{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,1]],"date-time":"2026-05-01T08:56:13Z","timestamp":1777625773709,"version":"3.51.4"},"reference-count":60,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[1,1,1]],"date-time":"0001-01-01T00:00:00Z","timestamp":-62135596800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["81741098"],"award-info":[{"award-number":["81741098"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["71073098"],"award-info":[{"award-number":["71073098"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"DOI":"10.3389\/fmicb.2019.02678","type":"journal-article","created":{"date-parts":[[2019,11,22]],"date-time":"2019-11-22T09:20:19Z","timestamp":1574414419000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":20,"title":["Emergence of NDM-1- and CTX-M-3-Producing Raoultella ornithinolytica in Human Gut Microbiota"],"prefix":"10.3389","volume":"10","author":[{"given":"Shuang","family":"Wang","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Liuchen","family":"Xu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiaohui","family":"Chi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yan","family":"Li","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zengqiang","family":"Kou","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Peibin","family":"Hou","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hengjie","family":"Xie","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhenwang","family":"Bi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Beiwen","family":"Zheng","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1965","published-online":{"date-parts":[[2019,11,22]]},"reference":[{"key":"ref1","doi-asserted-by":"publisher","first-page":"447","DOI":"10.1021\/bi501195g","article-title":"Molecular basis for the catalytic specificity of the CTX-M extended-spectrum beta-lactamases","volume":"54","author":"Adamski","year":"2015","journal-title":"Biochemistry"},{"key":"ref2","doi-asserted-by":"publisher","first-page":"407","DOI":"10.3389\/fmicb.2018.00407","article-title":"Occurrence of blaNDM variants among Enterobacteriaceae from a neonatal intensive care unit in a Northern India hospital","volume":"9","author":"Ahmad","year":"2018","journal-title":"Front. Microbiol."},{"key":"ref3","doi-asserted-by":"publisher","first-page":"bcr-2018-224234","DOI":"10.1136\/bcr-2018-224234","article-title":"Fat necrosis and polymicrobial wound infection caused partly by Raoultella ornithinolytica after reduction mammoplasty","author":"Ayoade","year":"2018","journal-title":"BMJ Case Rep."},{"key":"ref4","doi-asserted-by":"publisher","first-page":"9462","DOI":"10.1038\/s41598-018-27833-z","article-title":"Genomic analysis of a Raoultella ornithinolytica strain causing prosthetic joint infection in an immunocompetent patient","volume":"8","author":"Beye","year":"2018","journal-title":"Sci. Rep."},{"key":"ref5","doi-asserted-by":"publisher","first-page":"e0179651","DOI":"10.1371\/journal.pone.0179651","article-title":"Molecular and microbiological report of a hospital outbreak of NDM-1-carrying Enterobacteriaceae in Mexico","volume":"12","author":"Bocanegra-Ibarias","year":"2017","journal-title":"PLoS One"},{"key":"ref6","doi-asserted-by":"publisher","first-page":"467","DOI":"10.1016\/j.jiac.2018.12.011","article-title":"A case of Raoultella ornithinolytica urinary tract infection in a pediatric patient","volume":"25","author":"Buyukcam","year":"2019","journal-title":"J. Infect. Chemother."},{"key":"ref7","doi-asserted-by":"publisher","first-page":"110","DOI":"10.3389\/fmicb.2012.00110","article-title":"CTX-M enzymes: origin and diffusion","volume":"3","author":"Canton","year":"2012","journal-title":"Front. Microbiol."},{"key":"ref8","doi-asserted-by":"publisher","first-page":"e32","DOI":"10.1590\/S1678-9946201961032","article-title":"First report of Raoultella ornithinolytica carrying blaKPC-2 isolated from a dipteran muscoid collected in a garbage from a public hospital in Rio de Janeiro, Brazil","volume":"61","author":"Carramaschi","year":"2019","journal-title":"Rev. Inst. Med. Trop. Sao Paulo"},{"key":"ref9","doi-asserted-by":"publisher","first-page":"332","DOI":"10.1016\/j.meegid.2019.05.024","article-title":"Effect of concentration gradient carbapenem exposure on expression of blaNDM-1 and acrA in carbapenem resistant Escherichia coli","volume":"73","author":"Chetri","year":"2019","journal-title":"Infect. Genet. Evol."