Molecular Epidemiological Insights into Colistin-Resistant and Carbapenemases-Producing Clinical Klebsiella pneumoniae Isolates

References

• Pitout JDD, Nordmann P, Poirel L. Carbapenemase-producing Klebsiella pneumoniae, a key pathogen set for global nosocomial dominance. Antimicrob Agents Chemother. 2015;59(10):5873–5884. doi:10.1128/AAC.01019-1526169401
   PubMed Web of Science ®Google Scholar
• European Centre for Disease Prevention and Control. Point Prevalence Survey of Healthcare associated Infections and Antimicrobial Use in European Acute Care Hospitals. Stockholm: ECDC; 2013 Available from: https://ecdc.europa.eu/sites/portal/files/media/en/publications/Publications/healthcare-associated-infections-antimicrobial-use-PPS.pdf. Accessed 64, 2019.
   Google Scholar
• Navon-Venezia S, Kondratyeva K, Carattoli A. Klebsiella pneumoniae: a major worldwide source and shuttle for antibiotic resistance. FEMS Microbiol Rev. 2017;41(3):252–275. doi:10.1093/femsre/fux01328521338
   PubMed Web of Science ®Google Scholar
• Rello J, Kalwaje EV, Lagunes L, et al. A global priority list of the TOp TEn resistant Microorganisms (TOTEM) study at intensive care: a prioritization exercise based on multi-criteria decision analysis. Eur J Clin Microbiol Infect Dis. 2019;38(2):319–323. doi:10.1007/s10096-018-3428-y30426331
   PubMed Web of Science ®Google Scholar
• Sabbatucci M, Iacchini S, Iannazzo S, et al. Sorveglianza nazionale delle batteriemie da enterobatteri produttori di carbapenemasi. Rapporti ISTISAN 17/18 ISSN:1123-3117.
   Google Scholar
• European Centre for Disease Prevention and Control. Surveillance of Antimicrobial Resistance in Europe 2017. Stockholm: ECDC; 2018 Available from: https://ecdc.europa.eu/sites/portal/files/documents/EARS-Net-report-2017-update-jan-2019.pdf. Accessed 64, 2019.
   Google Scholar
• Girmenia C, Serrao A, Canichella M. Epidemiology of carbapenem resistant Klebsiella pneumoniae infections in mediterranean countries. Mediterr J Hematol Infect Dis. 2016;8(1):2016032. doi:10.4084/mjhid.2016.032
   Web of Science ®Google Scholar
• Munoz-Price LS, Poirel L, Bonomo RA, et al. Clinical epidemiology of the global expansion of Klebsiella pneumoniae carbapenemases. Lancet Infect Dis. 2013;13(9):785–796. doi:10.1016/S1473-3099(13)70190-723969216
   PubMed Web of Science ®Google Scholar
• Giani T, Arena F, Vaggelli G, et al. Large nosocomial outbreak of colistin-resistant, carbapenemase-producing Klebsiella pneumoniae traced to clonal expansion of an mgrB deletion mutant. J Clin Microbiol. 2015;53(10):3341–3344. doi:10.1128/JCM.01017-1526202124
   PubMed Web of Science ®Google Scholar
• Ripabelli G, Tamburro M, Guerrizio G, et al. Tracking multidrug-resistant Klebsiella pneumoniae from an Italian hospital: molecular epidemiology and surveillance by PFGE, RAPD and PCR-based resistance genes prevalence. Curr Microbiol. 2018;75(8):977–987. doi:10.1007/s00284-018-1475-329523910
   PubMed Web of Science ®Google Scholar
• Ghasemi Y, Archin T, Kargar M, Mohkam M. A simple multiplex PCR for assessing prevalence of extended-spectrum β-lactamases producing Klebsiella pneumoniae in Intensive Care Units of a referral hospital in Shiraz, Iran. Asian Pac J Trop Med. 2013;6(9):703–708. doi:10.1016/S1995-7645(13)60122-423827147
   PubMed Web of Science ®Google Scholar
• Calbo E, Garau J. The changing epidemiology of hospital outbreaks due to ESBL-producing Klebsiella pneumoniae: the CTX-M-15 type consolidation. Future Microbiol. 2015;10(6):1063–1075. doi:10.2217/fmb.15.2226059626
   PubMed Web of Science ®Google Scholar
• Cannatelli A, Giani T, D’Andrea MM, et al. MgrB inactivation is a common mechanism of colistin resistance in KPC-producing Klebsiella pneumoniae of clinical origin. Antimicrob Agents Chemother. 2014;58(10):5696–5703. doi:10.1128/AAC.03110-1425022583
