Phylogenetic lineages, clones and β-lactamases in an international collection of Klebsiella oxytoca isolates non-susceptible to expanded-spectrum cephalosporins

R. Izdebski, J. Fiett, P. Urbanowicz, A. Baraniak, L. P G Derde, M. J M Bonten, Y. Carmeli, H. Goossens, W. Hryniewicz, C. Brun-Buisson, S. Brisse, M. Gniadkowski, M. Herda, M. J. Dautzenberg, A. Adler, M. Kazma, S. Navon-Venezia, S. Malhotra-Kumar, C. Lammens, P. LegrandA. Chalfine, H. Giamarellou, G. L. Petrikkos, A. Balode, U. Dumpis, P. Stammet, I. Aragăo, F. Esteves, A. Torres Martí, C. Lawrence, J. Salomon, M. Paul, Y. Lerman, A. Rossini, A. Salvia, J. Vidal Samso, J. Fierro

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Abstract

Objectives: The objective of this study was to examine Klebsiella oxytoca clonal and phylogenetic diversity, based on an international collection of carriage isolates non-susceptible to expanded-spectrum cephalosporins (ESCs). Methods: The study material comprised 68 rectal carriage K. oxytoca isolates non-susceptible to ESCs recovered in 2008-11 from patients in 14 hospitals across Europe and Israel. ESC resistance was tested phenotypically; genes encoding ESBLs, AmpC cephalosporinases and carbapenemases were amplified and sequenced. The isolates were typed by PFGE and MLST, followed by sequencing of blaOXY genes. Results: MLSTand PFGE distinguished 34 STs and 47 pulsotypes among the isolates, respectively. Six STswere split into several pulsotypes each. Five STs were more prevalent (n=2-9) and occurred in several countries each, including ST2, ST9 and ST141, which belong to a growing international clonal complex (CC), CC2. Four phylogenetic lineages were distinguished, each with another type of chromosomal OXY-type β-lactamase. Three of these, with OXY-1/-5, OXY-2 types and OXY-4, corresponded to previously described phylogroups KoI, KoII and KoIV, respectively. A single isolate from Israel represented a distinct lineage with a newly defined OXY-7 type. The phylogroups showed interesting differences in mechanisms of ESC resistance; KoI strains rarely overexpressed the OXY enzymes but commonly produced ESBLs, whereas KoII strains often were OXY hyperproducers and carried ESBLs much less frequently. AmpCs (DHA-1) and carbapenemases (VIM-1) occurred sporadically. Conclusions: The study confirmed the high genetic diversity of the collection of K. oxytoca ESC-non-susceptible isolates, composed of phylogroups with distinct types of OXY-type β-lactamases, and revealed some STs of broad geographical distribution.

Original languageEnglish
Pages (from-to)3230-3237
Number of pages8
JournalJournal of Antimicrobial Chemotherapy
Volume70
Issue number12
DOIs
Publication statusPublished - 2015

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Klebsiella oxytoca
Cephalosporins
Cephalosporin Resistance
Clone Cells
Israel
Genes
Enzymes

ASJC Scopus subject areas

  • Pharmacology
  • Pharmacology (medical)
  • Infectious Diseases

Cite this

Phylogenetic lineages, clones and β-lactamases in an international collection of Klebsiella oxytoca isolates non-susceptible to expanded-spectrum cephalosporins. / Izdebski, R.; Fiett, J.; Urbanowicz, P.; Baraniak, A.; Derde, L. P G; Bonten, M. J M; Carmeli, Y.; Goossens, H.; Hryniewicz, W.; Brun-Buisson, C.; Brisse, S.; Gniadkowski, M.; Herda, M.; Dautzenberg, M. J.; Adler, A.; Kazma, M.; Navon-Venezia, S.; Malhotra-Kumar, S.; Lammens, C.; Legrand, P.; Chalfine, A.; Giamarellou, H.; Petrikkos, G. L.; Balode, A.; Dumpis, U.; Stammet, P.; Aragăo, I.; Esteves, F.; Torres Martí, A.; Lawrence, C.; Salomon, J.; Paul, M.; Lerman, Y.; Rossini, A.; Salvia, A.; Vidal Samso, J.; Fierro, J.

In: Journal of Antimicrobial Chemotherapy, Vol. 70, No. 12, 2015, p. 3230-3237.

