The ST131 Escherichia coli H22 subclone from human intestinal microbiota: Comparison of genomic and phenotypic traits with those of the globally successful H30 subclone
Abstract Background In 2006, we found healthy subjects carrying ST131 Escherichia coli in their intestinal microbiota consisting of two populations: a subdominant population of fluoroquinolone-resistant E. coli belonging to subclone H30 (H30-R or subclade C1), the current worldwide dominant ST131 su...
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| Language: | English |
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BMC
2017-03-01
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| Series: | BMC Microbiology |
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| Online Access: | http://link.springer.com/article/10.1186/s12866-017-0984-8 |
| _version_ | 1818192980233682944 |
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| author | Marie-Hélène Nicolas-Chanoine Marie Petitjean Azucena Mora Noémie Mayer Jean-Philippe Lavigne Olivier Boulet Véronique Leflon-Guibout Jorge Blanco Didier Hocquet |
| author_facet | Marie-Hélène Nicolas-Chanoine Marie Petitjean Azucena Mora Noémie Mayer Jean-Philippe Lavigne Olivier Boulet Véronique Leflon-Guibout Jorge Blanco Didier Hocquet |
| author_sort | Marie-Hélène Nicolas-Chanoine |
| collection | DOAJ |
| description | Abstract Background In 2006, we found healthy subjects carrying ST131 Escherichia coli in their intestinal microbiota consisting of two populations: a subdominant population of fluoroquinolone-resistant E. coli belonging to subclone H30 (H30-R or subclade C1), the current worldwide dominant ST131 subclone, and a dominant E. coli population composed of antibiotic-susceptible E. coli belonging to subclone H22 (clade B), the precursor of subclone H30. We sequenced the whole genome of fecal H22 strain S250, compared it to the genomes of ExPEC ST131 H30-Rx strain JJ1886 and commensal ST131 H41 strain SE15, sought the H22-H30 genomic differences in our fecal strains and assessed their phenotypic consequences. Results We detected 173 genes found in the Virulence Factor Database, of which 148 were shared by the three ST131 genomes, whereas some were genome-specific, notably those allowing determination of virotype (D for S250 and C for JJ1886). We found three sequences of the FimH site involved in adhesion: two in S250 and SE15 close and identical, respectively, to that previously reported to confer strong intestinal adhesion, and one in JJ1886, corresponding to that commonly present in uropathogenic E. coli. Among the genes involved in sugar metabolism, one encoding a gluconate kinase lacked in S250 and JJ1886. Although this gene was also absent in both our fecal H22 and H30-R strains, H22 strains showed a higher capacity to grow in minimal medium with gluconate. Among the genes involved in gluconate metabolism, only the ghrB gene differed between S250/H22 and JJ1886/H30-R strains, resulting in different gluconate reductases. Of the genes involved in biofilm formation, two were absent in the three genomes and one, fimB, in the JJ1886 genome. Our fecal H30-R strains lacking intact fimB displayed delayed biofilm formation relative to our fecal H22 strains. The H22 strains differed by subclade B type and plasmid content, whereas the H30-R strains were identical. Conclusions Phenotypic analysis of our fecal strains based on observed genomic differences between S250 and JJ1886 strains suggests the presence of traits related to bacterial commensalism in our H22 strains and traits commonly found in uropathogenic E. coli in our H30-R strains. |
| first_indexed | 2024-12-12T00:39:07Z |
| format | Article |
| id | doaj.art-9fe88f6ccf7e43f7b872fc204754d936 |
| institution | Directory Open Access Journal |
| issn | 1471-2180 |
| language | English |
| last_indexed | 2024-12-12T00:39:07Z |
| publishDate | 2017-03-01 |
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| spelling | doaj.art-9fe88f6ccf7e43f7b872fc204754d9362022-12-22T00:44:18ZengBMCBMC Microbiology1471-21802017-03-0117111210.1186/s12866-017-0984-8The ST131 Escherichia coli H22 subclone from human intestinal microbiota: Comparison of genomic and phenotypic traits with those of the globally successful H30 subcloneMarie-Hélène Nicolas-Chanoine0Marie Petitjean1Azucena Mora2Noémie Mayer3Jean-Philippe Lavigne4Olivier Boulet5Véronique Leflon-Guibout6Jorge Blanco7Didier Hocquet8Service de Microbiologie, Hôpital Beaujon, AP-HPLaboratoire d’Hygiène Hospitalière, CHRU BesançonLaboratorio de Referencia de E. coli (LREC), Facultad de Veterinaria, Universidad de Santiago