Antibiotic Exposure, Common Morbidities and Main Intestinal Microbial Groups in Very Preterm Neonates: A Pilot Study
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Updated: Oct 2, 2025

Probiotic Studies in Neonatal Mice Using Gavage
Published on: January 27, 2019
Nicole Bozzi Cionci1, Laura Lucaccioni2, Elisa Pietrella3
1Department of Agricultural and Food Sciences, University of Bologna, 40127 Bologna, Italy.
Insights
Antibiotics in preterm infants can alter gut bacteria like Bifidobacterium and Bacteroides. While short-term effects were noted, microbial recovery occurred by 90 days, suggesting potential for targeted gut health strategies.
Area of Science:
- Microbiology
- Neonatal Medicine
- Gastroenterology
Background:
- Premature infants face higher infection risks and critical morbidities.
- Antibiotic use in neonates can disrupt the developing gut microbiota.
- Understanding gut microbial shifts is crucial for preterm infant health.
Purpose of the Study:
- To investigate specific intestinal bacteria in preterm neonates with common morbidities.
- To assess the impact of variable antibiotic treatment durations on gut microbiota.
- To correlate bacterial levels with clinical conditions and antibiotic exposure.
Main Methods:
- Stool sample collection at multiple time points (birth, 15, 30, 90 days).
- Quantitative PCR (qPCR) to measure key microbial groups (Bifidobacterium, Bacteroides fragilis, Enterobacteriaceae, Clostridium cluster I, total bacteria).
- Correlation analysis between microbial counts, antibiotic duration, and clinical factors.
Main Results:
- All measured microbial groups showed an increasing trend over time, particularly Bifidobacterium spp.
- Prolonged antibiotics temporarily reduced Clostridium and B. fragilis, with recovery by 90 days.
- Bacterial variations correlated with hospital stay, feeding methods, and mechanical ventilation.
Conclusions:
- Specific morbidities like late-onset sepsis and patent ductus arteriosus negatively impacted Bifidobacterium counts.
- Compromised respiratory conditions influenced B. fragilis levels.
- This research provides a foundation for identifying microbial biomarkers and developing strategies for healthy preterm infant gut development.
Abstract:
Prematurity exposes newborns to increased risks of infections and it is associated with critical morbidities. Preterm infants often require antibiotic therapies that can affect the correct establishment of gut microbiota. The aim of this study was to investigate targeted intestinal bacteria in preterm neonates with common morbidities and receiving antibiotic treatments of variable duration. Stool samples were collected after birth, at 15, 30 and 90 days of life. qPCR quantification of selected microbial groups (Bifidobacterium spp., Bacteroides fragilis group, Enterobacteriaceae, Clostridium cluster I and total bacteria) was performed and correlation between their levels, the duration of antibiotic treatment and different clinical conditions was studied. An increasing trend over time was observed for all microbial groups, especially for Bifdobacterium spp. Prolonged exposure to antibiotics in the first weeks of life affected Clostridium and B. fragilis levels, but these changes no longer persisted at 90 days of life. Variations of bacterial counts were associated with the length of hospital stay, feeding and mechanical ventilation. Late-onset sepsis and patent ductus arteriosus reduced the counts of Bifidobacterium, whereas B. fragilis was influenced by compromised respiratory conditions. This study can be a start point for the identification of microbial biomarkers associated with some common morbidities and tailored strategies for a healthy microbial development.
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