Research output: Contribution to journalArticle

Izdebski, R, Fiett, J, Urbanowicz, P, Baraniak, A, Derde, LPG, Bonten, MJM, Carmeli, Y, Goossens, H, Hryniewicz, W, Brun-Buisson, C, Brisse, S, Gniadkowski, M, Herda, M, Dautzenberg, MJ, Adler, A, Kazma, M, Navon-Venezia, S, Malhotra-Kumar, S, Lammens, C, Legrand, P, Chalfine, A, Giamarellou, H, Petrikkos, GL, Balode, A, Dumpis, U, Stammet, P, Aragăo, I, Esteves, F, Torres Martí, A, Lawrence, C, Salomon, J, Paul, M, Lerman, Y, Rossini, A, Salvia, A, Vidal Samso, J & Fierro, J 2015, 'Phylogenetic lineages, clones and β-lactamases in an international collection of Klebsiella oxytoca isolates non-susceptible to expanded-spectrum cephalosporins', Journal of Antimicrobial Chemotherapy, vol. 70, no. 12, pp. 3230-3237. https://doi.org/10.1093/jac/dkv273
Izdebski, R. ; Fiett, J. ; Urbanowicz, P. ; Baraniak, A. ; Derde, L. P G ; Bonten, M. J M ; Carmeli, Y. ; Goossens, H. ; Hryniewicz, W. ; Brun-Buisson, C. ; Brisse, S. ; Gniadkowski, M. ; Herda, M. ; Dautzenberg, M. J. ; Adler, A. ; Kazma, M. ; Navon-Venezia, S. ; Malhotra-Kumar, S. ; Lammens, C. ; Legrand, P. ; Chalfine, A. ; Giamarellou, H. ; Petrikkos, G. L. ; Balode, A. ; Dumpis, U. ; Stammet, P. ; Aragăo, I. ; Esteves, F. ; Torres Martí, A. ; Lawrence, C. ; Salomon, J. ; Paul, M. ; Lerman, Y. ; Rossini, A. ; Salvia, A. ; Vidal Samso, J. ; Fierro, J. / Phylogenetic lineages, clones and β-lactamases in an international collection of Klebsiella oxytoca isolates non-susceptible to expanded-spectrum cephalosporins. In: Journal of Antimicrobial Chemotherapy. 2015 ; Vol. 70, No. 12. pp. 3230-3237.
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abstract = "Objectives: The objective of this study was to examine Klebsiella oxytoca clonal and phylogenetic diversity, based on an international collection of carriage isolates non-susceptible to expanded-spectrum cephalosporins (ESCs). Methods: The study material comprised 68 rectal carriage K. oxytoca isolates non-susceptible to ESCs recovered in 2008-11 from patients in 14 hospitals across Europe and Israel. ESC resistance was tested phenotypically; genes encoding ESBLs, AmpC cephalosporinases and carbapenemases were amplified and sequenced. The isolates were typed by PFGE and MLST, followed by sequencing of blaOXY genes. Results: MLSTand PFGE distinguished 34 STs and 47 pulsotypes among the isolates, respectively. Six STswere split into several pulsotypes each. Five STs were more prevalent (n=2-9) and occurred in several countries each, including ST2, ST9 and ST141, which belong to a growing international clonal complex (CC), CC2. Four phylogenetic lineages were distinguished, each with another type of chromosomal OXY-type β-lactamase. Three of these, with OXY-1/-5, OXY-2 types and OXY-4, corresponded to previously described phylogroups KoI, KoII and KoIV, respectively. A single isolate from Israel represented a distinct lineage with a newly defined OXY-7 type. The phylogroups showed interesting differences in mechanisms of ESC resistance; KoI strains rarely overexpressed the OXY enzymes but commonly produced ESBLs, whereas KoII strains often were OXY hyperproducers and carried ESBLs much less frequently. AmpCs (DHA-1) and carbapenemases (VIM-1) occurred sporadically. Conclusions: The study confirmed the high genetic diversity of the collection of K. oxytoca ESC-non-susceptible isolates, composed of phylogroups with distinct types of OXY-type β-lactamases, and revealed some STs of broad geographical distribution.",
author = "R. Izdebski and J. Fiett and P. Urbanowicz and A. Baraniak and Derde, {L. P G} and Bonten, {M. J M} and Y. Carmeli and H. Goossens and W. Hryniewicz and C. Brun-Buisson and S. Brisse and M. Gniadkowski and M. Herda and Dautzenberg, {M. J.} and A. Adler and M. Kazma and S. Navon-Venezia and S. Malhotra-Kumar and C. Lammens and P. Legrand and A. Chalfine and H. Giamarellou and Petrikkos, {G. L.} and A. Balode and U. Dumpis and P. Stammet and I. Aragăo and F. Esteves and {Torres Mart{\'i}}, A. and C. Lawrence and J. Salomon and M. Paul and Y. Lerman and A. Rossini and A. Salvia and {Vidal Samso}, J. and J. Fierro",
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TY - JOUR

T1 - Phylogenetic lineages, clones and β-lactamases in an international collection of Klebsiella oxytoca isolates non-susceptible to expanded-spectrum cephalosporins

AU - Izdebski, R.

