Gut microbiome in complicated SAM children, Zimbabwe/Zambia
685 stool and nasogastric fluid samples from hospitalised children with complicated severe acute malnutrition and adequately-nourished children in Zimbabwe and Zambia, in a longitudinal cohort following hospitalisation through 48 weeks post-discharge. machine-written summary
685 samples · 685 runs · ZW · Infant / toddler · 2026 · 1.79 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 685 sample values (country) |
| ○ Abstract / description | read; no usable statement |
| – Full text | no open-access full text linked |
| – 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
Schedule stated by the source: “stool during hospitalisation, at discharge and at three follow-up timepoints over 48 weeks post-discharge (12, 24 and 48 weeks post-discharge)”; stated follow-up 11 mo.
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 0 | 0% | ||||
| country | 685 | 100% | 685 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% |
- Gut microbiome and plasma metabolic signatures of one-carbon metabolism differentiate oedematous and non-oedematous severe acute malnutrition 2025 own_data
Archive description
Severe acute malnutrition (SAM) is the most life-threatening form of childhood undernutrition, affecting millions of children under five years of age annually. The gut microbiome is increasingly recognised as a key mediator of nutrient metabolism, immune function and growth in early childhood, yet its characterisation in children hospitalised with and recovering from complicated SAM remains limited. This dataset includes whole metagenome shotgun sequencing data generated from stool samples collected from adequately-nourished children and from children hospitalised with complicated SAM enrolled in the Health Outcomes, Pathogenesis and Epidemiology of Severe Acute Malnutrition (HOPE-SAM) study. A subset of participants also had nasogastric fluid collected and sequenced. HOPE-SAM was a longitudinal observational cohort conducted at three tertiary referral hospitals in Zimbabwe and Zambia. Stool samples were collected from children with complicated SAM during hospitalisation, at discharge and at three follow-up timepoints over 48 weeks post-discharge (12, 24 and 48 weeks post-discharge). Nasogastric fluid samples were collected during hospitalisation. Libraries were sequenced with 125-nucleotide paired-end reads on the Illumina HiSeqX platform. This dataset provides a longitudinal characterisation of the gut microbiome in complicated SAM across two sub-Saharan African countries, spanning the acute illness period through one year of nutritional rehabilitation and recovery, and represents a resource for investigating microbial contributions to the pathophysiology, treatment response and long-term outcomes of childhood SAM.
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 · “Gut microbiomes in children”
- body site study.description · “age annually. The gut microbiome is increasingly”
- life stage study.title · “Gut microbiomes in children with complicated severe”
- life stage study.description · “life-threatening form of childhood undernutrition, affecting millions”
- 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 |
|---|---|---|---|---|---|---|
| SAMN62057466 | country | ZW | R1 | 0.90 | biosample_attr | Zimbabwe: Harare |
Sequencing
685 runs over 685 samples · mean 1.82 Gbp per run (median 1.79 Gbp, total 1,248.10 Gbp; 685 runs with a base count) · layout PAIRED 685 · platform ILLUMINA 685 · models Illumina HiSeq X (685) · 0% of runs with a Sandpiper profile · first public 2026-08-01
Authors (0)
No author record.
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, health_condition, subject_id. Share metadata
Downloads
PRJNA1504428.csv.gz (17.1 KB) · parquet (97.7 KB) — all 685 samples, every field with route and confidence · PRJNA1504428_determinations.csv.gz (2.4 KB) — 685 evidence rows