneumoniae pandemic.","volume":"10","author":"Bowers","year":"2015","journal-title":"PLoS One"},{"key":"B6","doi-asserted-by":"publisher","first-page":"2582","DOI":"10.1128\/JCM.00927-16","article-title":"KlebSeq, a diagnostic tool for surveillance, detection, and monitoring of Klebsiella pneumoniae.","volume":"54","author":"Bowers","year":"2016","journal-title":"J. Clin. Microbiol."},{"key":"B7","doi-asserted-by":"publisher","first-page":"2665","DOI":"10.1534\/genetics.105.048975","article-title":"A simple and robust statistical test for detecting the presence of recombination.","volume":"172","author":"Bruen","year":"2006","journal-title":"Genetics"},{"key":"B8","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-10-421","article-title":"BLAST+: architecture and applications.","volume":"10","author":"Camacho","year":"2009","journal-title":"BMC Bioinformatics"},{"key":"B9","doi-asserted-by":"publisher","first-page":"3895","DOI":"10.1128\/AAC.02412-14","article-title":"In silico detection and typing of plasmids using plasmidfinder and plasmid multilocus sequence typing.","volume":"58","author":"Carattoli","year":"2014","journal-title":"Antimicrob. Agents .Chemother."},{"key":"B10","doi-asserted-by":"publisher","first-page":"1135","DOI":"10.1073\/pnas.1616248114","article-title":"Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks.","volume":"114","author":"Cerqueira","year":"2017","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B11","doi-asserted-by":"publisher","first-page":"731","DOI":"10.1038\/nchembio.1020","article-title":"The siderophore yersiniabactin binds copper to protect pathogens during infection.","volume":"8","author":"Chaturvedi","year":"2012","journal-title":"Nat. Chem. Biol."},{"key":"B12","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.00742-16","article-title":"Plasmid dynamics in KPC-positive Klebsiella pneumoniae during long-term patient colonization.","volume":"7","author":"Conlan","year":"2016","journal-title":"mBio"},{"key":"B13","doi-asserted-by":"publisher","first-page":"3386","DOI":"10.1093\/jac\/dkw337","article-title":"Molecular epidemiology of KPC-producing Klebsiella pneumoniae from invasive infections in Italy: increasing diversity with predominance of the ST512 clade II sublineage.","volume":"71","author":"Conte","year":"2016","journal-title":"J. Antimicrob. Chemother."},{"key":"B14","doi-asserted-by":"publisher","DOI":"10.1186\/s12866-015-0597-z","article-title":"Molecular epidemiology of carbapenem resistant Enterobacteriaceae in Valle d\u2019Aosta region, Italy, shows the emergence of KPC-2 producing Klebsiella pneumoniae clonal complex 101 (ST101 and ST1789).","volume":"15","author":"Del Franco","year":"2015","journal-title":"BMC Microbiol."},{"key":"B15","doi-asserted-by":"publisher","first-page":"2478","DOI":"10.1093\/nar\/30.11.2478","article-title":"Fast algorithms for large-scale genome alignment and comparison.","volume":"30","author":"Delcher","year":"2002","journal-title":"Nucleic Acids Res."},{"key":"B16","doi-asserted-by":"publisher","first-page":"4178","DOI":"10.1128\/JCM.43.8.4178-4182.2005","article-title":"Multilocus sequence typing of Klebsiella pneumoniae nosocomial isolates.","volume":"43","author":"Diancourt","year":"2005","journal-title":"J. Clin. Microbiol."},{"key":"B17","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1004041","article-title":"ClonalFrameML: efficient inference of recombination in whole bacterial genomes.","volume":"11","author":"Didelot","year":"2015","journal-title":"PLoS Comput. Biol."},{"key":"B18","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000094","article-title":"Genome-scale rates of evolutionary change in bacteria.","volume":"2","author":"Duch\u00eane","year":"2016","journal-title":"Microbial. Genom."},{"key":"B19","doi-asserted-by":"publisher","first-page":"1792","DOI":"10.1093\/nar\/gkh340","article-title":"MUSCLE: multiple sequence alignment with high accuracy and high throughput.","volume":"32","author":"Edgar","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"B20","doi-asserted-by":"publisher","first-page":"209","DOI":"10.1016\/j.patbio.2012.10.004","article-title":"Virulence profiles and antibiotic susceptibility patterns of Klebsiella pneumoniae strains isolated from different clinical specimens.","volume":"61","author":"El Fertas-Aissani","year":"2013","journal-title":"Pathol. Biol."