L. Jakobsen, A. Hammerum, F. Hansen, and D. Fuglsang-damgaard, An ST405 NDM-4-producing Escherichia coli isolated from a Danish patient previously hospitalized in Vietnam, Journal of Antimicrobial Chemotherapy, vol.69, issue.2, pp.559-60, 2014.
DOI : 10.1093/jac/dkt356

A. Hammerum, A. Larsen, F. Hansen, U. Justesen, A. Friis-moller et al., Patients transferred from Libya to Denmark carried OXA-48-producing Klebsiella pneumoniae, NDM-1-producing Acinetobacter baumannii and meticillin-resistant Staphylococcus aureus, International Journal of Antimicrobial Agents, vol.40, issue.2, pp.191-193, 2012.
DOI : 10.1016/j.ijantimicag.2012.05.003

J. Nielsen, F. Hansen, P. Littauer, K. Schonning, and A. Hammerum, An NDM-1-producing Escherichia coli obtained in Denmark has a genetic profile similar to an NDM-1-producing E. coli isolate from the UK, Journal of Antimicrobial Chemotherapy, vol.67, issue.8, pp.2049-51, 2012.
DOI : 10.1093/jac/dks149

A. Hammerum, M. Toleman, F. Hansen, B. Kristensen, C. Lester et al., Global spread of New Delhi metallo-??-lactamase 1, The Lancet Infectious Diseases, vol.10, issue.12, pp.829-859, 2010.
DOI : 10.1016/S1473-3099(10)70276-0

M. Wang, S. Ellermann-eriksen, D. Hansen, A. Kjerulf, D. Fuglsang-damgaard et al., Epidemic increase in the incidence of carbapenemase-producing Enterobacteriaceae in Denmark, Ugeskr Laeger, vol.178, issue.45, p.6160422, 2016.

L. Dortet, L. Brechard, L. Poirel, and P. Nordmann, Impact of the isolation medium for detection of carbapenemase-producing Enterobacteriaceae using an updated version of the Carba NP test, Journal of Medical Microbiology, vol.63, issue.Pt_5, pp.772-778, 2014.
DOI : 10.1099/jmm.0.071340-0

T. Naas, G. Cuzon, M. Villegas, M. Lartigue, J. Quinn et al., Genetic Structures at the Origin of Acquisition of the ??-Lactamase blaKPC Gene, Antimicrobial Agents and Chemotherapy, vol.52, issue.4, pp.1257-63, 2008.
DOI : 10.1128/AAC.01451-07

R. Mendes, K. Kiyota, J. Monteiro, M. Castanheira, S. Andrade et al., Rapid Detection and Identification of Metallo-??-Lactamase-Encoding Genes by Multiplex Real-Time PCR Assay and Melt Curve Analysis, Journal of Clinical Microbiology, vol.45, issue.2, pp.544-551, 2007.
DOI : 10.1128/JCM.01728-06

R. Swayne, H. Ludlam, V. Shet, N. Woodford, and M. Curran, Real-time TaqMan PCR for rapid detection of genes encoding five types of non-metallo- (class A and D) carbapenemases in Enterobacteriaceae, International Journal of Antimicrobial Agents, vol.38, issue.1
DOI : 10.1016/j.ijantimicag.2011.03.010

URL : https://hal.archives-ouvertes.fr/hal-00703147

L. Poirel, T. Walsh, V. Cuvillier, and P. Nordmann, Multiplex PCR for detection of acquired carbapenemase genes, Diagnostic Microbiology and Infectious Disease, vol.70, issue.1, pp.119-142, 2011.
DOI : 10.1016/j.diagmicrobio.2010.12.002

A. Bankevich, S. Nurk, D. Antipov, A. Gurevich, M. Dvorkin et al., SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing, Journal of Computational Biology, vol.19, issue.5, pp.455-77, 2012.
DOI : 10.1089/cmb.2012.0021

URL : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3342519/pdf

S. Koren, T. Treangen, C. Hill, M. Pop, and A. Phillippy, Automated ensemble assembly and validation of microbial genomes, BMC Bioinformatics, vol.15, issue.1, pp.126-24884846, 2014.
DOI : 10.1186/1471-2105-8-64

URL : http://doi.org/10.1186/1471-2105-15-126

T. Treangen, B. Ondov, S. Koren, and A. Phillippy, The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes, Genome Biology, vol.15, issue.11, pp.524-25410596, 2014.
DOI : 10.1038/msb4100049