AU - Fiett, J.

AU - Urbanowicz, P.

AU - Baraniak, A.

AU - Derde, L. P G

AU - Bonten, M. J M

AU - Carmeli, Y.

AU - Goossens, H.

AU - Hryniewicz, W.

AU - Brun-Buisson, C.

AU - Brisse, S.

AU - Gniadkowski, M.

AU - Herda, M.

AU - Dautzenberg, M. J.

AU - Adler, A.

AU - Kazma, M.

AU - Navon-Venezia, S.

AU - Malhotra-Kumar, S.

AU - Lammens, C.

AU - Legrand, P.

AU - Chalfine, A.

AU - Giamarellou, H.

AU - Petrikkos, G. L.

AU - Balode, A.

AU - Dumpis, U.

AU - Stammet, P.

AU - Aragăo, I.

AU - Esteves, F.

AU - Torres Martí, A.

AU - Lawrence, C.

AU - Salomon, J.

AU - Paul, M.

AU - Lerman, Y.

AU - Rossini, A.

AU - Salvia, A.

AU - Vidal Samso, J.

AU - Fierro, J.

PY - 2015

Y1 - 2015

N2 - Objectives: The objective of this study was to examine Klebsiella oxytoca clonal and phylogenetic diversity, based on an international collection of carriage isolates non-susceptible to expanded-spectrum cephalosporins (ESCs). Methods: The study material comprised 68 rectal carriage K. oxytoca isolates non-susceptible to ESCs recovered in 2008-11 from patients in 14 hospitals across Europe and Israel. ESC resistance was tested phenotypically; genes encoding ESBLs, AmpC cephalosporinases and carbapenemases were amplified and sequenced. The isolates were typed by PFGE and MLST, followed by sequencing of blaOXY genes. Results: MLSTand PFGE distinguished 34 STs and 47 pulsotypes among the isolates, respectively. Six STswere split into several pulsotypes each. Five STs were more prevalent (n=2-9) and occurred in several countries each, including ST2, ST9 and ST141, which belong to a growing international clonal complex (CC), CC2. Four phylogenetic lineages were distinguished, each with another type of chromosomal OXY-type β-lactamase. Three of these, with OXY-1/-5, OXY-2 types and OXY-4, corresponded to previously described phylogroups KoI, KoII and KoIV, respectively. A single isolate from Israel represented a distinct lineage with a newly defined OXY-7 type. The phylogroups showed interesting differences in mechanisms of ESC resistance; KoI strains rarely overexpressed the OXY enzymes but commonly produced ESBLs, whereas KoII strains often were OXY hyperproducers and carried ESBLs much less frequently. AmpCs (DHA-1) and carbapenemases (VIM-1) occurred sporadically. Conclusions: The study confirmed the high genetic diversity of the collection of K. oxytoca ESC-non-susceptible isolates, composed of phylogroups with distinct types of OXY-type β-lactamases, and revealed some STs of broad geographical distribution.

AB - Objectives: The objective of this study was to examine Klebsiella oxytoca clonal and phylogenetic diversity, based on an international collection of carriage isolates non-susceptible to expanded-spectrum cephalosporins (ESCs). Methods: The study material comprised 68 rectal carriage K. oxytoca isolates non-susceptible to ESCs recovered in 2008-11 from patients in 14 hospitals across Europe and Israel. ESC resistance was tested phenotypically; genes encoding ESBLs, AmpC cephalosporinases and carbapenemases were amplified and sequenced. The isolates were typed by PFGE and MLST, followed by sequencing of blaOXY genes. Results: MLSTand PFGE distinguished 34 STs and 47 pulsotypes among the isolates, respectively. Six STswere split into several pulsotypes each. Five STs were more prevalent (n=2-9) and occurred in several countries each, including ST2, ST9 and ST141, which belong to a growing international clonal complex (CC), CC2. Four phylogenetic lineages were distinguished, each with another type of chromosomal OXY-type β-lactamase. Three of these, with OXY-1/-5, OXY-2 types and OXY-4, corresponded to previously described phylogroups KoI, KoII and KoIV, respectively. A single isolate from Israel represented a distinct lineage with a newly defined OXY-7 type. The phylogroups showed interesting differences in mechanisms of ESC resistance; KoI strains rarely overexpressed the OXY enzymes but commonly produced ESBLs, whereas KoII strains often were OXY hyperproducers and carried ESBLs much less frequently. AmpCs (DHA-1) and carbapenemases (VIM-1) occurred sporadically. Conclusions: The study confirmed the high genetic diversity of the collection of K. oxytoca ESC-non-susceptible isolates, composed of phylogroups with distinct types of OXY-type β-lactamases, and revealed some STs of broad geographical distribution.

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