},{"key":"B21","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2018.01463","article-title":"Molecular epidemiology and virulence profiles of colistin-resistant Klebsiella pneumoniae blood isolates from the hospital agency \u201cOspedale dei Colli,\u201d Naples, Italy.","volume":"9","author":"Esposito","year":"2018","journal-title":"Front. Microbiol."},{"key":"B22","year":"2016","journal-title":"Breakpoint Tables for Interpretation of MICs and Zone Diameters"},{"key":"B23","doi-asserted-by":"publisher","first-page":"417","DOI":"10.1111\/j.1096-0031.1989.tb00573.x","article-title":"THE RETENTION INDEX AND THE RESCALED CONSISTENCY INDEX.","volume":"5","author":"Farris","year":"1989","journal-title":"Cladistics"},{"key":"B24","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2017.02261","article-title":"Double-serine fluoroquinolone resistance mutations advance major international clones and lineages of various multi-drug resistant bacteria.","volume":"8","author":"Fuzi","year":"2017","journal-title":"Front. Microbiol."},{"key":"B25","doi-asserted-by":"publisher","first-page":"389","DOI":"10.1128\/AAC.04224-14","article-title":"Genomic epidemiology of Klebsiella pneumoniae in Italy and novel insights into the origin and global evolution of its resistance to carbapenem antibiotics.","volume":"59","author":"Gaiarsa","year":"2015","journal-title":"Antimicrob. Agents Chemother."},{"key":"B26","doi-asserted-by":"crossref","DOI":"10.2807\/ese.18.22.20489-en","article-title":"Epidemic diffusion of KPC carbapenemase-producing Klebsiella pneumoniae in Italy: results of the first countrywide survey, 15 May to 30 June 2011.","volume":"18","author":"Giani","year":"2013","journal-title":"Eur. Surveill."},{"key":"B27","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.meegid.2017.10.011","article-title":"Spread of multidrug-resistant high-risk Klebsiella pneumoniae clones in a tertiary hospital from southern Brazil.","volume":"56","author":"Gon\u00e7alves","year":"2017","journal-title":"Infect. Genet. Evol."},{"key":"B28","doi-asserted-by":"publisher","first-page":"153","DOI":"10.1016\/S1473-3099(16)30257-2","article-title":"Occurrence of carbapenemase-producing Klebsiella pneumoniae and Escherichia coli in the European survey of carbapenemase-producing Enterobacteriaceae (EuSCAPE): a prospective, multinational study.","volume":"17","author":"Grundmann","year":"2017","journal-title":"Lancet Infect. Dis."},{"key":"B29","doi-asserted-by":"publisher","first-page":"37","DOI":"10.1016\/S1473-3099(17)30489-9","article-title":"A fatal outbreak of ST11 carbapenem-resistant hypervirulent Klebsiella pneumoniae in a Chinese hospital: a molecular epidemiological study.","volume":"18","author":"Gu","year":"2018","journal-title":"Lancet. Infect. Dis."},{"key":"B30","doi-asserted-by":"publisher","first-page":"167","DOI":"10.1099\/mic.0.2007\/011981-0","article-title":"The ferric yersiniabactin uptake receptor FyuA is required for efficient biofilm formation by urinary tract infectious Escherichia coli in human urine.","volume":"154","author":"Hancock","year":"2008","journal-title":"Microbiology"},{"key":"B31","doi-asserted-by":"publisher","first-page":"397","DOI":"10.1046\/j.1469-0691.2002.00411.x","article-title":"Klebsiella typing: pulsed-field gel electrophoresis (PFGE) in comparison with O:K-serotyping.","volume":"8","author":"Hansen","year":"2002","journal-title":"Clin. Microbiol. Infect."},{"key":"B32","doi-asserted-by":"publisher","first-page":"E3574","DOI":"10.1073\/pnas.1501049112","article-title":"Genomic analysis of diversity, population structure, virulence, and antimicrobial resistance in Klebsiella pneumoniae, an urgent threat to public health.","volume":"112","author":"Holt","year":"2015","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B33","doi-asserted-by":"publisher","first-page":"1717","DOI":"10.1086\/588383","article-title":"Serum-induced iron-acquisition systems and TonB contribute to virulence in Klebsiella pneumoniae causing primary pyogenic liver abscess.","volume":"197","author":"Hsieh","year":"2008","journal-title":"J. Infect. Dis."