M. Doumith, M. Day, H. Ciesielczuk, R. Hope, A. Underwood et al., Rapid Identification of Major Escherichia coli Sequence Types Causing Urinary Tract and Bloodstream Infections, Journal of Clinical Microbiology, vol.53, issue.1, pp.160-166, 2015.
DOI : 10.1056/NEJMoa011265

URL : http://jcm.asm.org/content/53/1/160.full.pdf

A. Stamatakis, RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies, Bioinformatics, vol.30, issue.9, pp.1312-1315, 2014.
DOI : 10.1093/bioinformatics/btu033

S. Tofteland, U. Naseer, J. Lislevand, A. Sundsfjord, and Ø. Samuelsen, A Long-Term Low-Frequency Hospital Outbreak of KPC-Producing Klebsiella pneumoniae Involving Intergenus Plasmid Diffusion and a Persisting Environmental Reservoir, PLoS ONE, vol.37, issue.3, p.23536849, 2013.
DOI : 10.1371/journal.pone.0059015.t002

A. Magiorakos, A. Srinivasan, R. Carey, Y. Carmeli, M. Falagas et al., Multidrug-resistant, extensively drug-resistant and pandrug-resistant bacteria: an international expert proposal for interim standard definitions for acquired resistance, Clinical Microbiology and Infection, vol.18, issue.3, pp.268-81, 2012.
DOI : 10.1111/j.1469-0691.2011.03570.x

URL : https://doi.org/10.1111/j.1469-0691.2011.03570.x

R. Leclercq, R. Canton, D. Brown, C. Giske, P. Heisig et al., EUCAST expert rules in antimicrobial susceptibility testing, Clinical Microbiology and Infection, vol.19, issue.2, pp.141-60, 2013.
DOI : 10.1111/j.1469-0691.2011.03703.x

URL : https://doi.org/10.1111/j.1469-0691.2011.03703.x

A. Olaitan, S. Morand, and J. Rolain, Mechanisms of polymyxin resistance: acquired and intrinsic resistance in bacteria, Frontiers in Microbiology, vol.276, issue.10, pp.643-25505462, 2014.
DOI : 10.1074/jbc.M106960200

A. Olaitan, S. Diene, M. Kempf, M. Berrazeg, S. Bakour et al., Worldwide emergence of colistin resistance in Klebsiella pneumoniae from healthy humans and patients in Lao PDR, Thailand, Israel, Nigeria and France owing to inactivation of the PhoP/PhoQ regulator mgrB: an epidemiological and molecular study, International Journal of Antimicrobial Agents, vol.44, issue.6, pp.500-507, 2014.
DOI : 10.1016/j.ijantimicag.2014.07.020

L. Dortet, G. Cuzon, and P. Nordmann, Dissemination of carbapenemase-producing Enterobacteriaceae in France, 2012, Journal of Antimicrobial Chemotherapy, vol.69, issue.3, pp.623-630, 2014.
DOI : 10.1093/jac/dkt433

N. Woodford, J. Turton, and D. Livermore, Multiresistant Gram-negative bacteria: the role of high-risk clones in the dissemination of antibiotic resistance, FEMS Microbiology Reviews, vol.35, issue.5, pp.736-55, 2011.
DOI : 10.1111/j.1574-6976.2011.00268.x

J. Oteo, M. Perez-vazquez, V. Bautista, A. Ortega, P. Zamarron et al., The spread of KPC-producing Enterobacteriaceae in Spain: WGS analysis of the emerging high-risk clones of Klebsiella pneumoniae ST11, J Antimicrob Chemother, issue.2, 2016.

M. Maatallah, M. Vading, M. Kabir, A. Bakhrouf, M. Kalin et al., Klebsiella variicola Is a Frequent Cause of Bloodstream Infection in the Stockholm Area, and Associated with Higher Mortality Compared to K. pneumoniae, PLoS ONE, vol.55, issue.11, p.25426853
DOI : 10.1371/journal.pone.0113539.s003

Y. Chen, J. Lin, C. Fung, P. Lu, Y. Chuang et al., KPC-2-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan, Journal of Antimicrobial Chemotherapy, vol.69, issue.3, pp.628-659, 2014.
DOI : 10.1093/jac/dkt409

URL : https://academic.oup.com/jac/article-pdf/69/3/628/2350988/dkt409.pdf

M. Toleman, J. Bugert, and S. Nizam, Extensively Drug-Resistant New Delhi Metallo-??-Lactamase???Encoding Bacteria in the Environment, Dhaka, Bangladesh, 2012, Emerging Infectious Diseases, vol.21, issue.6, pp.1027-1057, 2012.
DOI : 10.3201/eid2106.141578

