TY - JOUR
T1 - Fine-scale structure analysis shows epidemic patterns of clonal complex 95, a cosmopolitan Escherichia coli lineage responsible for extraintestinal infection
AU - Gordon, David M.
AU - Geyik, Sarah
AU - Clermont, Olivier
AU - O'Brien, Claire L.
AU - Huang, Shiwei
AU - Abayasekara, Charmalie
AU - Rajesh, Ashwin
AU - Kennedy, Karina
AU - Collignon, Peter
AU - Pavli, Paul
AU - Rodriguez, Christophe
AU - Johnston, Brian D.
AU - Johnson, James R.
AU - Decousser, Jean Winoc
AU - Denamur, Erick
N1 - Publisher Copyright:
© 2017 Gordon et al.
PY - 2017/5/1
Y1 - 2017/5/1
N2 - The Escherichia coli lineage known as clonal complex 95 (CC95) is a cosmopolitan human-associated lineage responsible for a significant fraction of extraintestinal infections of humans. Whole-genome sequence data of 200 CC95 strains from various origins enabled determination of the CC95 pangenome. The pangenome analysis revealed that strains of the complex could be assigned to one of five subgroups that vary in their serotype, extraintestinal virulence, virulence gene content, and antibiotic resistance gene profile. A total of 511 CC95 strains isolated from humans living in France, Australia, and the United States were screened for their subgroup membership using a PCR-based method. The CC95 subgroups are nonrandomly distributed with respect to their geographic origin. The relative frequency of the subgroups was shown to change through time, although the nature of the changes varies with continent. Strains of the subgroups are also nonrandomly distributed with respect to source of isolation (blood, urine, or feces) and host sex. Collectively, the evidence indicates that although strains belonging to CC95 may be cosmopolitan, human movement patterns have been insufficient to homogenize the distribution of the CC95 subgroups. Rather, the manner in which CC95 strains evolve appears to vary both spatially and temporally. Although CC95 strains appeared globally as pandemic, fine-scale structure analysis shows epidemic patterns of the CC95 subgroups. Furthermore, the observation that the relative frequency of CC95 subgroups at a single locality has changed over time indicates that the relative fitness of the subgroups has changed.
AB - The Escherichia coli lineage known as clonal complex 95 (CC95) is a cosmopolitan human-associated lineage responsible for a significant fraction of extraintestinal infections of humans. Whole-genome sequence data of 200 CC95 strains from various origins enabled determination of the CC95 pangenome. The pangenome analysis revealed that strains of the complex could be assigned to one of five subgroups that vary in their serotype, extraintestinal virulence, virulence gene content, and antibiotic resistance gene profile. A total of 511 CC95 strains isolated from humans living in France, Australia, and the United States were screened for their subgroup membership using a PCR-based method. The CC95 subgroups are nonrandomly distributed with respect to their geographic origin. The relative frequency of the subgroups was shown to change through time, although the nature of the changes varies with continent. Strains of the subgroups are also nonrandomly distributed with respect to source of isolation (blood, urine, or feces) and host sex. Collectively, the evidence indicates that although strains belonging to CC95 may be cosmopolitan, human movement patterns have been insufficient to homogenize the distribution of the CC95 subgroups. Rather, the manner in which CC95 strains evolve appears to vary both spatially and temporally. Although CC95 strains appeared globally as pandemic, fine-scale structure analysis shows epidemic patterns of the CC95 subgroups. Furthermore, the observation that the relative frequency of CC95 subgroups at a single locality has changed over time indicates that the relative fitness of the subgroups has changed.
KW - Clonal complex 95
KW - Epidemiology
KW - Escherichia coli
KW - Population genetics
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U2 - 10.1128/mSphere.00168-17
DO - 10.1128/mSphere.00168-17
M3 - Article
C2 - 28593194
AN - SCOPUS:85022218130
SN - 2379-5042
VL - 2
JO - mSphere
JF - mSphere
IS - 3
M1 - e00168-17
ER -