Gut Metagenome of Healthy Cohort in Korogwe, Tanzania
Longitudinal cohort study of 68 stool samples from healthy individuals across age groups (infants to adults) in Korogwe District, Tanzania, sequenced by Illumina HiSeq 2500 with Nextera XT library preparation. machine-written summary
68 samples · 68 runs · TZ · Infant / toddler · 2019 · 4.93 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 68 sample values (country) |
| ✓ Abstract / description | 68 sample values (location region) |
| ○ Full text | read; no usable statement or table · PMC10234599 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 204 sample values (age, health condition, health condition detail) · 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 58 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 | 66 | 97% | ||||
| country | 68 | 100% | 68 | |||
| health_condition | 68 | 100% | 68 | |||
| subject_id | 0 | 0% | ||||
| age_at_collection_days | 68 | 100% | 68 | |||
| detailed_location | 68 | 100% | ||||
| health_condition_detail | 68 | 100% | 68 | |||
| location_region | 68 | 100% | 68 |
- Maternal and food microbial sources shape the infant microbiome of a rural Ethiopian population. PMID 37116481 PMC10234599 curated
Archive description
Stool samples of a cohort of individuals from Tanzania (Korogwe District). Samples weresequenced with Illumina HiSeq 2500 using NexteraXT library preparation.
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 · “Stool samples of a”
- 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)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN11283148 | age_at_collection_days | 8766.0 | R2 | 0.75 | external.cmd source | age: 24; age_unit: Year; age_group: Adult |
| SAMN11283148 | country | TZ | R1 | 0.90 | biosample_attr | Tanzania |
| SAMN11283148 | health_condition | healthy_control | R2 | 0.75 | external.cmd source | disease: Healthy |
| SAMN11283148 | health_condition_detail | Healthy | R2 | 0.75 | external.cmd source | disease: Healthy |
| SAMN11283148 | location_region | Korogwe District | R4 | 0.45 | ena.study_description | individuals from Tanzania (Korogwe District) |
Sequencing
68 runs over 68 samples · mean 5.01 Gbp per run (median 4.93 Gbp, total 340.96 Gbp; 68 runs with a base count) · layout PAIRED 68 · platform ILLUMINA 68 · models Illumina HiSeq 2500 (68) · 85% of runs with a Sandpiper profile · first public 2019-03-30
Authors (20)
Manara S first · Selma-Royo M · Huang KD · Asnicar F · Armanini F · Blanco-Miguez A · Cumbo F · Golzato D · Manghi P · Pinto F · Valles-Colomer M · Amoroso L · Corrias MV · Ponzoni M · Raffaetà R · Cabrera-Rubio R · Olcina M · Pasolli E · Collado MC · Segata N last
Downloads
PRJNA529400.csv.gz (2.9 KB) · parquet (72.8 KB) — all 68 samples, every field with route and confidence · PRJNA529400_determinations.csv.gz (3.8 KB) — 340 evidence rows