   PubMed Web of Science ®Google Scholar
• Jafari Z, Harati AA, Haeili M, et al. Molecular epidemiology and drug resistance pattern of carbapenem-resistant Klebsiella pneumoniae isolates from Iran. Microb Drug Resist. 2019;25(3):336–343. doi:10.1089/mdr.2017.040430351186
   PubMed Web of Science ®Google Scholar
• Cannatelli A, D’Andrea MM, Giani T, et al. In vivo emergence of colistin resistance in Klebsiella pneumoniae producing KPC-type carbapenemases mediated by insertional inactivation of the PhoQ/PhoP mgrB regulator. Antimicrob Agents Chemother. 2013;57(11):5521–5526. doi:10.1128/AAC.01480-13
   PubMed Web of Science ®Google Scholar
• Poirel L, Jayol A, Bontron S, et al. The mgrB gene as a key target for acquired resistance to colistin in Klebsiella pneumoniae. J Antimicrob Chemother. 2015;70(1):75–80. doi:10.1093/jac/dku32325190723
   PubMed Web of Science ®Google Scholar
• Barbieri NL, Nielsen DW, Wannemuehler Y, et al. mcr-1 identified in Avian Pathogenic Escherichia coli (APEC). PLoS One. 2017;12(3):e0172997. doi:10.1371/journal.pone.017299728264015
   PubMed Web of Science ®Google Scholar
• Xavier BB, Lammens C, Ruhal R, et al. Identification of a novel plasmid-mediated colistin-resistance gene, mcr-2, in Escherichia coli, Belgium, June 2016. Euro Surveill. 2016;21(27). doi:10.2807/1560-7917.ES.2016.21.27.30280
   PubMedGoogle Scholar
• Yin W, Li H, Shen Y, et al. Novel plasmid-mediated colistin resistance gene mcr-3 in Escherichia coli. MBio. 2017;8(4):e01166–17.28811346
   PubMed Web of Science ®Google Scholar
• Carattoli A, Villa L, Feudi C, et al. Novel plasmid-mediated colistin resistance mcr-4 gene in Salmonella and Escherichia coli, Italy 2013, Spain and Belgium, 2015 to 2016. Euro Surveill. 2017;22(31). doi:10.2807/1560-7917.ES.2017.22.31.30589
   Google Scholar
• Borowiak M, Fischer J, Hammerl JA, Hendriksen SR, Szabo I, Malorny B. Identification of a novel transposon-associated phosphoethanolamine transferase gene, mcr-5, conferring colistin resistance in d-tartrate fermenting Salmonella enterica subsp. enterica serovar Paratyphi B. J Antimicrob Chemother. 2017;72(12):3317–3324. doi:10.1093/jac/dkx32728962028
   PubMed Web of Science ®Google Scholar
• Wang X, Wang Y, Zhou Y, et al. Emergence of a novel mobile colistin resistance gene, mcr-8, in NDM-producing Klebsiella pneumoniae. Emerg Microbes Infect. 2018;7(1):122. doi:10.1038/s41426-018-0124-z29970891
   PubMed Web of Science ®Google Scholar
• Yang YQ, Li YX, Lei CW, Zhang AY, Wang HN. Novel plasmid-mediated colistin resistance gene mcr-7.1 in Klebsiella pneumoniae. J Antimicrob Chemother. 2018;73(7):1791–1795. doi:10.1093/jac/dky11129912417
   PubMed Web of Science ®Google Scholar
• Sammarco ML, Ripabelli G, Tamburro M. Epidemiologia molecolare delle malattie infettive: metodi di analisi ed interpretazione dei risultati. Ann Ig. 2014;26:10–45. doi:10.7416/ai.2014.195624452182
   PubMedGoogle Scholar
• Guo C, Yang X, Wu Y, et al. MLST-based inference of genetic diversity and population structure of clinical Klebsiella pneumoniae, China. Sci Rep. 2015;5:7612. doi:10.1038/srep0761225556771
   PubMed Web of Science ®Google Scholar
• Ripabelli G, Salzo A, Mariano A, Sammarco ML, Tamburro M; Collaborative Group for HAIs Point Prevalence Surveys in Molise Region. Healthcare-associated infections point prevalence survey and antimicrobials use in acute care hospitals (PPS 2016-2017) and long-term care facilities (HALT-3): a comprehensive report of the first experience in Molise Region, Central Italy, and targeted intervention strategies. J Infect Public Health. 2019;2(4):509–515.
