{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,27]],"date-time":"2026-09-27T22:49:20Z","timestamp":1790549360710,"version":"4.1.0"},"reference-count":37,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2020,10,7]],"date-time":"2020-10-07T00:00:00Z","timestamp":1602028800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Objectives<\/jats:title><jats:p>Carbapenemase-producing Enterobacterales (CPE) are increasingly recognized in nosocomial infections, also affecting ICU patients. We aimed to characterize the carbapenemase-producing Serratia marcescens (CPSm) isolates recovered in our hospital in Madrid (Spain) between March 2016 and December 2018.<\/jats:p><\/jats:sec><jats:sec><jats:title>Methods<\/jats:title><jats:p>Overall, 50 isolates from clinical and epidemiological surveillance samples were recovered from 24 patients admitted to the medical ICU and 10 non-ICU-related patients based on their phenotypic resistance. Carbapenemase characterization, antibiotic susceptibility, PFGE clonal relatedness, plasmid characterization, WGS (Illumina-NovaSeq 6000) and phylogenetic analysis were performed.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>A single isolate was finally considered for each patient, except for Patient 8 that was colonized by two different isolates (n\u2009=\u200935). Isolates were characterized as VIM-1 (n\u2009=\u200929) or OXA-48 producers (n\u2009=\u20096). Up to seven genetic lineages were found by PFGE, with dominance of two clones. Plasmid characterization confirmed that almost all CPSm carried the same \u223c60\u2009kb IncL OXA-48- or VIM-1-encoding plasmid, which was related to the globally disseminated IncL-pOXA-48a. WGS allowed plasmid reconstruction with two variants: IncL-pVIM-1 (\u223c65\u2009kb) and IncL-pOXA-48 (\u223c62\u2009kb). blaOXA-48\u2013Tn1999 (\u223c5\u2009kb) was the unique antibiotic resistance gene in pOXA-48, whereas pVIM-1 plasmids (\u223c8\u2009kb) harboured a class 1 integron containing 5\u2032-blaVIM-1+aacA4+dfrB1+aadA1+catB2+qacEDelta1+sul1-3\u2032.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusions<\/jats:title><jats:p>Our results confirm the dissemination of CPSm within our institution in both ICU and non-ICU environments, representing two prevalent CPSm clones, and the same IncL-pOXA-48 plasmid previously described in other Enterobacterales, but containing the blaVIM-1 gene. This also reinforces the relevance of species different from Klebsiella pneumoniae or Escherichia coli in the CPE landscape and circulating lineages and plasmids in local CPE epidemiology.<\/jats:p><\/jats:sec>","DOI":"10.1093\/jac\/dkaa398","type":"journal-article","created":{"date-parts":[[2020,9,8]],"date-time":"2020-09-08T19:10:43Z","timestamp":1599592243000},"page":"110-116","source":"Crossref","is-referenced-by-count":32,"title":["Characterization of carbapenemase-producing<i>Serratia marcescens<\/i>and whole-genome sequencing for plasmid typing in a hospital in Madrid, Spain (2016\u201318)"],"prefix":"10.1093","volume":"76","author":[{"given":"Blanca","family":"P\u00e9rez-Viso","sequence":"first","affiliation":[{"name":"Servicio de Microbiolog\u00eda, Hospital Universitario Ram\u00f3n y Cajal and Instituto Ram\u00f3n y Cajal de Investigaci\u00f3n Sanitaria (IRYCIS), Madrid, Spain"},{"name":"Red Espa\u00f1ola de Investigaci\u00f3n en Patolog\u00eda Infecciosa (REIPI), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2857-2572","authenticated-orcid":false,"given":"Marta","family":"Hern\u00e1ndez-Garc\u00eda","sequence":"additional","affiliation":[{"name":"Servicio de Microbiolog\u00eda, Hospital Universitario Ram\u00f3n y Cajal