},{"key":"ref10","doi-asserted-by":"publisher","first-page":"211","DOI":"10.3389\/fmicb.2019.00211","article-title":"Characterization of clinically relevant strains of extended-spectrum beta-lactamase-producing Klebsiella pneumoniae occurring in environmental sources in a rural area of China by using whole-genome sequencing","volume":"10","author":"Chi","year":"2019","journal-title":"Front. Microbiol."},{"key":"ref11","volume-title":"Performance standards for antimicrobial susceptibility testing. 27th Edn. CLSI supplement M100","year":"2017"},{"key":"ref12","doi-asserted-by":"publisher","first-page":"431","DOI":"10.1016\/j.diagmicrobio.2012.12.009","article-title":"Differentiation of Raoultella ornithinolytica\/planticola and Klebsiella oxytoca clinical isolates by matrix-assisted laser desorption\/ionization-time of flight mass spectrometry","volume":"75","author":"De Jong","year":"2013","journal-title":"Diagn. Microbiol. Infect. Dis."},{"key":"ref13","doi-asserted-by":"publisher","first-page":"234","DOI":"10.1007\/s13730-018-0333-2","article-title":"Roultella ornithinolytica infection in infancy: a case of febrile urinary tract infection","volume":"7","author":"De Petris","year":"2018","journal-title":"CEN Case Rep."},{"key":"ref14","doi-asserted-by":"publisher","first-page":"e00130-19","DOI":"10.1128\/mSphere.00130-19","article-title":"Complete assembly of Escherichia coli sequence type 131 genomes using long reads demonstrates antibiotic resistance gene variation within diverse plasmid and chromosomal contexts","volume":"4","author":"Decano","year":"2019","journal-title":"mSphere"},{"key":"ref15","doi-asserted-by":"publisher","first-page":"917","DOI":"10.1016\/j.cmi.2015.05.032","article-title":"Carriage of extended-spectrum beta-lactamases in pig farmers is associated with occurrence in pigs","volume":"21","author":"Dohmen","year":"2015","journal-title":"Clin. Microbiol. Infect."},{"key":"ref16","doi-asserted-by":"publisher","first-page":"925","DOI":"10.1099\/00207713-51-3-925","article-title":"Phylogenetic analyses of Klebsiella species delineate Klebsiella and Raoultella gen. nov., with description of Raoultella ornithinolytica comb. nov., Raoultella terrigena comb. nov. and Raoultella planticola comb. nov","volume":"51","author":"Drancourt","year":"2001","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"ref17","doi-asserted-by":"publisher","first-page":"rjy097","DOI":"10.1093\/jscr\/rjy097","article-title":"Community-acquired infection to Raoultella ornithinolytica presenting as appendicitis and shock in a healthy individual","volume":"2018","author":"Hajjar","year":"2018","journal-title":"J. Surg. Case Rep."},{"key":"ref18","doi-asserted-by":"publisher","first-page":"e1001","DOI":"10.1016\/j.cmi.2015.06.016","article-title":"Dissemination of the multidrug-resistant extended-spectrum beta-lactamase-producing Escherichia coli O25b-ST131 clone and the role of house crow (Corvus splendens) foraging on hospital waste in Bangladesh","volume":"21","author":"Hasan","year":"2015","journal-title":"Clin. Microbiol. Infect."},{"key":"ref19","doi-asserted-by":"publisher","first-page":"6084","DOI":"10.1128\/AAC.00917-16","article-title":"Comparative characterization of CTX-M-64 and CTX-M-14 provides insights into the structure and catalytic activity of the CTX-M class of enzymes","volume":"60","author":"He","year":"2016","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref20","doi-asserted-by":"publisher","first-page":"e01238-18","DOI":"10.1128\/AAC.01238-18","article-title":"First report of an OXA-48- and CTX-M-213-producing Kluyvera species clone recovered from patients admitted in a University Hospital in Madrid, Spain","volume":"62","author":"Hernandez-Garcia","year":"2018","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref21","doi-asserted-by":"publisher","first-page":"1190","DOI":"10.3389\/fmicb.2016.01190","article-title":"Outbreak by ventilator-associated ST11 K. pneumoniae with co-production of CTX-M-24 and KPC-2 in a SICU of a tertiary teaching hospital in Central China","volume":"7","author":"Hu","year":"2016","journal-title":"Front. Microbiol."