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Epidemiology and Surveillance

Population Structure of KPC-Producing Klebsiella pneumoniae Isolates from Midwestern U.S. Hospitals

Meredith S. Wright, Federico Perez, Lauren Brinkac, Michael R. Jacobs, Keith Kaye, Eric Cober, David van Duin, Steven H. Marshall, Andrea M. Hujer, Susan D. Rudin, Kristine M. Hujer, Robert A. Bonomo, Mark D. Adams
Meredith S. Wright
aJ. Craig Venter Institute, La Jolla, California, USA
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Federico Perez
bResearch Service, Louis Stokes Cleveland Department of Veterans Affairs Medical Center, Cleveland, Ohio, USA
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Lauren Brinkac
aJ. Craig Venter Institute, La Jolla, California, USA
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Michael R. Jacobs
cDepartment of Pathology, Case Western Reserve University and University Hospitals Case Medical Center, Cleveland, Ohio, USA
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Keith Kaye
dDetroit Medical Center, Detroit, Michigan, USA
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Eric Cober
eInfectious Diseases Department, Cleveland Clinic, Cleveland, Ohio, USA
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David van Duin
fDivision of Infectious Diseases, University of North Carolina, Chapel Hill, North Carolina, USA
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Steven H. Marshall
bResearch Service, Louis Stokes Cleveland Department of Veterans Affairs Medical Center, Cleveland, Ohio, USA
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Andrea M. Hujer
bResearch Service, Louis Stokes Cleveland Department of Veterans Affairs Medical Center, Cleveland, Ohio, USA
gDepartment of Medicine, Case Western Reserve University, Cleveland, Ohio, USA
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Susan D. Rudin
bResearch Service, Louis Stokes Cleveland Department of Veterans Affairs Medical Center, Cleveland, Ohio, USA
gDepartment of Medicine, Case Western Reserve University, Cleveland, Ohio, USA
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Kristine M. Hujer
bResearch Service, Louis Stokes Cleveland Department of Veterans Affairs Medical Center, Cleveland, Ohio, USA
gDepartment of Medicine, Case Western Reserve University, Cleveland, Ohio, USA
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Robert A. Bonomo
bResearch Service, Louis Stokes Cleveland Department of Veterans Affairs Medical Center, Cleveland, Ohio, USA
gDepartment of Medicine, Case Western Reserve University, Cleveland, Ohio, USA
hDepartment of Pharmacology, Case Western Reserve University, Cleveland, Ohio, USA
iDepartment of Molecular Biology and Microbiology, Case Western Reserve University, Cleveland, Ohio, USA
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Mark D. Adams
aJ. Craig Venter Institute, La Jolla, California, USA
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DOI: 10.1128/AAC.00125-14
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    FIG 1

    Phylogenetic trees and plasmid content. (A) Maximum likelihood tree generated from core SNVs using kSNP (11) for K. pneumoniae strains sequenced as part of this project and reference strains. The presence of plasmids is indicated by colored or open circles. Colored circles indicate substantially identical plasmids as inferred from draft genome sequences. Open circles indicate genomes that contain the same repA type but whose plasmid content and organization were not similar. Plasmids carrying the blaKPC gene are noted with a star under the plasmid name. (B) Core SNV tree constructed as in panel A but using only ST258 strains as input. Numbers at nodes represent bootstrap support (>50%).

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    FIG 2

    Comparison of IncFIIk plasmid content and organization of K. pneumoniae ST258 strains. IncFIIk plasmid sequences from PacBio Hierarchical Genome Assembly Pipeline (HGAP) assemblies and reference plasmids pBK32179, pNJST258-N1, and pKpQIL were aligned using Mauve (31). Colors indicate shared locally colinear blocks. Blue, replication genes (nomenclature as described in reference 26); yellow, Tn4401; red, antibiotic resistance genes.

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      Additional experimental details.

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    • Supplemental file 2 -

      Should be replaced with Supplemental file 2 revised (see below).

    • Supplemental file 2 revised -

      Supplemental Table S1: strain metadata and accession information. The original supplemental table file was misformatted, resulting in an incorrect shifting of the presented data.

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Population Structure of KPC-Producing Klebsiella pneumoniae Isolates from Midwestern U.S. Hospitals
Meredith S. Wright, Federico Perez, Lauren Brinkac, Michael R. Jacobs, Keith Kaye, Eric Cober, David van Duin, Steven H. Marshall, Andrea M. Hujer, Susan D. Rudin, Kristine M. Hujer, Robert A. Bonomo, Mark D. Adams
Antimicrobial Agents and Chemotherapy Jul 2014, 58 (8) 4961-4965; DOI: 10.1128/AAC.00125-14

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Population Structure of KPC-Producing Klebsiella pneumoniae Isolates from Midwestern U.S. Hospitals
Meredith S. Wright, Federico Perez, Lauren Brinkac, Michael R. Jacobs, Keith Kaye, Eric Cober, David van Duin, Steven H. Marshall, Andrea M. Hujer, Susan D. Rudin, Kristine M. Hujer, Robert A. Bonomo, Mark D. Adams
Antimicrobial Agents and Chemotherapy Jul 2014, 58 (8) 4961-4965; DOI: 10.1128/AAC.00125-14
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