Longitudinal fecal metagenomes of healthy Peruvian infants
298 fecal metagenome samples from healthy infants in peri-urban Lima, Peru, collected longitudinally between 3-16 months of age as part of a cohort study of enteric infections. machine-written summary
298 samples · 298 runs · PE · Infant / toddler · 2025 · 8.10 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 596 sample values (collection date, country) |
| ✓ Abstract / description | 298 sample values (health condition) |
| ✓ Full text | 894 sample values (location locality, location region, preterm status) · PMC12323407 |
| ✓ Supplementary tables | 596 sample values (age, subject id) |
| – 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
54 of 54 people sampled more than once (298 samples; median 6, up to 6 per person) · follow-up median 13 mo (max 13 mo) · median interval between samples 3 mo (time from age at collection). Schedule stated by the source: “Longitudinal fecal sampling of same children from 3 to 16 months of age; exact intervals not stated.”.
Each row is one person (36 shown of 54); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 293 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 | 298 | 100% | ||||
| country | 298 | 100% | 298 | |||
| health_condition | 298 | 100% | 298 | |||
| subject_id | 298 | 100% | 298 | |||
| age_at_collection_days | 298 | 100% | 298 | |||
| collection_date | 298 | 100% | 298 | |||
| detailed_location | 298 | 100% | ||||
| location_locality | 298 | 100% | 298 | |||
| location_region | 298 | 100% | 298 | |||
| preterm_status | 298 | 100% | 298 |
- Role of the gut microbiome in frequent gut colonization with extended-spectrum β lactamase-producing Enterobacterales among Peruvian children. PMID 40755247 PMC12323407 curated
Archive description
Fecal metagenomes from 54 healthy children living in peri-urban Lima, sampled longitudinally from 3-16 months. Children participated in an cohort study of enteric infections from 2016-2019 (NIH R01AI108695-01A )
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child and 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 · “Fecal metagenomes of Peruvian”
- body site study.description · “Fecal metagenomes from 54”
- life stage study.title · “metagenomes of Peruvian children”
- life stage study.description · “from 54 healthy children living in peri-urban”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN42686832 | age_at_collection_days | 91 | R2 | 0.85 | paper.supp.table | Rounded child age (months)=3 |
| SAMN42686832 | collection_date | 2017-01-02 | R1 | 0.85 | biosample.attribute:collection_date | 2017-01-02T15:02:00Z |
| SAMN42686832 | country | PE | R1 | 0.90 | biosample_attr | Peru: Lima |
| SAMN42686832 | health_condition | healthy_control | R4 | 0.45 | study.description | 54 healthy children living in peri-urban Lima |
| SAMN42686832 | location_locality | Villa El Salvador | R3 | 0.70 | paper.fulltext.methods | Villa El Salvador, Lima, Peru |
| SAMN42686832 | location_region | Lima | R3 | 0.70 | paper.fulltext.methods | Villa El Salvador, Lima, Peru |
| SAMN42686832 | preterm_status | term | R3 | 0.80 | paper.fulltext.methods | Full-term babies were enrolled no later than 4 weeks |
| SAMN42686832 | subject_id | 3 | R2 | 0.85 | paper.supp.table | Child ID=3 |
Sequencing
298 runs over 298 samples · mean 7.88 Gbp per run (median 8.10 Gbp, total 2,348.60 Gbp; 298 runs with a base count) · layout PAIRED 298 · platform ILLUMINA 298 · models Illumina NovaSeq 6000 (298) · 98% of runs with a Sandpiper profile · first public 2025-07-16
Authors (9)
Nadimpalli ML first · Sehgal N · Rojas-Salvatierra L · Gilman RH · Earl AM · Worby CJ · Schwab M · Pickering AJ · Pajuelo MJ last
Downloads
PRJNA1138246.csv.gz (10.8 KB) · parquet (83.7 KB) — all 298 samples, every field with route and confidence · PRJNA1138246_determinations.csv.gz (18.2 KB) — 2,384 evidence rows