# Early-Life β-Lactam Exposure and the Developing Microbiome: Clinical Relevance and Controversies

**Authors:** Nilima Rajpal Kundnani, Abhinav Sharma, Mihaela Codrina Levai, Lucretia Marin-Bancila, Doina Georgescu, Loredana Botas, Sorin Dan Chiriac, Mihaela Valcovici, Mihaela-Diana Popa

PMC · DOI: 10.3390/microorganisms14020440 · Microorganisms · 2026-02-12

## TL;DR

This paper reviews how early-life exposure to β-lactam antibiotics affects the developing microbiome and its potential impact on health outcomes.

## Contribution

The paper provides a critical evaluation of the clinical relevance and controversies surrounding β-lactam exposure and microbiome changes in early life.

## Key findings

- β-lactam antibiotics alter microbial composition, diversity, and function in early life.
- Compositional changes include decreases in Bifidobacterium and Lactobacillus and increases in Enterobacteriaceae.
- Associations with health outcomes are inconsistent and often confounded by host-related factors.

## Abstract

Antibiotic-induced dysbiosis has been increasingly implicated in a range of pediatric outcomes, yet the concept remains variably defined and often inconsistently applied. The purpose of this review is to provide an overview and critical evaluation of the available data regarding the effects of early-life exposure to β-lactam antibiotics on the developing microbiome. We conducted a narrative review of experimental and epidemiological studies examining β-lactam exposure during pregnancy, the perinatal period, and early childhood was conducted. β-lactams induce reproducible alterations in microbial composition, diversity, and metabolic function, including decreases in Bifidobacterium and Lactobacillus and a relative increase in Enterobacteriaceae and other facultative anaerobes, especially in early life. Reduced microbial diversity and changed short-chain fatty acid-producing taxa often accompany these compositional changes. However, associations with immune, metabolic, and neurodevelopmental outcomes are heterogeneous and frequently confounded by indication host-related factors. Evidence for causality in humans remains limited despite strong mechanistic support from animal models. Current data support cautious interpretation, even though β-lactam-associated microbiome perturbations may contribute to disease susceptibility during vulnerable developmental windows. While mechanistic and longitudinal evidence continues to develop, antibiotic stewardship focused on appropriate indication and duration is still crucial.

## Linked entities

- **Species:** Bifidobacterium (taxon 1678), Lactobacillus (taxon 1578), Enterobacteriaceae (taxon 543)

## Full-text entities

- **Genes:** EPO (erythropoietin) [NCBI Gene 2056] {aka DBAL, ECYT5, EP, MVCD2}, ALPI (alkaline phosphatase, intestinal) [NCBI Gene 248] {aka IAP}, TGFB1 (transforming growth factor beta 1) [NCBI Gene 7040] {aka CAEND1, CED, DPD1, IBDIMDE, LAP, TGF-beta1}, EGF (epidermal growth factor) [NCBI Gene 1950] {aka HOMG4, URG}, IL10 (interleukin 10) [NCBI Gene 3586] {aka CSIF, GVHDS, IL-10, IL10A, TGIF}
- **Diseases:** ulcerative colitis (MESH:D003093), bloodstream infection (MESH:D018805), immune dysregulation (OMIM:614878), chorioamnionitis (MESH:D002821), atopic dermatitis (MESH:D003876), developmental delays (MESH:D002658), Allergy (MESH:D004342), bacterial infections (MESH:D001424), Wheeze (MESH:D012135), IBD (MESH:D015212), BPD (MESH:D001997), urinary tract infections (MESH:D014552), acquired pneumonia (MESH:D000077299), food allergies (MESH:D005512), Crohn's disease (MESH:D003424), preterm birth (MESH:D047928), Infections (MESH:D007239), immune (MESH:D007154), FGIDs (MESH:D005767), Allergic Rhinitis (MESH:D065631), GBS disease (MESH:D011008), viral infections (MESH:D014777), CDAD (MESH:D003015), Secondary Infections (MESH:D060085), diarrheal (MESH:D004403), endotoxemia (MESH:D019446), Metabolic Dysregulation (MESH:D021081), preterm rupture of membranes (MESH:C563032), -related and metabolic illnesses (MESH:D008659), GBS (MESH:D003057), Atopic Diseases (MESH:D006969), Diarrhea (MESH:D003967), overweight (MESH:D050177), pulmonary inflammation (MESH:D011014), respiratory condition (MESH:D012131), visceral pain (MESH:D059265), neonatal sepsis (MESH:D000071074), staphylococcal colonization (MESH:D011023), Obesity (MESH:D009765), bleeding (MESH:D006470), Asthma (MESH:D001249), IBS (MESH:D053560), Dysbiosis (MESH:D064806), diabetes (MESH:D003920), ASD (MESH:D000067877), AAD (MESH:D004761), injury to (MESH:D014947), skin/soft-tissue infections (MESH:D018461), respiratory infections (MESH:D012141), inflammation (MESH:D007249), gastrointestinal symptoms (MESH:D012817), cerebral palsy (MESH:D002547), CDI (MESH:D020790), metabolic disturbances (MESH:D024821)
- **Chemicals:** glucose (MESH:D005947), SCFA (MESH:D005232), beta-Lactam (MESH:D047090), ampicillin (MESH:D000667), ampicillin/sulbactam (MESH:C035444), Prebiotics (MESH:D056692), cephalosporins (MESH:D002511), oligosaccharides (MESH:D009844), penicillin (MESH:D010406), Aminopenicillins (-), cefotaxime (MESH:D002439), bile acid (MESH:D001647), amoxicillin (MESH:D000658), carbapenems (MESH:D015780), vancomycin (MESH:D014640), benzylpenicillin (MESH:D010400), penems (MESH:D000077731), FOS (MESH:C116580), beta-lactam antibiotics (MESH:D008997), lactic acid (MESH:D019344), amoxicillin-clavulanate (MESH:D019980), phenoxymethylpenicillin (MESH:D010404), aminoglycoside (MESH:D000617)
- **Species:** gut metagenome (species) [taxon 749906], Parabacteroides (genus) [taxon 375288], Allium cepa (onion, species) [taxon 4679], Propionibacterium (genus) [taxon 1743], Enterobacteriaceae (enterobacteria, family) [taxon 543], Bacillota (clostridial firmicutes, phylum) [taxon 1239], Haemophilus influenzae (species) [taxon 727], Bifidobacterium (genus) [taxon 1678], Clostridioides difficile (species) [taxon 1496], Homo sapiens (human, species) [taxon 9606], Sneathia (genus) [taxon 168808], Helicobacter pylori (species) [taxon 210], Alistipes (genus) [taxon 239759], Staphylococcus (genus) [taxon 1279], Bacteria Latreille et al. 1825 (Bacteria stick insect, genus) [taxon 629395], Bacteroides (genus) [taxon 816], Segatella copri (species) [taxon 165179], Klebsiella oxytoca (species) [taxon 571], Streptococcus sp. 'group B' (species) [taxon 1319], Corynebacterium (genus) [taxon 1716], Streptococcus (genus) [taxon 1301], Enterobacterales (order) [taxon 91347], Aeromonas (genus) [taxon 642], Enterococcus (genus) [taxon 1350], Enterobacter (genus) [taxon 547], Saccharomyces boulardii [taxon 252598], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Lactobacillus (genus) [taxon 1578], Mus musculus (house mouse, species) [taxon 10090], Escherichia coli (E. coli, species) [taxon 562]

## Full text

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## Figures

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## References

216 references — full list in the complete paper: https://tomesphere.com/paper/PMC12942818/full.md

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Source: https://tomesphere.com/paper/PMC12942818