Emergence of NDM-producing Klebsiella pneumoniae and Escherichia coli in Spain: phylogeny, resistome, virulence and plasmids encoding bla(NDM)-like genes as determined by WGS

Objectives: NDM carbapenemases have spread worldwide. However, little information exists about the impact of NDM-producing Enterobacteriaceae in Spain. By WGS, we sought to elucidate the population structure of NDM-like-producing Klebsiella pneumoniae and Escherichia coli in Spain and to determine t...

Full description

Bibliographic Details
Authors: Perez-Vazquez, M; Campoy, PJS; Ortega, A; Bautista, V; Monzon, S; Ruiz-Carrascoso, G; Mingorance, J; Gonzalez-Barbera, EM; Gimeno, C; Aracil, B; Saez, D; Lara, N; Fernandez, S; Gonzalez-Lopez, JJ; Campos, J; Kingsley, RA; Dougan, G; Oteo-Iglesias, J; Rodrigo, CH; Aznar, E; Garcia-Picazo, L; Martinez, BO; Mansilla, EC; Alvarez-Garcia, P; Carretero, JMP; Rodriguez-Conde, I; Cao, SMR; Gimeno, A; Moreno, MOP; Rodriguez, MLC; Cavero, TA; Gil, Y; Esteras, MAR; Andres, JLB; Trujillo, G; Almaraz, JLH; Leon, JL; del Pozo, JL; Salas, CM; Adan, FB; Bertomeu, FG; Cascales, P; Dorado, JC; Suarez, CB; Spanish NDM Study Grp
Format: Article
Status:Published version
Publication date:2019
Country:España
Institution:Instituto de Investigación Biomédica y Sanitaria de Alicante (ISABIAL)
Repository:r-ISABIAL. Repositorio Institucional de Producción Científica del Instituto de Investigación Biomédica y Sanitaria de Alicante
OAI Identifier:oai:isabial.fundanetsuite.com:p5883
Online Access:https://isabial.portalinvestigacion.com/publicaciones5883
Access Level:Open access
Description
Summary:Objectives: NDM carbapenemases have spread worldwide. However, little information exists about the impact of NDM-producing Enterobacteriaceae in Spain. By WGS, we sought to elucidate the population structure of NDM-like-producing Klebsiella pneumoniae and Escherichia coli in Spain and to determine the plasmids harbouring bla(NDM)-like genes. Methods: High-resolution SNP typing, core-genome MLST and plasmid reconstruction (PlasmidID) were performed on 59 NDM-like-producing K. pneumoniae and 8 NDM-like-producing E. coli isolated over an 8year period in Spain. Results: Five major epidemic clones of NDM-producing K. pneumoniae caused five important nationwide outbreaks: ST437/NDM-7, ST437/NDM-1, ST147/NDM-1, ST11/NDM-1 and ST101/NDM-1; in contrast, the spread of NDM-producing E. coli was polyclonal. Three bla(NDM) types were identified: bla(NDM-1), 61.2%; bla(NDM-7), 32.8%; and bla(NDM-5), 6%. Five K. pneumoniae isolates co-produced other carbapenemases (three bla(OXA-48) and two bla(VIM-1)). The average number of acquired resistance genes was higher in K. pneumoniae than in E. coli. The plasmids encoding bla(NDM)-like genes belonged to IncFII, IncFIB, IncX3, IncR, IncN and IncC types, of which IncF, IncR and IncC were associated with MDR. The genetic surroundings of bla(NDM)-like genes showed a highly variable region upstream of ISAba125. Conclusions: In recent years NDM-producing K. pneumoniae and E. coli have emerged in Spain; the spread of a few high-risk K. pneumoniae clones such as ST437/NDM-7, ST437/NDM-1, ST147/NDM-1, ST11/NDM-1 and ST101/NDM-1 have caused several interregional outbreaks. In contrast, the spread of NDM-producing E. coli has been polyclonal. Plasmid types IncFII, IncFIB, IncX3, IncR, IncN and IncC carried bla(NDM), and the same IncX3 plasmid was detected in K. pneumoniae and E. coli.