and Instituto Ram\u00f3n y Cajal de Investigaci\u00f3n Sanitaria (IRYCIS), Madrid, Spain"},{"name":"Red Espa\u00f1ola de Investigaci\u00f3n en Patolog\u00eda Infecciosa (REIPI), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Manuel","family":"Ponce-Alonso","sequence":"additional","affiliation":[{"name":"Servicio de Microbiolog\u00eda, Hospital Universitario Ram\u00f3n y Cajal and Instituto Ram\u00f3n y Cajal de Investigaci\u00f3n Sanitaria (IRYCIS), Madrid, Spain"},{"name":"Red Espa\u00f1ola de Investigaci\u00f3n en Patolog\u00eda Infecciosa (REIPI), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mar\u00eda Isabel","family":"Morosini","sequence":"additional","affiliation":[{"name":"Servicio de Microbiolog\u00eda, Hospital Universitario Ram\u00f3n y Cajal and Instituto Ram\u00f3n y Cajal de Investigaci\u00f3n Sanitaria (IRYCIS), Madrid, Spain"},{"name":"Red Espa\u00f1ola de Investigaci\u00f3n en Patolog\u00eda Infecciosa (REIPI), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Patricia","family":"Ruiz-Garbajosa","sequence":"additional","affiliation":[{"name":"Servicio de Microbiolog\u00eda, Hospital Universitario Ram\u00f3n y Cajal and Instituto Ram\u00f3n y Cajal de Investigaci\u00f3n Sanitaria (IRYCIS), Madrid, Spain"},{"name":"Red Espa\u00f1ola de Investigaci\u00f3n en Patolog\u00eda Infecciosa (REIPI), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1147-7923","authenticated-orcid":false,"given":"Rosa","family":"del Campo","sequence":"additional","affiliation":[{"name":"Servicio de Microbiolog\u00eda, Hospital Universitario Ram\u00f3n y Cajal and Instituto Ram\u00f3n y Cajal de Investigaci\u00f3n Sanitaria (IRYCIS), Madrid, Spain"},{"name":"Red Espa\u00f1ola de Investigaci\u00f3n en Patolog\u00eda Infecciosa (REIPI), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1675-3173","authenticated-orcid":false,"given":"Rafael","family":"Cant\u00f3n","sequence":"additional","affiliation":[{"name":"Servicio de Microbiolog\u00eda, Hospital Universitario Ram\u00f3n y Cajal and Instituto Ram\u00f3n y Cajal de Investigaci\u00f3n Sanitaria (IRYCIS), Madrid, Spain"},{"name":"Red Espa\u00f1ola de Investigaci\u00f3n en Patolog\u00eda Infecciosa (REIPI), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2020,10,7]]},"reference":[{"key":"2020121103540915800_dkaa398-B1","doi-asserted-by":"crossref","first-page":"413","DOI":"10.1111\/j.1469-0691.2012.03821.x","article-title":"Rapid evolution and spread of carbapenemases among Enterobacteriaceae in Europe","volume":"18","author":"Cant\u00f3n","year":"2012","journal-title":"Clin Microbiol Infect"},{"key":"2020121103540915800_dkaa398-B2","doi-asserted-by":"crossref","first-page":"3039","DOI":"10.1093\/jac\/dky284","article-title":"Characterization of carbapenemase-producing Enterobacteriaceae from colonized patients in a university hospital in Madrid, Spain, during the R-GNOSIS project depicts increased clonal diversity over time with maintenance of high-risk clones","volume":"73","author":"Hern\u00e1ndez-Garc\u00eda","year":"2018","journal-title":"J Antimicrob Chemother"},{"key":"2020121103540915800_dkaa398-B3","doi-asserted-by":"crossref","first-page":"72","DOI":"10.1016\/j.eclinm.2019.09.005","article-title":"Intestinal co-colonization with different carbapenemase-producing Enterobacterales isolates is not a rare event in an OXA-48 endemic area","volume":"15","author":"Hern\u00e1ndez-Garc\u00eda","year":"2019","journal-title":"EClinicalMedicine"},{"key":"2020121103540915800_dkaa398-B4","doi-asserted-by":"crossref","first-page":"380","DOI":"10.1056\/NEJMra041359","article-title":"The new \u03b2-lactamases","volume":"352","author":"Jacoby","year":"2005","journal-title":"N Engl J Med"},{"key":"2020121103540915800_dkaa398-B5","doi-asserted-by":"crossref","first-page":"2096","DOI":"10.1093\/gbe\/evu160","article-title":"Genome evolution and plasticity of Serratia marcescens, an important multidrug-resistant nosocomial pathogen","volume":"6","author":"Iguchi","year":"2014","journal-title":"Genome Biol Evol"},{"key":"2020121103540915800_dkaa398-B6","doi-asserted-by":"crossref","first-page":"5575","DOI":"10.1099\/ijsem.0.001485","article-title":"Genome-based phylogeny and taxonomy of the \u2018Enterobacteriales\u2019: proposal for Enterobacterales ord. nov. divided into the families Enterobacteriaceae, Erwiniaceae fam. nov., Pectobacteriaceae fam. nov., Yersiniaceae fam. nov., Hafniaceae fam. nov., Morganellaceae fam. nov., and Budviciaceae fam. nov","volume":"66","author":"Adeolu","year":"2016","journal-title":"Int J Syst Evol Microbiol"},{"key":"2020121103540915800_dkaa398-B7","doi-asserted-by":"crossref","first-page":"579","DOI":"10.1093\/infdis\/128.5.579","article-title":"Nosocomial urinary tract infection with Serratia marcescens: an epidemiologic study","volume":"128","author":"Maki","year":"1973","journal-title":"J Infect Dis"},{"key":"2020121103540915800_dkaa398-B8","doi-asserted-by":"crossref","first-page":"691","DOI":"10.1128\/JCM.20.4.691-695.1984","article-title":"Outbreak of nosocomial urinary tract infections caused by Serratia marcescens","volume":"20","author":"Okuda","year":"1984","journal-title":"J Clin Microbiol"},{"key":"2020121103540915800_dkaa398-B9","doi-asserted-by":"crossref","first-page":"755","DOI":"10.1128\/CMR.00017-11","article-title":"Serratia infections: from military experiments to current practice","volume":"24","author":"Mahlen","year":"2011","journal-title":"Clin Microbiol Rev"},{"key":"2020121103540915800_dkaa398-B10","doi-asserted-by":"crossref","first-page":"4141","DOI":"10.1128\/JB.170.9.4141-4146.1988","article-title":"Genetic analysis of extracellular proteins of Serratia marcescens","volume":"170","author":"Hines","year":"1988","journal-title":"J Bacteriol"},{"key":"2020121103540915800_dkaa398-B11","doi-asserted-by":"crossref","first-page":"125","DOI":"10.4103\/njcp.njcp_362_18","article-title":"Determination of the antibiotic resistance rates of Serratia marcescens isolates obtained from various clinical specimens","volume":"22","author":"Simsek","year":"2019","journal-title":"Niger J Clin Pract"},{"key":"2020121103540915800_dkaa398-B12","doi-asserted-by":"crossref","first-page":"1836","DOI":"10.1093\/jac\/dkz115","article-title":"SME-4-producing Serratia marcescens from Argentina belonging to clade 2 of the S. marcescens phylogeny","volume":"74","author":"Dabos","year":"2019","journal-title":"J Antimicrob Chemother"},{"key":"2020121103540915800_dkaa398-B13","doi-asserted-by":"crossref","first-page":"148.e1-4","DOI":"10.1016\/j.cmi.2014.07.008","article-title":"Concurrent interspecies and clonal dissemination of OXA-48 carbapenemase","volume":"21","author":"Arana","year":"2015","journal-title":"Clin Microbiol Infect"},{"key":"2020121103540915800_dkaa398-B14","author":"Giske","year":"2017"},{"key":"2020121103540915800_dkaa398-B15","doi-asserted-by":"crossref","first-page":"1237","DOI":"10.1128\/JCM.40.4.1237-1243.2002","article-title":"Epidemiology of extended-spectrum \u03b2-lactamase-producing Enterobacter isolates in a Spanish hospital during a 12-year period","volume":"40","author":"Cant\u00f3n","year":"2002","journal-title":"J Clin Microbiol"},{"key":"2020121103540915800_dkaa398-B16","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1016\/j.diagmicrobio.2010.12.002","article-title":"Multiplex