},{"key":"B34","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-015-0849-0","article-title":"Circlator: automated circularization of genome assemblies using long sequencing reads.","volume":"16","author":"Hunt","year":"2015","journal-title":"Genome Biol."},{"key":"B35","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-11-119","article-title":"Prodigal: prokaryotic gene recognition and translation initiation site identification.","volume":"11","author":"Hyatt","year":"2010","journal-title":"BMC Bioinformatics"},{"key":"B36","doi-asserted-by":"publisher","first-page":"656","DOI":"10.1101\/gr.229202","article-title":"BLAT\u2014The blast-like alignment tool.","volume":"12","author":"Kent","year":"2002","journal-title":"Genome Res."},{"key":"B37","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0176334","article-title":"shinyheatmap: ultra fast low memory heatmap web interface for big data genomics.","volume":"12","author":"Khomtchouk","year":"2017","journal-title":"PLoS One"},{"key":"B38","doi-asserted-by":"crossref","DOI":"10.4161\/bact.27943","article-title":"Applying the ResFinder and VirulenceFinder web-services for easy identification of acquired antibiotic resistance and E. coli virulence genes in bacteriophage and prophage nucleotide sequences.","volume":"4","author":"Kleinheinz","year":"2014","journal-title":"Bacteriophage"},{"key":"B39","doi-asserted-by":"publisher","first-page":"1870","DOI":"10.1093\/molbev\/msw054","article-title":"MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets.","volume":"33","author":"Kumar","year":"2016","journal-title":"Mol. Biol. Evol."},{"key":"B40","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000196","article-title":"Genetic diversity, mobilisation and spread of the yersiniabactin-encoding mobile element ICEKp in Klebsiella pneumoniae populations.","volume":"4","author":"Lam","year":"2018","journal-title":"Microb. Genom."},{"key":"B41","doi-asserted-by":"publisher","first-page":"119","DOI":"10.1111\/j.1461-0248.2011.01717.x","article-title":"An evolutionary mechanism for diversity in siderophore-producing bacteria.","volume":"15","author":"Lee","year":"2012","journal-title":"Ecol. Lett."},{"key":"B42","doi-asserted-by":"publisher","first-page":"S28","DOI":"10.1093\/infdis\/jiw282","article-title":"The epidemiology of carbapenem-resistant Enterobacteriaceae: the impact and evolution of a global menace.","volume":"215","author":"Logan","year":"2017","journal-title":"J. Infect. Dis."},{"key":"B43","doi-asserted-by":"publisher","first-page":"117","DOI":"10.1086\/430619","article-title":"Genomic heterogeneity in Klebsiella pneumoniae strains is associated with primary pyogenic liver abscess and metastatic infection.","volume":"192","author":"Ma","year":"2005","journal-title":"J. Infect. Dis."},{"key":"B44","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1000541","article-title":"Interplay in the selection of fluoroquinolone resistance and bacterial fitness.","volume":"5","author":"Marcusson","year":"2009","journal-title":"PLoS Pathog."},{"key":"B45","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.cimid.2004.03.001","article-title":"Virulence characteristics of Escherichia coli isolates obtained from broiler breeders with salpingitis.","volume":"28","author":"Monroy","year":"2005","journal-title":"Comp. Immunol. Microbiol. Infect. Dis."},{"key":"B46","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.01976-16","article-title":"Evolution and epidemiology of multidrug-resistant Klebsiella pneumoniae in the United Kingdom and Ireland.","volume":"8","author":"Moradigaravand","year":"2017","journal-title":"mBio"},{"key":"B47","doi-asserted-by":"publisher","first-page":"80","DOI":"10.1111\/2041-210X.12466","article-title":"The effect of genetic structure on molecular dating and tests for temporal signal.","volume":"7","author":"Murray","year":"2016","journal-title":"Methods Ecol. Evol."},{"key":"B48","doi-asserted-by":"publisher","first-page":"268","DOI":"10.1093\/molbev\/msu300","article-title":"IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies.","volume":"32","author":"Nguyen","year":"2015","journal-title":"Mol. Biol. Evol."},{"key":"B49","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-016-0997-x","article-title":"Mash: fast genome and metagenome distance estimation using MinHash.","volume":"17","author":"Ondov","year":"2016","journal-title":"Genome Biol."