Pediatric IBD and VEO-IBD Gut Microbiome, USA, Longitudinal

Dysbiosis is associated with pediatric and adult-onset inflammatory bowel disease (IBD), but the role of dysbiosis and the microbiome in very early onset IBD (VEO-IBD) has not yet been described. Here, we aimed to demonstrate the impact of age and inflammation on microbial community structure using shotgun metagenomic sequencing in children with VEO-IBD, pediatric-onset IBD, and age-matched pediatric healthy controls (HC) observed longitudinally over the course of 8 weeks. We found disease-related differences in alpha and beta diversity between HC and children with IBD or VEO-IBD. Using a healthy microbial maturity index modeled from HC across the age range to characterize their gut microbiota, we found that children with pediatric-onset IBD and VEO-IBD had lower maturity than their age-matched HC groups, suggesting a disease effect on the microbial community. In addition, patients with pediatric IBD had significantly lower maturity than those with VEO-IBD, who had more heterogeneity at the youngest ages, highlighting differences in these two cohorts that were not captured in standard comparisons of alpha and beta diversity. These results demonstrate that young age and inflammation independently impact microbial community structure. However, the effect is not additive in the youngest patients, likely because of the heterogeneous and dynamic stool microbiome in this population. The samples are split between this project and PRJNA562600. The full list of samples and their accession numbers can be found here: https://github.com/ctanes/dynamic_veo_sra

Classified as human gut / stool shotgun DNA metagenome of child and infant / toddler and adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.

• host external_curation.infant_catalog · “infant triage verdict include”
• body site study.title · “The Intestinal Microbiome of Inflammatory”
• body site study.description · “to characterize their gut microbiota, we found”
• life stage study.title · “Disease Across the Pediatric Age Range Raw”
• life stage study.description · “is associated with pediatric and adult-onset inflammatory”
• life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
• life stage study.description · “with pediatric and adult -onset inflammatory bowel”

436 runs over 436 samples · mean 1.81 Gbp per run (median 1.84 Gbp, total 791.14 Gbp; 436 runs with a base count) · layout PAIRED 436 · platform ILLUMINA 436 · models Illumina HiSeq 2500 (436) · 98% of runs with a Sandpiper profile · first public 2025-07-16

No author record.

PRJNA1045596.csv.gz (16.9 KB) · parquet (93.1 KB) — all 436 samples, every field with route and confidence · PRJNA1045596_determinations.csv.gz (33.4 KB) — 4,770 evidence rows