Global population structure, genomic diversity and carbohydrate fermentation characteristics of clonal complex 119 (CC119), an understudied Shiga toxin-producing E. coli (STEC) lineage including O165:H25 and O172:H25 Article Swipe
Keiji Nakamura
,
Kazuko Seto
,
Kenichi Lee
,
Tadasuke Ooka
,
Yasuhiro Gotoh
,
Itsuki Taniguchi
,
Yoshitoshi Ogura
,
Jacques Mainil
,
Denis Piérard
,
Tetsuya Harada
,
Yoshiki Etoh
,
Saori Ueda
,
Mitsuhiro Hamasaki
,
Junko Isobe
,
Keiko Kimata
,
Hiroshi Narimatsu
,
Jun Yatsuyanagi
,
Makoto Ohnishi
,
Sunao Iyoda
,
Tetsuya Hayashi
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1099/mgen.0.000959
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1099/mgen.0.000959
Among Shiga toxin (Stx)-producing Escherichia coli (STEC) strains of various serotypes, O157:H7 and five major non-O157 STEC (O26:H11, O111:H8, O103:H2, O121:H19 and O145:H28) can be selectively isolated by using tellurite-containing media. While human infections by O165:H25 STEC strains have been reported worldwide, their detection and isolation are not easy, as they are not resistant to tellurite. Systematic whole-genome sequencing (WGS) analyses have not yet been conducted. Here, we defined O165:H25 strains and their close relatives, including O172:H25 strains, as clonal complex 119 (CC119) and performed a global WGS analysis of the major lineage of CC119, called CC119 sensu stricto (CC119ss), by using 202 CC119ss strains, including 90 strains sequenced in this study. Detailed comparisons of 13 closed genomes, including 7 obtained in this study, and systematic analyses of Stx phage genomes in 50 strains covering the entire CC119ss lineage, were also conducted. These analyses revealed that the Stx2a phage, the locus of enterocyte effacement (LEE) encoding a type III secretion system (T3SS), many prophages encoding T3SS effectors, and the virulence plasmid were acquired by the common ancestor of CC119ss and have been stably maintained in this lineage, while unusual exchanges of Stx1a and Stx2c phages were found at a single integration site. Although the genome sequences of Stx2a phages were highly conserved, CC119ss strains exhibited notable variation in Stx2 production levels. Further analyses revealed the lack of SpLE1-like elements carrying the tellurite resistance genes in CC119ss and defects in rhamnose, sucrose, salicin and dulcitol fermentation. The genetic backgrounds underlying these defects were also clarified.
Related Topics
Concepts
Prophage
Biology
Genome
Shiga toxin
Virulence
Plasmid
Population
Microbiology
Genetics
Pathogenicity island
Multilocus sequence typing
Siphoviridae
Escherichia coli
Lineage (genetic)
Gene
Bacteriophage
Genotype
Sociology
Demography
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1099/mgen.0.000959
- OA Status
- gold
- Cited By
- 7
- References
- 82
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4360601101
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4360601101Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.1099/mgen.0.000959Digital Object Identifier
- Title
-
Global population structure, genomic diversity and carbohydrate fermentation characteristics of clonal complex 119 (CC119), an understudied Shiga toxin-producing E. coli (STEC) lineage including O165:H25 and O172:H25Work title
- Type
-
articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
- Publication date
-
2023-03-23Full publication date if available
- Authors
-
Keiji Nakamura, Kazuko Seto, Kenichi Lee, Tadasuke Ooka, Yasuhiro Gotoh, Itsuki Taniguchi, Yoshitoshi Ogura, Jacques Mainil, Denis Piérard, Tetsuya Harada, Yoshiki Etoh, Saori Ueda, Mitsuhiro Hamasaki, Junko Isobe, Keiko Kimata, Hiroshi Narimatsu, Jun Yatsuyanagi, Makoto Ohnishi, Sunao Iyoda, Tetsuya HayashiList of authors in order
- Landing page
-
https://doi.org/10.1099/mgen.0.000959Publisher landing page
- Open access
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YesWhether a free full text is available
- OA status
-
goldOpen access status per OpenAlex
- OA URL
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https://doi.org/10.1099/mgen.0.000959Direct OA link when available
- Concepts
-
Prophage, Biology, Genome, Shiga toxin, Virulence, Plasmid, Population, Microbiology, Genetics, Pathogenicity island, Multilocus sequence typing, Siphoviridae, Escherichia coli, Lineage (genetic), Gene, Bacteriophage, Genotype, Sociology, DemographyTop concepts (fields/topics) attached by OpenAlex
- Cited by
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7Total citation count in OpenAlex
- Citations by year (recent)
-
2025: 2, 2024: 5Per-year citation counts (last 5 years)
- References (count)
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82Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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