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Updated: Nov 20, 2025

Quantitative Polymerase Chain Reaction-based Analyses of Murine Intestinal Microbiota After Oral Antibiotic Treatment
Published on: November 17, 2018
Antibiotics and the developing intestinal microbiome, metabolome and inflammatory environment in a randomized trial
Jordan T Russell1, J Lauren Ruoss2, Diomel de la Cruz2
1Department of Microbiology and Cell Science, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, FL, USA.
Insights
Early antibiotic use in preterm infants may disrupt the gut microbiome and impact the gut-brain axis. This study explored antibiotic effects on the developing gut microbiome in neonates, finding a link between Veillonella and GABA.
Area of Science:
- Neonatal microbiome research
- Gut-brain axis studies
- Infant immunology
Background:
- Antibiotic administration in neonates, particularly preterm infants, can negatively affect gut microbiome development and increase morbidity risks.
- Current practices often involve routine antibiotic use in preterm neonates without strong evidence-based guidelines.
- The REASON study addresses this gap by investigating the impact of early antibiotic exposure.
Purpose of the Study:
- To assess the effects of early antibiotic use on the gut microbiome diversity in symptomatic preterm neonates.
- To explore the relationship between gut microbiome composition, metabolites, immune markers, and nutrition in early infant life.
- To investigate potential impacts on the gut-brain axis.
Main Methods:
- Longitudinal stool sample collection from 91 neonates.
- 16S rRNA sequencing for microbiome diversity analysis.
- Integration of microbiome, metabolomic, and immune marker data.
Main Results:
- Nutrition significantly shapes the early infant gut microbiome.
- An association was identified between the bacterium Veillonella and the neurotransmitter gamma-aminobutyric acid (GABA).
- Early antibiotic exposure may influence the gut-brain axis.
Conclusions:
- Early antibiotic use in preterm neonates may have implications for gut-brain axis development.
- Findings suggest a potential link between antibiotic-induced microbiome alterations and neurochemical pathways.
- Further validation in larger cohorts is warranted to confirm these preliminary findings.
Abstract:
Antibiotic use in neonates can have detrimental effects on the developing gut microbiome, increasing the risk of morbidity. A majority of preterm neonates receive antibiotics after birth without clear evidence to guide this practice. Here microbiome, metabolomic, and immune marker results from the routine early antibiotic use in symptomatic preterm Neonates (REASON) study are presented. The REASON study is the first trial to randomize symptomatic preterm neonates to receive or not receive antibiotics in the first 48 h after birth. Using 16S rRNA sequencing of stool samples collected longitudinally for 91 neonates, the effect of such antibiotic use on microbiome diversity is assessed. The results illustrate that type of nutrition shapes the early infant gut microbiome. By integrating data for the gut microbiome, stool metabolites, stool immune markers, and inferred metabolic pathways, an association was discovered between Veillonella and the neurotransmitter gamma-aminobutyric acid (GABA). These results suggest early antibiotic use may impact the gut-brain axis with the potential for consequences in early life development, a finding that needs to be validated in a larger cohort.Trial Registration This project is registered at clinicaltrials.gov under the name "Antibiotic 'Dysbiosis' in Preterm Infants" with trial number NCT02784821.
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