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Transcript of Downloaded from on April 4, 2020 by guest · tzv vdpsohg ll wkh67 l h wkhvdph67exwvhsdudwhge\odujh...
Escherichia coli
E. coli
JCM Accepted Manuscript Posted Online 22 April 2015J. Clin. Microbiol. doi:10.1128/JCM.00378-15Copyright © 2015, American Society for Microbiology. All Rights Reserved.
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Escherichia coli
E. coli
E. coli
E. coli
bla
bla bla
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Escherichia coli
E. coli
E. coli
E. coli
E. coli
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Staphylococcus aureus
E. coli
Sample description
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Laboratory methods
E. coli
E. coli
DNA extraction and sequencing
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Sequence read processing and data analysis
E. coli
de novo
in silico de
novo
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E. coli
Clostridium difficile
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E. coli
E. coli
E. coli
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E.
coli de novo
In silico multi-locus sequence (MLST) typing
silico E. coli
fumC purA recA
Determination of genotypes accounting for cefpodoxime resistance
bla
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bla
bla bla
bla
bla
bla
bla bla
Analysis of within-host E. coli core and accessory genome diversity
E. coli
bla
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Significance of the study and implications for transmission studies of intestinally
carried CTX-M-positive E. coli
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E. coli
E. coli
E. coli
bla
E. coli
Clostridium difficile
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in silico
E. coli
Limitations of the study
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bla bla
bla
bla
bla
bla
bla bla
bla
bla
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Escherichia coli
bla
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Escherichia
Enterobacter cloacae
Escherichia coli
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Klebsiella pneumoniae
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Klebsiella
pneumoniae
Escherichia coli
Escherichia coli
Staphylococcus aureus
Staphylococcus aureus
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Escherichia coli
C. difficile
Escherichia coli
Escherichia coli Klebsiella pneumoniae
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Escherichia coli
Escherichia coli
Escherichia coli
Clostridium difficile
Escherichia coli
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Escherichia coli
Escherichia coli
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