},{"key":"B50","doi-asserted-by":"publisher","first-page":"3392","DOI":"10.1093\/jac\/dkw321","article-title":"The spread of KPC-producing Enterobacteriaceae in Spain: WGS analysis of the emerging high-risk clones of Klebsiella pneumoniae ST11\/KPC-2, ST101\/KPC-2 and ST512\/KPC-3.","volume":"71","author":"Oteo","year":"2016","journal-title":"J. Antimicrob. Chemother."},{"key":"B51","doi-asserted-by":"publisher","first-page":"2824","DOI":"10.1093\/jac\/dkw227","article-title":"Characterization of KPC-encoding plasmids from two endemic settings, Greece and Italy.","volume":"71","author":"Papagiannitsis","year":"2016","journal-title":"J. Antimicrob. Chemother."},{"key":"B52","doi-asserted-by":"publisher","first-page":"5873","DOI":"10.1128\/AAC.01019-15","article-title":"Carbapenemase-producing Klebsiella pneumoniae, a key pathogen set for global nosocomial dominance.","volume":"59","author":"Pitout","year":"2015","journal-title":"Antimicrob. Agents Chemother."},{"key":"B53","doi-asserted-by":"publisher","first-page":"559","DOI":"10.1086\/519795","article-title":"PLINK: a tool set for whole-genome association and population-based linkage analyses.","volume":"81","author":"Purcell","year":"2007","journal-title":"Am. J. Hum. Genet."},{"key":"B54","doi-asserted-by":"publisher","first-page":"573","DOI":"10.1534\/genetics.114.164350","article-title":"fastSTRUCTURE: variational inference of population structure in large SNP data sets.","volume":"197","author":"Raj","year":"2014","journal-title":"Genetics"},{"key":"B55","doi-asserted-by":"publisher","DOI":"10.1093\/ve\/vew007","article-title":"Exploring the temporal structure of heterochronous sequences using tempest (formerly Path-O-Gen).","volume":"2","author":"Rambaut","year":"2016","journal-title":"Virus Evol."},{"key":"B56","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-6-2","article-title":"Visualization of comparative genomic analyses by BLAST score ratio.","volume":"6","author":"Rasko","year":"2005","journal-title":"BMC Bioinformatics"},{"key":"B57","doi-asserted-by":"publisher","DOI":"10.7717\/peerj.2584","article-title":"VSEARCH: a versatile open source tool for metagenomics.","volume":"4","author":"Rognes","year":"2016","journal-title":"PeerJ"},{"key":"B58","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0026734","article-title":"Hypervirulent K. Pneumoniae secretes more and more active iron-acquisition molecules than \u201cClassical\u201d K. Pneumoniae thereby enhancing its virulence.","volume":"6","author":"Russo","year":"2011","journal-title":"PLoS One"},{"key":"B59","doi-asserted-by":"publisher","DOI":"10.7717\/peerj.332","article-title":"The large-scale blast score ratio (LS-BSR) pipeline: a method to rapidly compare genetic content between bacterial genomes.","volume":"2","author":"Sahl","year":"2014","journal-title":"PeerJ"},{"key":"B60","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000074","article-title":"NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats.","volume":"2","author":"Sahl","year":"2016","journal-title":"Microbi. Genom."},{"key":"B61","doi-asserted-by":"crossref","first-page":"879","DOI":"10.1093\/genetics\/156.2.879","article-title":"Consequences of recombination on traditional phylogenetic analysis.","volume":"156","author":"Schierup","year":"2000","journal-title":"Genetics"},{"key":"B62","doi-asserted-by":"publisher","first-page":"592","DOI":"10.1093\/bioinformatics\/btq706","article-title":"phangorn: phylogenetic analysis in R.","volume":"27","author":"Schliep","year":"2011","journal-title":"Bioinformatics"},{"key":"B63","doi-asserted-by":"publisher","first-page":"837","DOI":"10.1046\/j.1365-2958.2003.03870.x","article-title":"A novel integrative and conjugative element (ICE) of Escherichia coli: the putative progenitor of the Yersinia high-pathogenicity island.","volume":"51","author":"Schubert","year":"2004","journal-title":"Mol. Microbiol."},{"key":"B64","doi-asserted-by":"crossref","first-page":"480","DOI":"10.1128\/IAI.66.2.480-485.1998","article-title":"Prevalence of the "high-pathogenicity island" of Yersinia species among Escherichia coli strains that are pathogenic to humans.","volume":"66","author":"Schubert","year":"1998","journal-title":"Infect. Immun."