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Gut microbiota patterns associated with colonization of different Clostridium difficile ribotypes.

Skraban J, Dzeroski S, Zenko B, Mongus D, Gangl S, Rupnik M - PLoS ONE (2013)

Bottom Line: Bifidobacterium longum was the single most important species associated with C. difficile negative samples.Those patterns also differed between samples with C. difficile ribotype 027 and other C. difficile ribotypes.The results indicate that not only the presence of a single species/group is important but that certain combinations of gut microbes are associated with C. difficile carriage and that some ribotypes (027) might be associated with more disturbed microbiota than the others.

View Article: PubMed Central - PubMed

Affiliation: Faculty of Medicine, University of Maribor, Maribor, Slovenia.

ABSTRACT
C. difficile infection is associated with disturbed gut microbiota and changes in relative frequencies and abundance of individual bacterial taxons have been described. In this study we have analysed bacterial, fungal and archaeal microbiota by denaturing high pressure liquid chromatography (DHPLC) and with machine learning methods in 208 faecal samples from healthy volunteers and in routine samples with requested C. difficile testing. The latter were further divided according to stool consistency, C. difficile presence or absence and C. difficile ribotype (027 or non-027). Lower microbiota diversity was a common trait of all routine samples and not necessarily connected only to C. difficile colonisation. Differences between the healthy donors and C. difficile positive routine samples were detected in bacterial, fungal and archaeal components. Bifidobacterium longum was the single most important species associated with C. difficile negative samples. However, by machine learning approaches we have identified patterns of microbiota composition predictive for C. difficile colonization. Those patterns also differed between samples with C. difficile ribotype 027 and other C. difficile ribotypes. The results indicate that not only the presence of a single species/group is important but that certain combinations of gut microbes are associated with C. difficile carriage and that some ribotypes (027) might be associated with more disturbed microbiota than the others.

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Average numbers of bacterial and fungal groups in different sets of faecal samples.The average numbers of present bacterial and fungal groups within each sample set are presented as means with confidence bars plot. 027/F: C. difficile 027 ribotype/formed stool; 027/D: C. difficile 027 ribotype/diarrhoea; NEG/F: C. difficile negative/formed stool; NEG/D: C. difficile negative/diarrhoea; OTHER/F: C. difficile non 027 ribotype/formed stool; OTHER/D: C. difficile non 027 ribotype; HEALTHY: healthy donors.
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pone-0058005-g005: Average numbers of bacterial and fungal groups in different sets of faecal samples.The average numbers of present bacterial and fungal groups within each sample set are presented as means with confidence bars plot. 027/F: C. difficile 027 ribotype/formed stool; 027/D: C. difficile 027 ribotype/diarrhoea; NEG/F: C. difficile negative/formed stool; NEG/D: C. difficile negative/diarrhoea; OTHER/F: C. difficile non 027 ribotype/formed stool; OTHER/D: C. difficile non 027 ribotype; HEALTHY: healthy donors.

Mentions: Within each of the seven sample sets, we have determined the average number of bacterial or fungal groups (Fig. 5). The difference in the average number of present bacterial groups between the healthy volunteers and each of the six different routine sample sets was statistically significant (P<0.0001). The comparison of the average number of bacterial and fungal groups shows that the healthy donors had the highest number of bacterial groups (in average 16.54) while the highest average among the routine samples 12.69 was the one for formed/C. difficile negative stools. The lowest average number of bacterial groups was observed in the samples colonised with C.difficile ribotype 027 (9.69 and 11.10 for formed and diarrhoeal stools respectively). The fungal microbiota showed no difference in the average number of fungi between the healthy donors and routine samples (Fig. 5). Simpsońs reciprocal index of diversity showed similar differences between the sets of samples with healthy donors having significantly higher microbiota diversity (10.03) than routine samples (from 4.47 to 8.38). In addition, the samples colonised with the ribotype 027 had significantly lower diversity (4.47 and 5.37, formed and diarrhoeal samples respectively) than samples colonised with other C. difficile ribotypes (6.25 and 8.38, formed and diarrhoeal samples respectively). The diversity indexes and P-values are given in Supplementary table S2.


Gut microbiota patterns associated with colonization of different Clostridium difficile ribotypes.