de CompostelaService de Microbiologie, Hôpital Beaujon, AP-HPInstitut National de la Santé et de la Recherche Médicale, U1047, Université de Montpellier, UFR de MédecineLaboratoire d’Analyse Médicale du CentreService de Microbiologie, Hôpital Beaujon, AP-HPLaboratorio de Referencia de E. coli (LREC), Facultad de Veterinaria, Universidad de Santiago de CompostelaLaboratoire d’Hygiène Hospitalière, CHRU BesançonAbstract Background In 2006, we found healthy subjects carrying ST131 Escherichia coli in their intestinal microbiota consisting of two populations: a subdominant population of fluoroquinolone-resistant E. coli belonging to subclone H30 (H30-R or subclade C1), the current worldwide dominant ST131 subclone, and a dominant E. coli population composed of antibiotic-susceptible E. coli belonging to subclone H22 (clade B), the precursor of subclone H30. We sequenced the whole genome of fecal H22 strain S250, compared it to the genomes of ExPEC ST131 H30-Rx strain JJ1886 and commensal ST131 H41 strain SE15, sought the H22-H30 genomic differences in our fecal strains and assessed their phenotypic consequences. Results We detected 173 genes found in the Virulence Factor Database, of which 148 were shared by the three ST131 genomes, whereas some were genome-specific, notably those allowing determination of virotype (D for S250 and C for JJ1886). We found three sequences of the FimH site involved in adhesion: two in S250 and SE15 close and identical, respectively, to that previously reported to confer strong intestinal adhesion, and one in JJ1886, corresponding to that commonly present in uropathogenic E. coli. Among the genes involved in sugar metabolism, one encoding a gluconate kinase lacked in S250 and JJ1886. Although this gene was also absent in both our fecal H22 and H30-R strains, H22 strains showed a higher capacity to grow in minimal medium with gluconate. Among the genes involved in gluconate metabolism, only the ghrB gene differed between S250/H22 and JJ1886/H30-R strains, resulting in different gluconate reductases. Of the genes involved in biofilm formation, two were absent in the three genomes and one, fimB, in the JJ1886 genome. Our fecal H30-R strains lacking intact fimB displayed delayed biofilm formation relative to our fecal H22 strains. The H22 strains differed by subclade B type and plasmid content, whereas the H30-R strains were identical. Conclusions Phenotypic analysis of our fecal strains based on observed genomic differences between S250 and JJ1886 strains suggests the presence of traits related to bacterial commensalism in our H22 strains and traits commonly found in uropathogenic E. coli in our H30-R strains.http://link.springer.com/article/10.1186/s12866-017-0984-8E. coli ST131H22 genomeSugar metabolismMannose-binding FimH regionBiofilmSubclades B |
| spellingShingle | Marie-Hélène Nicolas-Chanoine Marie Petitjean Azucena Mora Noémie Mayer Jean-Philippe Lavigne Olivier Boulet Véronique Leflon-Guibout Jorge Blanco Didier Hocquet The ST131 Escherichia coli H22 subclone from human intestinal microbiota: Comparison of genomic and phenotypic traits with those of the globally successful H30 subclone BMC Microbiology E. coli ST131 H22 genome Sugar metabolism Mannose-binding FimH region Biofilm Subclades B |
| title | The ST131 Escherichia coli H22 subclone from human intestinal microbiota: Comparison of genomic and phenotypic traits with those of the globally successful H30 subclone |
| title_full | The ST131 Escherichia coli H22 subclone from human intestinal microbiota: Comparison of genomic and phenotypic traits with those of the globally successful H30 subclone |
| title_fullStr | The ST131 Escherichia coli H22 subclone from human intestinal microbiota: Comparison of genomic and phenotypic traits with those of the globally successful H30 subclone |
| title_full_unstemmed | The ST131 Escherichia coli H22 subclone from human intestinal microbiota: Comparison of genomic and phenotypic traits with those of the globally successful H30 subclone |
| title_short | The ST131 Escherichia coli H22 subclone from human intestinal microbiota: Comparison of genomic and phenotypic traits with those of the globally successful H30 subclone |
| title_sort | st131 escherichia coli h22 subclone from human intestinal microbiota comparison of genomic and phenotypic traits with those of the globally successful h30 subclone |
| topic | E. coli ST131 H22 genome Sugar metabolism Mannose-binding FimH region Biofilm Subclades B |
| url | http://link.springer.com/article/10.1186/s12866-017-0984-8 |
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