P. Pannaraj, J. Bard, C. Cerini, and S. Weissman, Pediatric Carbapenem-resistant Enterobacteriaceae in Los Angeles, California, a High-prevalence Region in the United States, The Pediatric Infectious Disease Journal, vol.34, issue.1, pp.11-17, 2015.
DOI : 10.1097/INF.0000000000000471

G. Peirano, J. Ahmed-bentley, J. Fuller, J. Rubin, and J. Pitout, Travel-Related Carbapenemase-Producing Gram-Negative Bacteria in Alberta, Canada: the First 3 Years, Journal of Clinical Microbiology, vol.52, issue.5, pp.1575-81, 2014.
DOI : 10.1128/JCM.00162-14

L. Mataseje, K. Abdesselam, J. Vachon, R. Mitchel, E. Bryce et al., Carbapenem-producing Enterobacteriaceae in Canada: results from the Canadian Nosocomial Infection Surveillance Program, Antimicrob Agents Chemother, vol.60, issue.11, pp.2010-20146787, 2016.

L. Poirel, E. Savov, A. Nazli, A. Trifonova, I. Todorova et al., Outbreak Caused by NDM-1- and RmtB-Producing Escherichia coli in Bulgaria, Antimicrobial Agents and Chemotherapy, vol.58, issue.4, pp.2472-2476, 2014.
DOI : 10.1128/AAC.02571-13

URL : http://aac.asm.org/content/58/4/2472.full.pdf

J. Wachino and Y. Arakawa, Exogenously acquired 16S rRNA methyltransferases found in aminoglycoside-resistant pathogenic Gram-negative bacteria: An update, Drug Resistance Updates, vol.15, issue.3, pp.133-181, 2012.
DOI : 10.1016/j.drup.2012.05.001

E. Marrs, K. Day, and J. Perry, In vitro activity of mecillinam against Enterobacteriaceae with NDM-1 carbapenemase, Journal of Antimicrobial Chemotherapy, vol.69, issue.10, pp.2873-2878, 2014.
DOI : 10.1093/jac/dku204

C. Giske, Contemporary resistance trends and mechanisms for the old antibiotics colistin, temocillin, fosfomycin, mecillinam and nitrofurantoin, Clinical Microbiology and Infection, vol.21, issue.10, pp.899-905, 2015.
DOI : 10.1016/j.cmi.2015.05.022

URL : https://doi.org/10.1016/j.cmi.2015.05.022

N. Tijet, D. Boyd, S. Patel, M. Mulvey, and R. Melano, Evaluation of the Carba NP Test for Rapid Detection of Carbapenemase-Producing Enterobacteriaceae and Pseudomonas aeruginosa, Antimicrobial Agents and Chemotherapy, vol.57, issue.9, pp.4578-80, 2013.
DOI : 10.1128/AAC.00878-13

M. Osterblad, A. Hakanen, and J. Jalava, Evaluation of the Carba NP Test for Carbapenemase Detection, Antimicrobial Agents and Chemotherapy, vol.58, issue.12, pp.7553-7559, 2014.
DOI : 10.1128/AAC.02761-13

S. Oueslati, P. Nordmann, and L. Poirel, Heterogeneous hydrolytic features for OXA-48-like ??-lactamases, Journal of Antimicrobial Chemotherapy, vol.70, issue.4, pp.1059-63, 2015.
DOI : 10.1093/jac/dku524

URL : https://academic.oup.com/jac/article-pdf/70/4/1059/2415538/dku524.pdf

E. Literacka, M. Herda, A. Baraniak, D. Zabicka, W. Hryniewicz et al., Evaluation of the Carba NP test for carbapenemase detection in Enterobacteriaceae, Pseudomonas spp. and Acinetobacter spp., and its practical use in the routine work of a national reference laboratory for susceptibility testing, European Journal of Clinical Microbiology & Infectious Diseases, vol.50, issue.9, pp.2281-87, 2017.
DOI : 10.1128/JCM.02271-12

T. Huang, L. Poirel, P. Bogaerts, C. Berhin, P. Nordmann et al., Temocillin and piperacillin/tazobactam resistance by disc diffusion as antimicrobial surrogate markers for the detection of carbapenemase-producing Enterobacteriaceae in geographical areas with a high prevalence of OXA-48 producers, Journal of Antimicrobial Chemotherapy, vol.69, issue.2, pp.445-50, 2014.
DOI : 10.1093/jac/dkt367