PCR for detection of acquired carbapenemase genes","volume":"70","author":"Poirel","year":"2011","journal-title":"Diagn Microbiol Infect Dis"},{"key":"2020121103540915800_dkaa398-B17","doi-asserted-by":"crossref","first-page":"559","DOI":"10.1128\/AAC.05289-11","article-title":"Genetic features of the widespread plasmid coding for the carbapenemase OXA-48","volume":"56","author":"Poirel","year":"2012","journal-title":"Antimicrob Agents Chemother"},{"key":"2020121103540915800_dkaa398-B18","doi-asserted-by":"crossref","first-page":"e0123063","DOI":"10.1371\/journal.pone.0123063","article-title":"Differentiation of IncL and IncM plasmids associated with the spread of clinically relevant antimicrobial resistance","volume":"10","author":"Carattoli","year":"2015","journal-title":"PLoS One"},{"key":"2020121103540915800_dkaa398-B19","doi-asserted-by":"crossref","first-page":"455","DOI":"10.1089\/cmb.2012.0021","article-title":"SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing","volume":"19","author":"Bankevich","year":"2012","journal-title":"J Comput Biol"},{"key":"2020121103540915800_dkaa398-B20","doi-asserted-by":"crossref","first-page":"1072","DOI":"10.1093\/bioinformatics\/btt086","article-title":"QUAST: quality assessment tool for genome assemblies","volume":"29","author":"Gurevich","year":"2013","journal-title":"Bioinformatics"},{"key":"2020121103540915800_dkaa398-B21","doi-asserted-by":"crossref","first-page":"R46","DOI":"10.1186\/gb-2014-15-3-r46","article-title":"Kraken: ultrafast metagenomic sequence classification using exact alignments","volume":"15","author":"Wood","year":"2014","journal-title":"Genome Biol"},{"key":"2020121103540915800_dkaa398-B22","doi-asserted-by":"crossref","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":"2020121103540915800_dkaa398-B23","doi-asserted-by":"crossref","first-page":"132","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":"2020121103540915800_dkaa398-B24","doi-asserted-by":"crossref","first-page":"3380","DOI":"10.1093\/bioinformatics\/btw493","article-title":"plasmidSPAdes: assembling plasmids from whole genome sequencing data","volume":"32","author":"Antipov","year":"2016","journal-title":"Bioinformatics"},{"key":"2020121103540915800_dkaa398-B25","doi-asserted-by":"crossref","first-page":"3796","DOI":"10.1093\/bioinformatics\/btx462","article-title":"PLACNETw: a web-based tool for plasmid reconstruction from bacterial genomes","volume":"33","author":"Vielva","year":"2017","journal-title":"Bioinformatics"},{"key":"2020121103540915800_dkaa398-B26","doi-asserted-by":"crossref","first-page":"80","DOI":"10.1016\/j.jiph.2019.06.013","article-title":"Carbapenemase producing Enterobacteriaceae in intensive care units in Ecuador: results from a multicenter study","volume":"13","author":"Soria-Segarra","year":"2020","journal-title":"J Infect Public Health"},{"key":"2020121103540915800_dkaa398-B27","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1093\/cid\/ciz089","article-title":"The Infectious Diseases Society of America\u2019s 10 \u00d7 \u201820 initiative (10 new systemic antibacterial agents US Food and Drug Administration approved by 2020): is 20 \u00d7 \u201920 a possibility?","volume":"69","author":"Talbot","year":"2019","journal-title":"Clin Infect Dis"},{"key":"2020121103540915800_dkaa398-B28","first-page":"315","article-title":"Investigation of the Pseudomonas aeruginosa AmpR gene and its role at the chromosomal AmpC \u03b2-lactamase promoter","volume":"111","author":"Lodge","year":"1993","journal-title":"FEMS Microbiol