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Updated: Jun 11, 2026

Quantitative Polymerase Chain Reaction-based Analyses of Murine Intestinal Microbiota After Oral Antibiotic Treatment
Published on: November 17, 2018
Amoxicillin treatment modifies the composition of Bifidobacterium species in infant intestinal microbiota
I Mangin1, A Suau, M Gotteland
1Laboratoire de Biologie EA3199, Conservatoire national des arts et métiers, 2 rue Conté, Paris, France.
Insights
Amoxicillin treatment in infants did not change total Bifidobacterium counts but eliminated some species, reducing gut microbiota diversity. This impacts beneficial bacteria composition in children receiving antibiotics.
Area of Science:
- Microbiology
- Pediatric Medicine
- Gut Microbiome Research
Background:
- Amoxicillin is a widely used antibiotic in children.
- Few studies have investigated its impact on the gut microbiota composition, especially Bifidobacterium species.
- Bifidobacterium are considered beneficial microorganisms in the infant gut.
Purpose of the Study:
- To assess the impact of a seven-day amoxicillin treatment on the fecal Bifidobacterium species in infants.
- To quantitatively and qualitatively evaluate changes in Bifidobacterium populations during acute respiratory infection treatment.
Main Methods:
- Faecal samples collected from 31 infants before and after amoxicillin therapy.
- Quantification of Bifidobacteria using real-time PCR.
- Identification of predominant Bifidobacterium species using PCR-TTGE.
Main Results:
- Amoxicillin treatment did not significantly alter total Bifidobacteria concentrations.
- Complete disappearance of Bifidobacterium adolescentis and a significant decrease in Bifidobacterium bifidum were observed.
- No significant effect on Bifidobacterium longum and B. pseudocatenulatum/B. catenulatum.
- A significant reduction in the number of Bifidobacterium species per microbiota was noted.
Conclusions:
- A 7-day amoxicillin course does not alter overall Bifidobacterium counts in infants.
- Amoxicillin treatment can impact gut microbiota by altering species composition and reducing Bifidobacterium diversity.
- Changes in specific Bifidobacterium species may have implications for infant gut health.
Objectives:
Amoxicillin is a beta-lactam antibiotic largely used in childhood. However only few studies described its impact on composition of children gut microbiota, in particular on Bifidobacterium populations considered as beneficial microorganisms. In this study, the impact on faecal Bifidobacterium species of a seven-day amoxicillin treatment was quantitatively and qualitatively assessed in infants during an episode of acute respiratory infection.
Methods:
Faecal samples from 31 infants were obtained on day 0 (just before amoxicillin therapy) and on day 7 (the end of therapy). Total DNA was extracted and bifidobacteria were quantified using real-time PCR. Predominant Bifidobacterium species were then identified using specific PCR-TTGE.
Results:
Bifidobacteria concentrations were not significantly altered by amoxicillin compared to the healthy group. However, amoxicillin treatment induced a complete disappearance of Bifidobacterium adolescentis species (occurrence rate of 0% versus 36.4% in healthy group, P < 0.001), a significant decrease in the occurrence rate of Bifidobacterium bifidum (23% versus 54.5% in healthy group, P < 0.05), but did not affect Bifidobacterium longum (93.5% versus 100% in healthy group) and Bifidobacterium pseudocatenulatum/B. catenulatum (about 55% in both groups). The number of Bifidobacterium species per microbiota significantly decreased from 2.5 +/- 1 for healthy group to 1.8 +/- 0.9 for treated infants (P < 0.05).
Conclusions:
This study showed that a 7 day amoxicillin treatment did not alter the counts of Bifidobacterium. However amoxicillin can have an impact by changing the microbiota at the species level and decreased the diversity of this population.
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