Legume intervention trial in Malawian infants for growth/EED
1392 samples from infants in Malawi, from a randomized controlled trial testing common bean or cowpea dietary interventions to improve growth, environmental enteric dysfunction, and the intestinal microbiome. machine-written summary
1,392 samples · 1,392 runs · MW · Infant / toddler · 2018 · 60.2 Mbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 12,766 sample values (age, bmi, collection date, country, intervention, sex, shared setting id, shared setting type) |
| ✓ Abstract / description | 2,784 sample values (lifestyle, lifestyle detail) |
| ○ Full text | read; no usable statement or table · PMC10092070, PMC10175488, PMC8518733, PMC9622858 |
| ✓ Supplementary tables | 61 sample values (birth weight grams, delivery mode) |
| ✓ External resources | 2,784 sample values (health condition, health condition detail) · from African Human Microbiome Portal (H3ABioNet) |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
intervention · arms resolved
Controlled / prescribed diet or feeding regimen design randomized_controlled_trial · population malnutrition · Common beans or cowpeas supplementation trial in children
“whether common beans or cowpeas improve growth” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinalcommunity
239 of 241 people sampled more than once (1,390 samples; median 6, up to 6 per person) · follow-up median 6 mo (max 11 mo) · median interval between samples 42 d (time from age at collection).
Each row is one person (36 shown of 239); dots are samples at days since that person's first sample.
241 rural Malawian children from 2 villages (Masenjere 134, Limela 107 children)2 shared settings.
member · circles are people (pale = no sequenced sample), arrows run donor → recipient and parent → child, curved lines join twins, partners and siblings, squares are shared settings or families without recorded roles. Shown: 2 shared settings. 241 people in the project overall.
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 1,392 | 100% | ||||
| country | 1,392 | 100% | 1,392 | |||
| health_condition | 1,392 | 100% | 1,392 | |||
| subject_id | 1,392 | 100% | 1,392 | |||
| age_at_collection_days | 1,392 | 100% | 1,392 | |||
| collection_date | 1,392 | 100% | 1,392 | |||
| health_condition_detail | 1,392 | 100% | 1,392 | |||
| intervention | 1,392 | 100% | 1,392 | |||
| lifestyle | 1,392 | 100% | 1,392 | |||
| lifestyle_detail | 1,392 | 100% | 1,392 | |||
| sex | 1,392 | 100% | 1,392 | |||
| shared_setting_id | 1,392 | 100% | 1,392 | |||
| shared_setting_type | 1,392 | 100% | 1,392 | |||
| timepoint_label | 1,392 | 100% | 1,392 | |||
| bmi | 238 | 17% | 238 | |||
| delivery_mode | 35 | 3% | 35 | |||
| birth_weight_grams | 26 | 2% | 26 |
- Investigating the infant gut microbiota in developing countries: worldwide metagenomic meta-analysis involving infants living in sub-urban areas of Côte d'Ivoire. PMID 34152069 PMC8518733 curated
- Designation of optimal reference strains representing the infant gut bifidobacterial species through a comprehensive multi-omics approach. PMID 36123315 PMC10092070 curated
- Exploring species-level infant gut bacterial biodiversity by meta-analysis and formulation of an optimized cultivation medium. PMID 36316342 PMC9622858 curated
- Comprehensive insights from composition to functional microbe-based biodiversity of the infant human gut microbiota. PMID 37169786 PMC10175488 curated
Archive description
Interventions to decrease the burden of childhood malnutrition are urgently needed, as millions of children die annually owing to undernutrition and hundreds of millions more are left cognitively and physically stunted. Environmental enteric dysfunction (EED), a pervasive chronic subclinical inflammatory condition among children that develops when complementary foods are introduced, places them at high risk of stunting, malabsorption, and poor oral vaccine efficacy. Improved interventions to reduce the burden of EED and stunting are expected to markedly improve the nutritional status and survival of children throughout resource-limited settings. We conducted two prospective randomized controlled clinical trials to determine whether common beans or cowpeas improve growth, ameliorate EED, and alter the intestinal microbiome during a high-risk period in the lives of rural Malawian children.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of infant / toddler and child by opus_adjudicated with confidence 0.45. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host study.description · “rural Malawian children”
- body site study.description · “alter the intestinal microbiome”
- body site run.scientific_name · “human gut metagenome”
- life stage study.description · “develops when complementary foods are introduced”
- life stage study.description · “rural Malawian children”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA104562364 | age_at_collection_days | 176 | R1 | 0.90 | biosample_attr | 5.78 |
| SAMEA104562612 | birth_weight_grams | 3340 | R2 | 0.75 | paper.supp.table | Birthweight=3.34 |
| SAMEA104562364 | bmi | 16.98 | R1 | 0.90 | biosample.attribute:bmi | bmi: 16.982703892896463 |
| SAMEA104562364 | collection_date | 2015-09-09 | R1 | 0.85 | biosample.attribute:collection_timestamp | 2015-09-09 |
| SAMEA104562364 | country | MW | R1 | 0.90 | biosample_attr | Malawi |
| SAMEA104562612 | delivery_mode | vaginal | R2 | 0.75 | paper.supp.table | mode of delivery=Vaginal |
| SAMEA104562364 | health_condition | healthy_control | R2 | 0.70 | external.ahmp source | DISEASE: Healthy |
| SAMEA104562364 | health_condition_detail | Healthy | R2 | 0.70 | external.ahmp source | DISEASE: Healthy |
| SAMEA104562364 | intervention | dietary_supplement | R1 | 0.85 | biosample.attribute:intervention | Cowpea |
| SAMEA104562364 | lifestyle | rural_non_industrialized | R4 | 0.45 | ena.study_description | rural Malawian children |
| SAMEA104562364 | lifestyle_detail | rural Malawian children | R4 | 0.45 | ena.study_description | rural Malawian children |
| SAMEA104562364 | sex | female | R1 | 0.90 | biosample_attr | female |
| SAMEA104562364 | shared_setting_id | Masenjere | R1 | 0.85 | biosample.attribute:village | village: Masenjere |
| SAMEA104562364 | shared_setting_type | village_or_community | R1 | 0.85 | biosample.attribute:village | village: Masenjere |
| SAMEA104562364 | subject_id | 109 | R1 | 0.85 | biosample_attr | 109 |
| SAMEA104562364 | timepoint_label | 0 | R1 | 0.80 | biosample_attr | 0 |
Sequencing
1,392 runs over 1,392 samples · mean 76.0 Mbp per run (median 60.2 Mbp, total 105.85 Gbp; 1,392 runs with a base count) · layout SINGLE 1,392 · platform ILLUMINA 1,392 · models Illumina HiSeq 4000 (1,392) · 0% of runs with a Sandpiper profile · first public 2018-03-07
Authors (24)
Fontana F first · Mancabelli L · Lugli GA · Taracchini C · Alessandri G · Longhi G · Anzalone R · Viappiani A · Famo R · Brognan M · Micondo KH · Turroni F · Ventura M · D'Alfonso R · Milani C last · Tarracchini C · Bianchi MG · Rizzo SM · Argentini C · Vergna LM · Taurino G · Chiu M · Bussolati O · van Sinderen D
Downloads
PRJEB24771.csv.gz (48.1 KB) · parquet (130.9 KB) — all 1,392 samples, every field with route and confidence · PRJEB24771_determinations.csv.gz (135.2 KB) — 18,395 evidence rows