   Web of Science ®Google Scholar
• European committee on antimicrobial susceptibility testing, EUCAST, 2019 Eucast.org. Available from: www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Breakpoint_tables/v_9.0_Breakpoint_Tables.pdf. Accessed 87, 2019.
   Google Scholar
• Dallenne C, Da Costa A, Decré D, Favier C, Arlet G. Development of a set of multiplex PCR assays for the detection of genes encoding important β-lactamases in Enterobacteriaceae. J Antimicrob Chemother. 2010;65(3):490–495. doi:10.1093/jac/dkp49820071363
   PubMed Web of Science ®Google Scholar
• Nordmann P, Naas T, Poirel L. Global spread of carbapenemase-producing Enterobacteriaceae. Emerg Infect Dis. 2011;17(10):1791–1798. doi:10.3201/eid1710.11065522000347
   PubMed Web of Science ®Google Scholar
• Choi Y, Sims GE, Murphy S, Miller JR, Chan AP. Predicting the functional effect of amino acid substitutions and indels. PLoS One. 2012;7(10):46688. doi:10.1371/journal.pone.0046688
   PubMed Web of Science ®Google Scholar
• Han H, Zhou H, Li H, et al. Optimization of pulsed-field gel electrophoresis for subtyping of Klebsiella pneumoniae. Int J Environ Res Public Health. 2013;10(7):2720–2731. doi:10.3390/ijerph1007272023880721
   PubMed Web of Science ®Google Scholar
• Tenover FC, Arbeit RD, Goering RV, et al. Interpreting chromosomal DNA restriction patterns produced by pulsed-field gel electrophoresis: criteria for bacterial strain typing. J Clin Microbiol. 1995;33(9):2233.7494007
   PubMed Web of Science ®Google Scholar
• Diancourt L, Passet V, Verhoef J, Grimont PAD, Brisse S. Multilocus sequence typing of Klebsiella pneumoniae nosocomial isolates. J Clin Microbiol. 2005;43(8):4178–4182. doi:10.1128/JCM.43.8.4178-4182.200516081970
   PubMed Web of Science ®Google Scholar
• Hunter PR, Gaston MA. Numerical index of the discriminatory ability of typing systems: an application of Simpson’s index of diversity. J Clin Microbiol. 1988;26(11):2465–2466.3069867
   PubMed Web of Science ®Google Scholar
• O’Neill J. Tackling drug-resistant infections globally: final report and recommendations. 2016 Available from: https://amr-review.org/sites/default/files/160518_Final%20paper_with%20cover.pdf. Accessed 55, 2019.
   Google Scholar
• Codjoe FS, Donkor ES. Carbapenem resistance: a review. Med Sci (Basel). 2018;6(1):E1.
   Google Scholar
• Cristina ML, Sartini M, Ottria G, et al. Epidemiology and biomolecular characterization of carbapenem-resistant Klebsiella pneumoniae in an Italian hospital. J Prev Med Hyg. 2016;57(3):149–156.
   Google Scholar
• Klontz EH, Tomich AD, Günther S, et al. Structure and dynamics of fosA-mediated fosfomycin resistance in Klebsiella pneumoniae and Escherichia coli. Antimicrob Agents Chemother. 2017;61(11):e01572–17. doi:10.1128/AAC.01572-1728874374
   PubMed Web of Science ®Google Scholar
• Granata G, Petrosillo N. Resistance to colistin in Klebsiella pneumoniae: a 4.0 strain? Infect Dis Rep. 2017;9(2):7104. doi:10.4081/idr.2017.710428626539
   PubMedGoogle Scholar
• Giordano C, Barnini S, Tsioutis C, et al. Expansion of KPC-producing Klebsiella pneumoniae with various mgrB mutations giving rise to colistin resistance: the role of IS L3 on plasmids. Int J Antimicrob Agents. 2018;51(2):260–265. doi:10.1016/j.ijantimicag.2017.10.01129097338
   PubMed Web of Science ®Google Scholar
• Moradigaravand D, Martin V, Peacock SJ, Parkhill J. Evolution and epidemiology of multidrug-resistant Klebsiella pneumoniae in the United Kingdom and Ireland. MBio. 2017;8(1):e01976–16. doi:10.1128/mBio.e01976-1628223459
   PubMed Web of Science ®Google Scholar
• Lomonaco S, Crawford MA, Lascols C, et al. Resistome of carbapenem- and colistin-resistant Klebsiella pneumoniae clinical isolates. PLoS One. 2018;13(6):0198526. doi:10.1371/journal.pone.0198526
   Web of Science ®Google Scholar
• Corbella M, Caltagirone M, Gaiarsa S, et al. Characterization of an outbreak of extended-spectrum β-lactamase-producing Klebsiella pneumoniae in a neonatal intensive care unit in Italy. Microb Drug Resist. 2018;24(8):1128–1136. doi:10.1089/mdr.2017.027029368992
   PubMed Web of Science ®Google Scholar
• Shakib P, Ramazanzadeh R, Taherikalani M, Nouri B. Detection of extended-spectrum beta-lactamases (ESBLs) and antibiotic susceptibility patterns in Klebsiella pneumoniae in Western, Iran. Infect Disord Drug Targets. 2018;18(2):156–163. doi:10.2174/187152651766617071310173428707597
   PubMedGoogle Scholar
• Day MJ, Hopkins KL, Wareham D. Typing and epidemiological surveillance show that UK bloodstream Escherichia coli with extended-spectrum β-lactamases correspond to human gut strains, but not those from dinner. Lancet Infect Dis. 2019 ISSN: 1473-3099.
