Clostridia in premature neonates' gut: incidence, antibiotic susceptibility, and perinatal determinants influencing colonization
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Updated: May 1, 2026

Non-Invasive Model of Neuropathogenic Escherichia coli Infection in the Neonatal Rat
Published on: October 29, 2014
Laurent Ferraris1, Marie José Butel, Florence Campeotto
1Université Paris Descartes, EA4065, Faculté des Sciences Pharmaceutiques et Biologiques, Paris, France.
Insights
Clostridia commonly colonize premature neonates, with susceptibility to antibiotics, suggesting the NICU environment influences colonization. Antibiotic courses did not affect incidence but reduced colonization levels.
Area of Science:
- Microbiology
- Neonatalogy
- Infectious Diseases
Background:
- Gut microbiota in premature neonates (PN) is understudied, especially Clostridia colonization.
- Aberrant microbiota is a risk factor for intestinal infections in PN.
- Antibiotic use in PN and its impact on Clostridia colonization patterns are poorly understood.
Purpose of the Study:
- To determine Clostridium species distribution in PN feces.
- To analyze antimicrobial susceptibility patterns of Clostridium species in PN.
- To identify perinatal determinants of Clostridia colonization in PN.
Main Methods:
- Fecal samples collected from 76 premature neonates until hospital discharge.
- Clostridium species identification and antimicrobial susceptibility testing performed.
- Perinatal factors and Neonatal Intensive Care Unit (NICU) environment analyzed for colonization influence.
Main Results:
- 79% of PN were colonized by Clostridia, with increasing colonization during hospitalization.
- Clostridia strains were susceptible to tested anti-anaerobic antibiotics, except for Clostridium difficile.
- Antibiotic courses (antenatal or prolonged neonatal) reduced colonization levels, but not incidence. NICU environment influenced colonization incidence.
Conclusions:
- Clostridia are a common component of the premature neonate gut microbiota.
- High Clostridia prevalence is not due to antibiotic resistance; strains are largely susceptible.
- The NICU environment is the primary perinatal determinant of Clostridia colonization in premature neonates.
Background:
Although premature neonates (PN) gut microbiota has been studied, data about gut clostridial colonization in PN are scarce. Few studies have reported clostridia colonization in PN whereas Bacteroides and bifidobacteria have been seldom isolated. Such aberrant gut microbiota has been suggested to be a risk factor for the development of intestinal infections. Besides, PN are often treated by broad spectrum antibiotics, but little is known about how antibiotics can influence clostridial colonization based on their susceptibility patterns. The aim of this study was to report the distribution of Clostridium species isolated in feces from PN and to determine their antimicrobial susceptibility patterns. Additionally, clostridial colonization perinatal determinants were analyzed.
Results:
Of the 76 PN followed until hospital discharge in three French neonatal intensive care units (NICUs), 79% were colonized by clostridia. Clostridium sp. colonization, with a high diversity of species, increased throughout the hospitalization. Antibiotic courses had no effect on the clostridial colonization incidence although strains were found susceptible (except C. difficile) to anti-anaerobe molecules tested. However, levels of colonization were decreased by either antenatal or neonatal (during more than 10 days) antibiotic courses (p = 0.006 and p = 0.001, respectively). Besides, incidence of colonization was depending on the NICU (p = 0.048).
Conclusion:
This study shows that clostridia are part of the PN gut microbiota. It provides for the first time information on the status of clostridia antimicrobial susceptibility in PN showing that strains were susceptible to most antibiotic molecules. Thus, the high prevalence of this genus is not linked to a high degree of resistance to antimicrobial agents or to the use of antibiotics in NICUs. The main perinatal determinant influencing PN clostridia colonization appears to be the NICU environment.
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