},{"key":"B65","doi-asserted-by":"publisher","first-page":"2068","DOI":"10.1093\/bioinformatics\/btu153","article-title":"Prokka: rapid prokaryotic genome annotation.","volume":"30","author":"Seemann","year":"2014","journal-title":"Bioinformatics"},{"key":"B66","doi-asserted-by":"publisher","first-page":"107","DOI":"10.4161\/viru.22718","article-title":"Hypervirulent (hypermucoviscous) Klebsiella pneumoniae: a new and dangerous breed.","volume":"4","author":"Shon","year":"2013","journal-title":"Virulence"},{"key":"B67","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.01889-16","article-title":"Molecular characterization of OXA-48-like-producing Enterobacteriaceae in the Czech Republic: evidence for horizontal transfer of pOXA-48-like plasmids.","volume":"61","author":"Sk\u00e1lov\u00e1","year":"2016","journal-title":"Antimicrob. Agents Chemother."},{"key":"B68","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0164504","article-title":"More than 50% of Clostridium difficile isolates from pet dogs in flagstaff, USA, carry toxigenic genotypes.","volume":"11","author":"Stone","year":"2016","journal-title":"PLoS One"},{"key":"B69","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.00630-15","article-title":"Mapping the evolution of hypervirulent Klebsiella pneumoniae.","volume":"6","author":"Struve","year":"2015","journal-title":"mBio"},{"key":"B70","doi-asserted-by":"publisher","first-page":"4673","DOI":"10.1093\/nar\/22.22.4673","article-title":"CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.","volume":"22","author":"Thompson","year":"1994","journal-title":"Nucleic Acids Res."},{"key":"B71","doi-asserted-by":"publisher","first-page":"837","DOI":"10.1007\/s10096-013-2022-6","article-title":"Fitness cost associated with resistance to fluoroquinolones is diverse across clones of Klebsiella pneumoniae and may select for CTX-M-15 type extended-spectrum beta-lactamase.","volume":"33","author":"Toth","year":"2014","journal-title":"Eur. J. Clin. Microbiol. Infect. Dis."},{"key":"B72","first-page":"277","article-title":"The antibiotic resistance crisis: part causes and threats.","volume":"40","author":"Ventola","year":"2015","journal-title":"P T"},{"key":"B73","doi-asserted-by":"publisher","first-page":"1308","DOI":"10.1099\/jmm.0.2008\/003798-0","article-title":"Comparison of PFGE and multilocus sequence typing for analysis of Klebsiella pneumoniae isolates.","volume":"57","author":"Vimont","year":"2008","journal-title":"J. Med. Microbiol."},{"key":"B74","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0112963","article-title":"Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement.","volume":"9","author":"Walker","year":"2014","journal-title":"PLoS One"},{"key":"B75","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.00197-18","article-title":"Kaptive web: user-friendly capsule and lipopolysaccharide serotype prediction for Klebsiella Genomes.","volume":"56","author":"Wick","year":"2018","journal-title":"J. Clin. Microbiol."},{"key":"B76","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1005595","article-title":"Unicycler: resolving bacterial genome assemblies from short and long sequencing reads.","volume":"13","author":"Wick","year":"2017","journal-title":"PLoS Comput. Biol."},{"key":"B77","doi-asserted-by":"publisher","first-page":"736","DOI":"10.1111\/j.1574-6976.2011.00268.x","article-title":"Multiresistant gram-negative bacteria: the role of high-risk clones in the dissemination of antibiotic resistance.","volume":"35","author":"Woodford","year":"2011","journal-title":"FEMS Microbiol. Rev."},{"key":"B78","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000102","article-title":"Identification of Klebsiella capsule synthesis loci from whole genome data.","volume":"2","author":"Wyres","year":"2016","journal-title":"Microbial. Genom."}],"container-title":["Frontiers in Microbiology"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fmicb.2019.00542\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,9,15]],"date-time":"2022-09-15T00:48:05Z","timestamp":1663202885000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fmicb.2019.00542\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,4,2]]},"references-count":78,"alternative-id":["10.3389\/fmicb.2019.00542"],"URL":"https:\/\/doi.org\/10.3389\/fmicb.2019.00542","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,4,2]]},"article-number":"542"}}