Necrotizing enterocolitis is preceded by increased gut bacterial replication, Klebsiella, and fimbriae-encoding bacteria

Matthew R. Olm, Nicholas Bhattacharya, Alexander Crits-Christoph, Brian A. Firek, Robyn Baker, Yun S. Song, Michael J. Morowitz, Jillian F. Banfield

Research output: Contribution to journalArticleResearchpeer-review

104 Citations (Scopus)

Abstract

Necrotizing enterocolitis (NEC) is a devastating intestinal disease that occurs primarily in premature infants. We performed genome-resolved metagenomic analysis of 1163 fecal samples from premature infants to identify microbial features predictive of NEC. Features considered include genes, bacterial strain types, eukaryotes, bacteriophages, plasmids, and growth rates. A machine learning classifier found that samples collected before NEC diagnosis harbored significantly more Klebsiella, bacteria encoding fimbriae, and bacteria encoding secondary metabolite gene clusters related to quorum sensing and bacteriocin production. Notably, replication rates of all bacteria, especially Enterobacteriaceae, were significantly higher 2 days before NEC diagnosis. The findings uncover biomarkers that could lead to early detection of NEC and targets for microbiome-based therapeutics.

Original languageEnglish
Article numbereaax5727
Number of pages12
JournalScience Advances
Volume5
Issue number12
DOIs
Publication statusPublished - Dec 2019
Externally publishedYes

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