},{"key":"ref22","doi-asserted-by":"publisher","first-page":"5549","DOI":"10.1128\/JB.05617-11","article-title":"Whole-genome sequence of a multidrug-resistant clinical isolate of Acinetobacter lwoffii","volume":"193","author":"Hu","year":"2011","journal-title":"J. Bacteriol."},{"key":"ref23","doi-asserted-by":"publisher","first-page":"180222","DOI":"10.1038\/sdata.2018.222","article-title":"Complete genome sequencing of Comamonas kerstersii 8943, a causative agent for peritonitis","volume":"5","author":"Jiang","year":"2018","journal-title":"Sci. Data"},{"key":"ref24","doi-asserted-by":"publisher","first-page":"1092","DOI":"10.1128\/AAC.02147-12","article-title":"First report of blaNDM-1 in Raoultella ornithinolytica","volume":"57","author":"Khajuria","year":"2013","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref25","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1186\/s12866-017-1012-8","article-title":"Structure, genetics and worldwide spread of New Delhi metallo-beta-lactamase (NDM): a threat to public health","volume":"17","author":"Khan","year":"2017","journal-title":"BMC Microbiol."},{"key":"ref26","doi-asserted-by":"publisher","first-page":"2631","DOI":"10.1093\/jac\/dks295","article-title":"High prevalence of extended-spectrum-beta-lactamase-producing Enterobacteriaceae in organic and conventional retail chicken meat, Germany","volume":"67","author":"Kola","year":"2012","journal-title":"J. Antimicrob. Chemother."},{"key":"ref27","doi-asserted-by":"publisher","first-page":"597","DOI":"10.1016\/S1473-3099(10)70143-2","article-title":"Emergence of a new antibiotic resistance mechanism in India, Pakistan, and the UK: a molecular, biological, and epidemiological study","volume":"10","author":"Kumarasamy","year":"2010","journal-title":"Lancet Infect. Dis."},{"key":"ref28","doi-asserted-by":"publisher","first-page":"774","DOI":"10.1007\/s12010-011-9466-x","article-title":"Identification and molecular characterization of a novel DyP-type peroxidase from Pseudomonas aeruginosa PKE117","volume":"166","author":"Li","year":"2012","journal-title":"Appl. Biochem. Biotechnol."},{"key":"ref29","doi-asserted-by":"publisher","first-page":"e01139-17","DOI":"10.1128\/AAC.01139-17","article-title":"Emergence of mcr-1 in Raoultella ornithinolytica and Escherichia coli isolates from retail vegetables in China","volume":"61","author":"Luo","year":"2017","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref30","doi-asserted-by":"publisher","first-page":"268","DOI":"10.1111\/j.1469-0691.2011.03570.x","article-title":"Multidrug-resistant, extensively drug-resistant and pandrug-resistant bacteria: an international expert proposal for interim standard definitions for acquired resistance","volume":"18","author":"Magiorakos","year":"2012","journal-title":"Clin. Microbiol. Infect."},{"key":"ref31","doi-asserted-by":"publisher","first-page":"3341","DOI":"10.3389\/fmicb.2018.03341","article-title":"Genetic diversity of carbapenem-resistant Enterobacteriaceae (CRE) clinical isolates from a tertiary hospital in Eastern China","volume":"9","author":"Miao","year":"2018","journal-title":"Front. Microbiol."},{"key":"ref32","doi-asserted-by":"publisher","first-page":"3691","DOI":"10.1093\/bioinformatics\/btv421","article-title":"Roary: rapid large-scale prokaryote pan genome analysis","volume":"31","author":"Page","year":"2015","journal-title":"Bioinformatics"},{"key":"ref33","doi-asserted-by":"publisher","first-page":"1549","DOI":"10.3389\/fmicb.2018.01549","article-title":"Characterization of NDM-encoding plasmids from Enterobacteriaceae recovered from Czech hospitals","volume":"9","author":"Paskova","year":"2018","journal-title":"Front. Microbiol."},{"key":"ref34","doi-asserted-by":"publisher","first-page":"5403","DOI":"10.1128\/AAC.00585-11","article-title":"Genetic features of blaNDM-1-positive Enterobacteriaceae","volume":"55","author":"Poirel","year":"2011","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref35","doi-asserted-by":"publisher","first-page":"1641","DOI":"10.1093\/molbev\/msp077","article-title":"FastTree: computing large minimum evolution trees with profiles instead of a distance matrix","volume":"26","author":"Price","year":"2009","journal-title":"Mol. Biol. Evol."