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Quantitative analysis of commensal Escherichia coli populations reveals host-specific enterotypes at the intra-species level.

Smati M, Clermont O, Bleibtreu A, Fourreau F, David A, Daubié AS, Hignard C, Loison O, Picard B, Denamur E - Microbiologyopen (2015)

Bottom Line: We then compared B2 strains isolated from animals and humans, and revealed that human and animal strains differ regarding O-type and B2 subgroup.Moreover, two genes, sfa/foc and clbQ, were associated with the exclusive character of strains, observed only in humans.In conclusion, a complex network of interactions exists at several levels (genus and intra-species) within the intestinal microbiota.

View Article: PubMed Central - PubMed

Affiliation: INSERM, IAME, UMR 1137, F-75018, Paris, France.

No MeSH data available.


Related in: MedlinePlus

Relative abundance of the Escherichia coli strains from the four main phylogroups (A, B1, B2, D) in each “enterocolitype” of animals (upper panel) and humans (lower panel). Enterocolitype 1 (wild rabbits and deer), enterocolitype 2 (domesticated rabbits, horses, sheep, cows), enterocolitype 3 (boar, pigs, chicken), enterocolitype 4 (human B2 “exclusive”), and enterocolitype 5 (human A dominant). Enterocolitypes 4 and 5 are based on data obtained from (Smati et al. 2013). The results are presented as box plots showing the distribution of the estimated CFU per gram of feces. The black bars within each box plot show the median value. The upper and lower limits of the box correspond to the upper and lower quartiles, respectively. Bars above and below the box correspond to 1.5 times the interquartile range. Dots located at some distance outside the box correspond to outliers lying more than 1.5 times beyond the interquartile range.
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fig02: Relative abundance of the Escherichia coli strains from the four main phylogroups (A, B1, B2, D) in each “enterocolitype” of animals (upper panel) and humans (lower panel). Enterocolitype 1 (wild rabbits and deer), enterocolitype 2 (domesticated rabbits, horses, sheep, cows), enterocolitype 3 (boar, pigs, chicken), enterocolitype 4 (human B2 “exclusive”), and enterocolitype 5 (human A dominant). Enterocolitypes 4 and 5 are based on data obtained from (Smati et al. 2013). The results are presented as box plots showing the distribution of the estimated CFU per gram of feces. The black bars within each box plot show the median value. The upper and lower limits of the box correspond to the upper and lower quartiles, respectively. Bars above and below the box correspond to 1.5 times the interquartile range. Dots located at some distance outside the box correspond to outliers lying more than 1.5 times beyond the interquartile range.

Mentions: The FAC analysis thus distinguished three main clusters of E. coli animal commensal populations differing in terms of the relative abundance of phylogroup strains that they contain. By analogy with the enterotypes defined at the genus level in the gut microbiota of humans (Arumugam et al. 2011), we propose the delineation of three “enterocolitypes” based on the FAC. Enterocolitype 1 is characterized by low counts of E. coli, dominance of the phylogenetic group B2, and low phylogenetic diversity. This enterocolitype is associated with wild and herbivorous animal species (wild rabbits and deer). Enterocolitype 2 is characterized by intermediate counts of E. coli and dominance of phylogenetic group B1, and is associated with the domesticated herbivorous animal species (domesticated rabbits, horses, sheep, and cows). Enterocolitype 3 is characterized by high counts of E. coli and dominance of phylogroup A associated with variable proportions of other groups, resulting in high phylogenetic diversity. This enterotype is associated with omnivorous species (boar, pigs, and chickens). The abundance of the strains from the phylogenetic groups A, B1, and D in these three enterocolitypes is significantly different (P < 0.001) (Fig.2, upper panel).


Quantitative analysis of commensal Escherichia coli populations reveals host-specific enterotypes at the intra-species level.

Smati M, Clermont O, Bleibtreu A, Fourreau F, David A, Daubié AS, Hignard C, Loison O, Picard B, Denamur E - Microbiologyopen (2015)

Relative abundance of the Escherichia coli strains from the four main phylogroups (A, B1, B2, D) in each “enterocolitype” of animals (upper panel) and humans (lower panel). Enterocolitype 1 (wild rabbits and deer), enterocolitype 2 (domesticated rabbits, horses, sheep, cows), enterocolitype 3 (boar, pigs, chicken), enterocolitype 4 (human B2 “exclusive”), and enterocolitype 5 (human A dominant). Enterocolitypes 4 and 5 are based on data obtained from (Smati et al. 2013). The results are presented as box plots showing the distribution of the estimated CFU per gram of feces. The black bars within each box plot show the median value. The upper and lower limits of the box correspond to the upper and lower quartiles, respectively. Bars above and below the box correspond to 1.5 times the interquartile range. Dots located at some distance outside the box correspond to outliers lying more than 1.5 times beyond the interquartile range.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4554456&req=5

fig02: Relative abundance of the Escherichia coli strains from the four main phylogroups (A, B1, B2, D) in each “enterocolitype” of animals (upper panel) and humans (lower panel). Enterocolitype 1 (wild rabbits and deer), enterocolitype 2 (domesticated rabbits, horses, sheep, cows), enterocolitype 3 (boar, pigs, chicken), enterocolitype 4 (human B2 “exclusive”), and enterocolitype 5 (human A dominant). Enterocolitypes 4 and 5 are based on data obtained from (Smati et al. 2013). The results are presented as box plots showing the distribution of the estimated CFU per gram of feces. The black bars within each box plot show the median value. The upper and lower limits of the box correspond to the upper and lower quartiles, respectively. Bars above and below the box correspond to 1.5 times the interquartile range. Dots located at some distance outside the box correspond to outliers lying more than 1.5 times beyond the interquartile range.
Mentions: The FAC analysis thus distinguished three main clusters of E. coli animal commensal populations differing in terms of the relative abundance of phylogroup strains that they contain. By analogy with the enterotypes defined at the genus level in the gut microbiota of humans (Arumugam et al. 2011), we propose the delineation of three “enterocolitypes” based on the FAC. Enterocolitype 1 is characterized by low counts of E. coli, dominance of the phylogenetic group B2, and low phylogenetic diversity. This enterocolitype is associated with wild and herbivorous animal species (wild rabbits and deer). Enterocolitype 2 is characterized by intermediate counts of E. coli and dominance of phylogenetic group B1, and is associated with the domesticated herbivorous animal species (domesticated rabbits, horses, sheep, and cows). Enterocolitype 3 is characterized by high counts of E. coli and dominance of phylogroup A associated with variable proportions of other groups, resulting in high phylogenetic diversity. This enterotype is associated with omnivorous species (boar, pigs, and chickens). The abundance of the strains from the phylogenetic groups A, B1, and D in these three enterocolitypes is significantly different (P < 0.001) (Fig.2, upper panel).

Bottom Line: We then compared B2 strains isolated from animals and humans, and revealed that human and animal strains differ regarding O-type and B2 subgroup.Moreover, two genes, sfa/foc and clbQ, were associated with the exclusive character of strains, observed only in humans.In conclusion, a complex network of interactions exists at several levels (genus and intra-species) within the intestinal microbiota.

View Article: PubMed Central - PubMed

Affiliation: INSERM, IAME, UMR 1137, F-75018, Paris, France.

No MeSH data available.


Related in: MedlinePlus