Lett"},{"key":"2020121103540915800_dkaa398-B29","doi-asserted-by":"crossref","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":"2020121103540915800_dkaa398-B30","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/S0213-005X(14)70167-3","article-title":"Carbapenemase-producing Enterobacteriaceae: the end of the antibiotic era?","volume":"32 Suppl 4","author":"Pascual","year":"2014","journal-title":"Enferm Infecc Microbiol Clin"},{"key":"2020121103540915800_dkaa398-B31","doi-asserted-by":"crossref","first-page":"3406","DOI":"10.1128\/AAC.00086-15","article-title":"Prospective multicenter study of carbapenemase-producing Enterobacteriaceae from 83 hospitals in Spain reveals high in vitro susceptibility to colistin and meropenem","volume":"59","author":"Oteo","year":"2015","journal-title":"Antimicrob Agents Chemother"},{"key":"2020121103540915800_dkaa398-B32","doi-asserted-by":"crossref","first-page":"152","DOI":"10.1016\/j.jinf.2015.10.008","article-title":"Comprehensive clinical and epidemiological assessment of colonisation and infection due to carbapenemase-producing Enterobacteriaceae in Spain","volume":"72","author":"Palacios-Baena","year":"2016","journal-title":"J Infect"},{"key":"2020121103540915800_dkaa398-B33","first-page":"1535","article-title":"Serratia marcescens producing SME carbapenemases: an emerging resistance problem in the UK?","volume":"72","author":"Hopkins","year":"2017","journal-title":"J Antimicrob Chemother"},{"key":"2020121103540915800_dkaa398-B34","doi-asserted-by":"crossref","first-page":"65","DOI":"10.1016\/j.jhin.2016.04.006","article-title":"Emergence of Serratia marcescens isolates possessing carbapenem-hydrolysing \u03b2-lactamase KPC-2 from China","volume":"94","author":"Lin","year":"2016","journal-title":"J Hosp Infect"},{"key":"2020121103540915800_dkaa398-B35","doi-asserted-by":"crossref","first-page":"e01238","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":"Hern\u00e1ndez-Garc\u00eda","year":"2018","journal-title":"Antimicrob Agents Chemother"},{"key":"2020121103540915800_dkaa398-B36","doi-asserted-by":"crossref","first-page":"e00080","DOI":"10.1128\/mSphere.00080-20","article-title":"Early OXA-48-producing Enterobacterales isolates recovered in a Spanish Hospital reveal a complex introduction dominated by sequence type 11 (ST11) and ST405 Klebsiella pneumoniae clones","volume":"5","author":"Gij\u00f3n","year":"2020","journal-title":"mSphere"},{"key":"2020121103540915800_dkaa398-B37","doi-asserted-by":"crossref","first-page":"713","DOI":"10.1016\/j.ijantimicag.2018.08.012","article-title":"Genomic path to pandrug resistance in a clinical isolate of Klebsiella pneumoniae","volume":"52","author":"L\u00e1zaro-Perona","year":"2018","journal-title":"Int J Antimicrob Agents"}],"container-title":["Journal of Antimicrobial Chemotherapy"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/jac\/article-pdf\/76\/1\/110\/34855869\/dkaa398.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/jac\/article-pdf\/76\/1\/110\/34855869\/dkaa398.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,10,7]],"date-time":"2023-10-07T01:42:21Z","timestamp":1696642941000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/jac\/article\/76\/1\/110\/5918711"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2020,10,7]]},"references-count":37,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2020,10,7]]},"published-print":{"date-parts":[[2021,1,1]]}},"URL":"https:\/\/doi.org\/10.1093\/jac\/dkaa398","relation":{},"ISSN":["0305-7453","1460-2091"],"issn-type":[{"value":"0305-7453","type":"print"},{"value":"1460-2091","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2021,1]]},"published":{"date-parts":[[2020,10,7]]}}}