Gut culturomics vs metagenomics in healthy adults, Bucheon
Cross-sectional study of 3 stool samples from healthy controls in Bucheon, South Korea, comparing culturomics (bacterial isolation) with 16S rRNA gene amplicon metagenomics to assess gut microbial diversity. machine-written summary
3 samples · 3 runs · KR · Age unknown · 2026 · 12.10 Gbp / sample · cohort Culture-based characterization of gut microbiota i
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 18 sample values (collection date, country, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 9 sample values (health condition, health condition detail, subject id) · PMC11368911, PMC11884817, PMC13220843 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| – 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 |
Genera, mean relative abundance over 3 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 | 0 | 0% | ||||
| country | 3 | 100% | 3 | |||
| health_condition | 3 | 100% | 3 | |||
| subject_id | 3 | 100% | 3 | |||
| collection_date | 3 | 100% | 3 | |||
| detailed_location | 3 | 100% | ||||
| health_condition_detail | 3 | 100% | 3 | |||
| latitude | 3 | 100% | 3 | |||
| location_locality | 3 | 100% | 3 | |||
| location_region | 3 | 100% | 3 | |||
| longitude | 3 | 100% | 3 |
- A streamlined culturomics case study for the human gut microbiota research. 2024 PMID 39223323 PMC11368911 own_data
- Dereplication-assisted culturomics enables strain-level ecological analysis of the human gut microbiome. 2026 PMID 42206586 PMC13220843 own_data
- Culture-based characterization of gut microbiota in inflammatory bowel disease. 2025 PMID 40051478 PMC11884817 unsure
Archive description
A goal of this study is to compare two methodologies culturomics and metagenomics.
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.scientific_name · “human gut metagenome”
- body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN35342705 | collection_date | 2022 | R1 | 0.90 | biosample.attribute:collection_date | 2022 |
| SAMN35342705 | country | KR | R1 | 0.90 | sample.attr.geo_loc_name | South Korea: Bucheon |
| SAMN35342705 | health_condition | healthy_control | R3 | 0.70 | paper.fulltext.abstract | eight stool samples of healthy humans |
| SAMN35342705 | health_condition_detail | healthy individuals, no metabolic or GI disease history | R3 | 0.70 | paper.fulltext.abstract | eight stool samples of healthy humans |
| SAMN35342705 | latitude | 37.4984 | R1 | 0.90 | biosample.attribute:lat_lon | 37.498417 N 126.762861 E |
| SAMN35342705 | location_locality | Bucheon | R1 | 0.85 | biosample.attribute:geo_loc_name | South Korea: Bucheon |
| SAMN35342705 | location_region | Gyeonggi-do | R1 | 0.60 | biosample.attribute:lat_lon | 37.498417 N 126.762861 E |
| SAMN35342705 | longitude | 126.7629 | R1 | 0.90 | biosample.attribute:lat_lon | 37.498417 N 126.762861 E |
| SAMN35342705 | subject_id | SAMN35342705 | R3 | 0.75 | design.one_sample_per_subject:fulltext | stool samples (n = 8) were collected from eight healthy individuals |
Sequencing
3 runs over 3 samples · mean 11.92 Gbp per run (median 12.10 Gbp, total 35.76 Gbp; 3 runs with a base count) · layout PAIRED 3 · platform ILLUMINA 3 · models NextSeq 500 (3) · 100% of runs with a Sandpiper profile · first public 2026-02-22
Downloads
PRJNA975692.csv.gz (1022 B) · parquet (70.3 KB) — all 3 samples, every field with route and confidence · PRJNA975692_determinations.csv.gz (1.0 KB) — 27 evidence rows