   Google Scholar
• Habboush Y, Guzman N. Antibiotic Resistance. StatPearls Publishing; 2018. Available from: https://www.ncbi.nlm.nih.gov/books/NBK513277. Accessed July 15, 2019.
   Google Scholar
• Cantón R, Akóva M, Carmeli Y, et al. Rapid evolution and spread of carbapenemases among Enterobacteriaceae in Europe. Clin Microbiol Infect. 2012;18(5):413–431. doi:10.1111/j.1469-0691.2012.03821.x22507109
   PubMed Web of Science ®Google Scholar
• Giacobbe DR, Del Bono V, Trecarichi EM, et al. Risk factors for bloodstream infections due to colistin-resistant KPC-producing Klebsiella pneumoniae: results from a multicenter case–control–control study. Clin Microbiol Infect. 2015;21(12):1106.e1–8. doi:10.1016/j.cmi.2015.08.001
   Web of Science ®Google Scholar
• Wise MG, Estabrook MA, Sahm DF, Stone GG, Kazmierczak KM. Prevalence of mcr-type genes among colistin-resistant Enterobacteriaceae collected in 2014-2016 as part of the INFORM global surveillance program. PLoS One. 2018;13(4):0195281. doi:10.1371/journal.pone.0195281
   Web of Science ®Google Scholar
• Siguier P, Gourbeyre E, Chandler M. Bacterial insertion sequences: their genomic impact and diversity. FEMS Microbiol Rev. 2014;38(5):865–891. doi:10.1111/1574-6976.1206724499397
   PubMed Web of Science ®Google Scholar
• Huddleston JR. Horizontal gene transfer in the human gastrointestinal tract: potential spread of antibiotic resistance genes. Infect Drug Resist. 2014;7:167–176. doi:10.2147/IDR25018641
   PubMed Web of Science ®Google Scholar
• López-Camacho E, Gómez-Gil R, Tobes R, et al. Genomic analysis of the emergence and evolution of multidrug resistance during a Klebsiella pneumoniae outbreak including carbapenem and colistin resistance. J Antimicrob Chemother. 2014;69(3):632–636. doi:10.1093/jac/dkt41924155060
   PubMed Web of Science ®Google Scholar
• Esposito EP, Cervoni M, Bernardo M, et al. Molecular epidemiology and virulence profiles of colistin-resistant Klebsiella pneumoniae blood isolates from the hospital agency “Ospedale dei Colli”, Naples, Italy. Front Microbiol. 2018;9:1463. doi:10.3389/fmicb.2018.0146330061868
   PubMed Web of Science ®Google Scholar
• Bakour S, Sahli F, Touati A, Rolain JM. Emergence of KPC-producing Klebsiella pneumoniae ST512 isolated from cerebrospinal fluid of a child in Algeria. New Microbes New Infect. 2014;3:34–36. doi:10.1016/j.nmni.2014.09.00125755890
   PubMedGoogle Scholar
• Giacometti F, Piva S, Vranckx K, et al. Application of MALDI-TOF MS for the subtyping of Arcobacter butzleri strains and comparison with their MLST and PFGE types. Int J Food Microbiol. 2018;277:50–57. doi:10.1016/j.ijfoodmicro.2018.04.02629684765
   PubMed Web of Science ®Google Scholar
• Ripabelli G, Sammarco ML, Scutellà M, Felice V, Tamburro M. Carbapenem-resistant KPC- and TEM-producing Escherichia coli ST131 isolated from a hospitalized patient with urinary tract infection: first isolation in Molise region, Central Italy, July 2018. Microb Drug Resist. 2019. doi:10.1089/mdr.2019.0085
   Web of Science ®Google Scholar