},{"key":"ref36","doi-asserted-by":"publisher","first-page":"378","DOI":"10.1016\/j.diagmicrobio.2014.04.003","article-title":"NDM-1-producing Enterobacteriaceae from South Africa: moving towards endemicity?","volume":"79","author":"Rubin","year":"2014","journal-title":"Diagn. Microbiol. Infect. Dis."},{"key":"ref37","doi-asserted-by":"publisher","first-page":"e147","DOI":"10.5546\/aap.2019.e147","article-title":"Leclercia adecarboxylata and Raoultella ornithinolytica catheter-related infection in a child with mitocondrial disease","volume":"117","author":"Sanchez-Codez","year":"2019","journal-title":"Arch. Argent. Pediatr."},{"key":"ref38","doi-asserted-by":"publisher","first-page":"493","DOI":"10.1007\/s12223-015-0390-2","article-title":"Catheter-related blood stream infection caused by Raoultella ornithinolytica","volume":"60","author":"Sekowska","year":"2015","journal-title":"Folia Microbiol."},{"key":"ref39","doi-asserted-by":"publisher","first-page":"65","DOI":"10.1016\/j.ijid.2016.02.014","article-title":"Emerging role of Raoultella ornithinolytica in human infections: a series of cases and review of the literature","volume":"45","author":"Seng","year":"2016","journal-title":"Int. J. Infect. Dis."},{"key":"ref40","doi-asserted-by":"publisher","first-page":"1085","DOI":"10.1099\/jmm.0.000535","article-title":"In vitro efficacy of 16 antimicrobial drugs against a large collection of beta-lactamase-producing isolates of extraintestinal pathogenic Escherichia coli from dogs and cats","volume":"66","author":"Shimizu","year":"2017","journal-title":"J. Med. Microbiol."},{"key":"ref41","doi-asserted-by":"publisher","first-page":"914","DOI":"10.4103\/njcp.njcp_337_16","article-title":"ENT infection caused by Raoultella ornithinolytica","volume":"20","author":"Singh","year":"2017","journal-title":"Niger. J. Clin. Pract."},{"key":"ref42","doi-asserted-by":"publisher","first-page":"1312","DOI":"10.1093\/bioinformatics\/btu033","article-title":"RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies","volume":"30","author":"Stamatakis","year":"2014","journal-title":"Bioinformatics"},{"key":"ref43","doi-asserted-by":"publisher","first-page":"e017832","DOI":"10.1136\/bmjopen-2017-017832","article-title":"Study protocol for one health data collections, analyses and intervention of the Sino-Swedish integrated multisectoral partnership for antibiotic resistance containment (IMPACT)","volume":"8","author":"Sun","year":"2018","journal-title":"BMJ Open"},{"key":"ref44","doi-asserted-by":"publisher","first-page":"565","DOI":"10.1186\/s12879-019-4147-4","article-title":"Assessment of a newly developed immunochromatographic assay for NDM-type metallo-beta-lactamase producing Gram-negative pathogens in Myanmar","volume":"19","author":"Tada","year":"2019","journal-title":"BMC Infect. Dis."},{"key":"ref45","doi-asserted-by":"publisher","first-page":"135","DOI":"10.1016\/j.rmcr.2018.05.006","article-title":"Ventilator associated pneumonia caused by Raoultella ornithinolytica in two immunocompetent trauma patients","volume":"24","author":"Van Cleve","year":"2018","journal-title":"Respir. Med. Case Rep."},{"key":"ref46","doi-asserted-by":"publisher","first-page":"8486742","DOI":"10.1155\/2017\/8486742","article-title":"Molecular characteristics and antibiotic resistance profiles of Klebsiella isolates in Mthatha, Eastern Cape Province, South Africa","volume":"2017","author":"Vasaikar","year":"2017","journal-title":"Int. J. Microbiol."},{"key":"ref47","doi-asserted-by":"publisher","first-page":"122","DOI":"10.1038\/s41426-018-0124-z","article-title":"Emergence of a novel mobile colistin resistance gene, mcr-8, in NDM-producing Klebsiella pneumoniae","volume":"7","author":"Wang","year":"2018","journal-title":"Emerg. Microbes Infect."},{"key":"ref48","doi-asserted-by":"publisher","first-page":"228","DOI":"10.3389\/fmicb.2019.00228","article-title":"Emergence of colistin resistance gene mcr-8 and its variant in Raoultella ornithinolytica","volume":"10","author":"Wang","year":"2019","journal-title":"Front. Microbiol."