Gut microbiome in C-section infants, wellness trial, USA
108 gut microbiome samples from US infants (mostly C-section-born) in a randomized controlled trial evaluating a microbiome-based integrative wellness program's effect on gut microbiome composition and health outcomes. machine-written summary
108 samples · 108 runs · US · Infant / toddler · 2025 · 2.08 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 756 sample values (age, collection date, country, health condition, health condition detail, intervention, sex) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 216 sample values (delivery mode, preterm status) · PMC12405607 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| – External resources | not covered by the external resources we ingest |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
intervention · arms resolved
Other administered intervention (see intervention_detail) design randomized_controlled_trial · population other_disease · Microbiome reports, personalized recommendations, education, coaching calls over 6 months
“received two microbiome reports, personalized recommendations” — abstract:40898384 (study level; per-sample arms are in the intervention column below)
Genera, mean relative abundance over 108 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 108 | 100% | ||||
| country | 108 | 100% | 108 | |||
| health_condition | 108 | 100% | 108 | |||
| subject_id | 0 | 0% | ||||
| age_at_collection_days | 108 | 100% | 108 | |||
| collection_date | 108 | 100% | 108 | |||
| delivery_mode | 108 | 100% | 108 | |||
| health_condition_detail | 108 | 100% | 108 | |||
| intervention | 108 | 100% | 108 | |||
| preterm_status | 108 | 100% | 108 | |||
| sex | 108 | 100% | 108 |
- Improving immune-related health outcomes post-cesarean birth with a gut microbiome-based program: A randomized controlled trial. PMID 40898384 PMC12405607 curated
Archive description
The gut microbiome is proposed to play a crucial role in infant health. Infants born via Cesarean section often have a distinct gut microbiome with higher risks of atopic and immune-related conditions when compared to vaginally-delivered infants. This study evaluated a microbiome-based program's impact on gut microbiome composition and microbiome-associated health outcomes in C-section-born infants.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of infant / toddler by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage verdict include”
- body site study.title · “sequencing of the gut microbiome from infants”
- body site study.description · “The gut microbiome is proposed”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.title · “gut microbiome from infants enrolled in a”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN46072544 | age_at_collection_days | 130 | R1 | 0.70 | sample.attr.host_age | 130 |
| SAMN46072544 | collection_date | 2023-09-30 | R1 | 0.85 | biosample.attribute:collection_date | collection_date: 2023-09-30 |
| SAMN46072544 | country | US | R1 | 0.90 | biosample_attr | USA |
| SAMN46072544 | delivery_mode | c_section | R3 | 0.80 | paper.fulltext.abstract | full‐term C‐section‐born infants aged 0–3 months |
| SAMN46072544 | health_condition | other_disease | R1 | 0.50 | sample.attr.any_condition | any_condition=Conditions |
| SAMN46072544 | health_condition_detail | NoEczema | R1 | 0.90 | biosample.attribute:eczema | eczema: NoEczema |
| SAMN46072544 | intervention | other_intervention | R1 | 0.85 | biosample.attribute:treatment_group | treatment_group: Intervention |
| SAMN46072544 | preterm_status | term | R3 | 0.40 | paper.fulltext.methods | infants born at full term (≥36 weeks' gestation) |
| SAMN46072544 | sex | male | R1 | 0.90 | biosample_attr | male |
Sequencing
108 runs over 108 samples · mean 2.14 Gbp per run (median 2.08 Gbp, total 231.16 Gbp; 108 runs with a base count) · layout PAIRED 108 · platform ILLUMINA 108 · models Illumina NovaSeq 6000 (108) · 100% of runs with a Sandpiper profile · first public 2025-09-21
Authors (13)
Nieto PA first · Nakama C · Trachsel J · Goad D · Soderborg TK · Tan DS · Orlandi A · Yuan Q · Song E · Mueller NT · Mars RA · Hoy CS · Sukhum KV last
Downloads
PRJNA1206145.csv.gz (4.5 KB) · parquet (75.9 KB) — all 108 samples, every field with route and confidence · PRJNA1206145_determinations.csv.gz (7.4 KB) — 972 evidence rows