Microbiome diversity in non-industrial Burkina Faso adults
Cross-sectional study of 90 fecal samples from healthy individuals (mostly adults) in Burkina Faso, examining gut microbiome taxonomic and phylogenetic diversity related to short-chain fatty acid production and industrialization. machine-written summary
90 samples · 90 runs · BF · Age unknown · 2021 · 7.12 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 180 sample values (collection date, country) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 180 sample values (lifestyle, lifestyle detail) · PMC11009399, PMC7813856 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 360 sample values (age, health condition, health condition detail, sex) · from curatedMetagenomicData 3 (cMD 3) |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 81 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 | 81 | 90% | ||||
| country | 90 | 100% | 90 | |||
| health_condition | 90 | 100% | 90 | |||
| subject_id | 0 | 0% | ||||
| age_at_collection_days | 90 | 100% | 90 | |||
| collection_date | 90 | 100% | 90 | |||
| health_condition_detail | 90 | 100% | 90 | |||
| lifestyle | 90 | 100% | 90 | |||
| lifestyle_detail | 90 | 100% | 90 | |||
| sex | 90 | 100% | 90 |
- Analysis of global human gut metagenomes shows that metabolic resilience potential for short-chain fatty acid production is strongly influenced by lifestyle. 2021 PMID 33462272 PMC7813856 own_data
- Plasmids in the human gut reveal neutral dispersal and recombination that is overpowered by inflammatory diseases. 2024 PMID 38605009 PMC11009399 unsure
- Plasmid dispersal and recombination across human gut microbiomes is neutral, but overpowered by inflammatory diseases 2023 unsure
Archive description
Fecal samples collected from individuals in Burkina Faso to study how the ecology of the gut microbiome changes with industrialization
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.72. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “Fecal samples collected from individuals”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN17250427 | age_at_collection_days | 20088.75 | R2 | 0.75 | external.cmd source | age: 55; age_unit: Year; age_group: Adult |
| SAMN17250427 | collection_date | 2017-08 | R1 | 0.90 | biosample.attribute:collection_date | 2017-08 |
| SAMN17250427 | country | BF | R1 | 0.90 | sample.attr.geo_loc_name | Burkina Faso |
| SAMN17250427 | health_condition | healthy_control | R2 | 0.75 | external.cmd source | disease: Healthy |
| SAMN17250427 | health_condition_detail | Healthy | R2 | 0.75 | external.cmd source | disease: Healthy |
| SAMN17250427 | lifestyle | traditional_agriculturalist | R3 | 0.70 | paper.fulltext.methods | Rural Agriculturalist-Burkina Faso (n = 90) |
| SAMN17250427 | lifestyle_detail | Rural Agriculturalist - Burkina Faso | R3 | 0.70 | paper.fulltext.methods | Rural Agriculturalist-Burkina Faso (n = 90) |
| SAMN17250427 | sex | female | R2 | 0.75 | external.cmd source | sex: Female |
Sequencing
90 runs over 90 samples · mean 7.86 Gbp per run (median 7.12 Gbp, total 707.11 Gbp; 90 runs with a base count) · layout PAIRED 90 · platform ILLUMINA 90 · models Illumina NovaSeq 6000 (90) · 90% of runs with a Sandpiper profile · first public 2021-01-14
Authors (21)
Jacobson DK first · Honap TP · Ozga AT · Meda N · Kagoné TS · Carabin H · Spicer P · Tito RY · Obregon-Tito AJ · Reyes LM · Troncoso-Corzo L · Guija-Poma E · Sankaranarayanan K · Lewis CM last · Zorea A first · Pellow D · Levin L · Pilosof S · Friedman J · Shamir R · Mizrahi I last
Downloads
PRJNA690543.csv.gz (3.5 KB) · parquet (74.1 KB) — all 90 samples, every field with route and confidence · PRJNA690543_determinations.csv.gz (7.1 KB) — 720 evidence rows