},{"key":"ref49","doi-asserted-by":"publisher","first-page":"e0121668","DOI":"10.1371\/journal.pone.0146050","article-title":"Carbapenem-nonsusceptible Enterobacteriaceae in Taiwan","volume":"10","author":"Wang","year":"2015","journal-title":"PLoS One"},{"key":"ref50","doi-asserted-by":"publisher","first-page":"e100707","DOI":"10.1371\/journal.pone.0100707","article-title":"Dominance of CTX-M-type extended-spectrum beta-lactamase (ESBL)-producing Escherichia coli isolated from patients with community-onset and hospital-onset infection in China","volume":"9","author":"Xia","year":"2014","journal-title":"PLoS One"},{"key":"ref51","doi-asserted-by":"publisher","first-page":"5046","DOI":"10.1128\/AAC.00774-09","article-title":"Characterization of a new metallo-beta-lactamase gene, bla(NDM-1), and a novel erythromycin esterase gene carried on a unique genetic structure in Klebsiella pneumoniae sequence type 14 from India","volume":"53","author":"Yong","year":"2009","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref52","doi-asserted-by":"publisher","first-page":"571","DOI":"10.3389\/fmicb.2018.00571","article-title":"New Delhi metallo-beta-lactamase-producing Enterobacteriaceae in South Korea between 2010 and 2015","volume":"9","author":"Yoon","year":"2018","journal-title":"Front. Microbiol."},{"key":"ref53","doi-asserted-by":"publisher","first-page":"1098","DOI":"10.1128\/AAC.46.4.1098-1100.2002","article-title":"First description of Klebsiella pneumoniae harboring CTX-M beta-lactamases (CTX-M-14 and CTX-M-3) in Taiwan","volume":"46","author":"Yu","year":"2002","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref54","doi-asserted-by":"publisher","first-page":"1207","DOI":"10.1007\/s00203-019-01686-0","article-title":"Isolation and identification of the Raoultella ornithinolytica-ZK4 degrading pyrethroid pesticides within soil sediment from an abandoned pesticide plant","volume":"201","author":"Zhang","year":"2019","journal-title":"Arch. Microbiol."},{"key":"ref55","doi-asserted-by":"publisher","first-page":"1830","DOI":"10.3389\/fmicb.2016.01830","article-title":"High prevalence of ESBL-producing Klebsiella pneumoniae causing community-onset infections in China","volume":"7","author":"Zhang","year":"2016","journal-title":"Front. Microbiol."},{"key":"ref56","doi-asserted-by":"publisher","first-page":"273","DOI":"10.1016\/j.ijantimicag.2017.09.005","article-title":"Discovery and characterisation of an Escherichia coli ST206 strain producing NDM-5 and MCR-1 from a patient with acute diarrhoea in China","volume":"51","author":"Zheng","year":"2018","journal-title":"Int. J. Antimicrob. Agents"},{"key":"ref57","doi-asserted-by":"publisher","first-page":"7086","DOI":"10.1128\/AAC.01363-15","article-title":"Emergence of Raoultella ornithinolytica coproducing IMP-4 and KPC-2 carbapenemases in China","volume":"59","author":"Zheng","year":"2015","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref58","doi-asserted-by":"publisher","DOI":"10.3201\/eid2002.121263","article-title":"NDM-1-producing strains, family Enterobacteriaceae, in hospital, Beijing, China","volume":"20","author":"Zhou","year":"2013","journal-title":"Emerg. Infect. Dis."},{"key":"ref59","doi-asserted-by":"publisher","first-page":"340","DOI":"10.3201\/eid2002.121263","article-title":"NDM-1-producing strains, family Enterobacteriaceae, in hospital, Beijing, China","volume":"20","author":"Zhou","year":"2014","journal-title":"Emerg. Infect. Dis."},{"key":"ref60","doi-asserted-by":"publisher","first-page":"833","DOI":"10.3389\/fmicb.2019.00833","article-title":"Piperacillin-tazobactam (TZP) resistance in Escherichia coli due to hyperproduction of TEM-1 beta-lactamase mediated by the promoter Pa\/Pb","volume":"10","author":"Zhou","year":"2019","journal-title":"Front. Microbiol."}],"container-title":["Frontiers in Microbiology"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fmicb.2019.02678\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,11,22]],"date-time":"2019-11-22T09:20:22Z","timestamp":1574414422000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fmicb.2019.02678\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,11,22]]},"references-count":60,"alternative-id":["10.3389\/fmicb.2019.02678"],"URL":"https:\/\/doi.org\/10.3389\/fmicb.2019.02678","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,11,22]]},"article-number":"2678"}}