Skraban J, Dzeroski S, Zenko B, Mongus D, Gangl S, Rupnik M - PLoS ONE (2013)

Average numbers of bacterial and fungal groups in different sets of faecal samples.The average numbers of present bacterial and fungal groups within each sample set are presented as means with confidence bars plot. 027/F: C. difficile 027 ribotype/formed stool; 027/D: C. difficile 027 ribotype/diarrhoea; NEG/F: C. difficile negative/formed stool; NEG/D: C. difficile negative/diarrhoea; OTHER/F: C. difficile non 027 ribotype/formed stool; OTHER/D: C. difficile non 027 ribotype; HEALTHY: healthy donors.
© Copyright Policy
Related In: Results  -  Collection

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getmorefigures.php?uid=PMC3585249&req=5

pone-0058005-g005: Average numbers of bacterial and fungal groups in different sets of faecal samples.The average numbers of present bacterial and fungal groups within each sample set are presented as means with confidence bars plot. 027/F: C. difficile 027 ribotype/formed stool; 027/D: C. difficile 027 ribotype/diarrhoea; NEG/F: C. difficile negative/formed stool; NEG/D: C. difficile negative/diarrhoea; OTHER/F: C. difficile non 027 ribotype/formed stool; OTHER/D: C. difficile non 027 ribotype; HEALTHY: healthy donors.
Mentions: Within each of the seven sample sets, we have determined the average number of bacterial or fungal groups (Fig. 5). The difference in the average number of present bacterial groups between the healthy volunteers and each of the six different routine sample sets was statistically significant (P<0.0001). The comparison of the average number of bacterial and fungal groups shows that the healthy donors had the highest number of bacterial groups (in average 16.54) while the highest average among the routine samples 12.69 was the one for formed/C. difficile negative stools. The lowest average number of bacterial groups was observed in the samples colonised with C.difficile ribotype 027 (9.69 and 11.10 for formed and diarrhoeal stools respectively). The fungal microbiota showed no difference in the average number of fungi between the healthy donors and routine samples (Fig. 5). Simpsońs reciprocal index of diversity showed similar differences between the sets of samples with healthy donors having significantly higher microbiota diversity (10.03) than routine samples (from 4.47 to 8.38). In addition, the samples colonised with the ribotype 027 had significantly lower diversity (4.47 and 5.37, formed and diarrhoeal samples respectively) than samples colonised with other C. difficile ribotypes (6.25 and 8.38, formed and diarrhoeal samples respectively). The diversity indexes and P-values are given in Supplementary table S2.

Bottom Line: Bifidobacterium longum was the single most important species associated with C. difficile negative samples.Those patterns also differed between samples with C. difficile ribotype 027 and other C. difficile ribotypes.The results indicate that not only the presence of a single species/group is important but that certain combinations of gut microbes are associated with C. difficile carriage and that some ribotypes (027) might be associated with more disturbed microbiota than the others.

View Article: PubMed Central - PubMed

Affiliation: Faculty of Medicine, University of Maribor, Maribor, Slovenia.

ABSTRACT
C. difficile infection is associated with disturbed gut microbiota and changes in relative frequencies and abundance of individual bacterial taxons have been described. In this study we have analysed bacterial, fungal and archaeal microbiota by denaturing high pressure liquid chromatography (DHPLC) and with machine learning methods in 208 faecal samples from healthy volunteers and in routine samples with requested C. difficile testing. The latter were further divided according to stool consistency, C. difficile presence or absence and C. difficile ribotype (027 or non-027). Lower microbiota diversity was a common trait of all routine samples and not necessarily connected only to C. difficile colonisation. Differences between the healthy donors and C. difficile positive routine samples were detected in bacterial, fungal and archaeal components. Bifidobacterium longum was the single most important species associated with C. difficile negative samples. However, by machine learning approaches we have identified patterns of microbiota composition predictive for C. difficile colonization. Those patterns also differed between samples with C. difficile ribotype 027 and other C. difficile ribotypes. The results indicate that not only the presence of a single species/group is important but that certain combinations of gut microbes are associated with C. difficile carriage and that some ribotypes (027) might be associated with more disturbed microbiota than the others.

Show MeSH
Related in: MedlinePlus