Infant gut microbiome and brain development, Cork, Ireland
108 fecal samples from infants (and neonates) in the COMBINE study, Cork, Ireland, examining links between early-life gut microbiome and brain development/function, in a longitudinal cohort design. machine-written summary
108 samples · 343 runs · IE · Infant / toddler · 2026 · 4.80 Gbp / sample · cohort Early life microbial succession in the gut follows
One study deposited as 2 BioProjects (646 catalog samples together): PRJEB77202 · PRJNA1413407 · show together
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 540 sample values (age, collection date, country, subject id, timepoint) |
| ✓ Abstract / description | 216 sample values (location locality, location site) |
| ✓ Full text | 216 sample values (health condition, health condition detail) |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – 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 |
longitudinal
32 of 32 people sampled more than once (108 samples; median 3, up to 6 per person) · follow-up median 8 mo (max 12 mo) · median interval between samples 3 mo (time from age at collection). Schedule stated by the source: “Infant stool collected at multiple ages (donor_age_days: 2, 30, 60, 120, 180, 275, 365 days) per donor” (time origin: birth).
Each row is one person (32 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 107 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 | 108 | 100% | 108 | |||
| age_at_collection_days | 108 | 100% | 108 | |||
| collection_date | 108 | 100% | 108 | |||
| detailed_location | 108 | 100% | ||||
| health_condition_detail | 108 | 100% | 108 | |||
| location_locality | 108 | 100% | 108 | |||
| location_site | 108 | 100% | 108 | |||
| timepoint_label | 108 | 100% | 108 |
- Infant gut microbiomes contribute to metabolic states that impact brain function 2026 own_data
Archive description
This project investigates the relationship of the early-life gut microbiome to brain function and development, using infant fecal samples collected by the COMBINE study (Cork, Ireland). These samples were further used to establish preclinical models, including humanized-microbiota mice and bioreactors, to study the taxonomic and functional impact to the microbiome on infant behavior and metabolic health.
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.description · “of the early-life gut microbiome to brain”
- body site external_curation.infant_catalog · “infant triage verdict include (gut/stool scope)”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.description · “relationship of the early-life gut microbiome to”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN54876058 | age_at_collection_days | 60 | R1 | 0.90 | biosample_attr | 60 |
| SAMN54876058 | collection_date | 2016-07-12 | R1 | 0.85 | biosample.attribute:collection_date | collection_date: 2016-07-12 |
| SAMN54876058 | country | IE | R1 | 0.90 | biosample_attr | Ireland: Cork |
| SAMN54876058 | health_condition | healthy_control | R3 | 0.70 | paper.body.results | 456 Irish healthy term born infants from the third trimester of pregnancy to 2 years old |
| SAMN54876058 | health_condition_detail | healthy term born infants | R3 | 0.70 | paper.body.results | 456 Irish healthy term born infants from the third trimester of pregnancy to 2 years old |
| SAMN54876058 | location_locality | Cork | R4 | 0.45 | ena.study_description | COMBINE study (Cork, Ireland) |
| SAMN54876058 | location_site | COMBINE study | R4 | 0.45 | ena.study_description | COMBINE study (Cork, Ireland) |
| SAMN54876058 | subject_id | CID113 | R1 | 0.85 | biosample_attr | CID113 |
| SAMN54876058 | timepoint_label | 60 | R1 | 0.70 | sample.name_rule:donor_stool_id | CID113-60 |
Sequencing
343 runs over 108 samples · mean 4.57 Gbp per run (median 4.80 Gbp, total 1,567.57 Gbp; 343 runs with a base count) · layout PAIRED 343 · platform ILLUMINA 343 · models Illumina NovaSeq 6000 (252), NextSeq 2000 (72), Illumina NovaSeq X Plus (19) · 99% of runs with a Sandpiper profile · first public 2026-01-25
Authors (0)
No author record.
Downloads
PRJNA1413407.csv.gz (4.8 KB) · parquet (76.1 KB) — all 108 samples, every field with route and confidence · PRJNA1413407_determinations.csv.gz (7.4 KB) — 972 evidence rows