Fecal Metagenomes from Healthy Adults in Davis, California
18 fecal metagenome samples from healthy adults with diverse diets in Davis, California, used in a cross-sectional study of fecal fermentations with sugar beet-derived oligosaccharides and related in vitro prebiotic/synbiotic experiments. machine-written summary
18 samples · 18 runs · US · Adult · 2025 · 11.77 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 108 sample values (collection date, country, latitude, location locality, location region, longitude) |
| ✓ Abstract / description | 36 sample values (health condition, health condition detail) |
| ✓ Full text | 18 sample values (subject id) · PMC11921329, PMC12415832 |
| ○ 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 17 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 | 18 | 100% | ||||
| country | 18 | 100% | 18 | |||
| health_condition | 18 | 100% | 18 | |||
| subject_id | 18 | 100% | 18 | |||
| collection_date | 18 | 100% | 18 | |||
| detailed_location | 18 | 100% | ||||
| health_condition_detail | 18 | 100% | 18 | |||
| latitude | 18 | 100% | 18 | |||
| location_locality | 18 | 100% | 18 | |||
| location_region | 18 | 100% | 18 | |||
| longitude | 18 | 100% | 18 |
- Generation of novel prebiotic oligosaccharide pools from fiber drives biological insight in bacterial glycan metabolism. 2025 PMID 39912642 PMC11921329 own_data
- Fecal microbiomes from healthy adult consumers of fruits and vegetables exhibit fiber- and donor-specific fermentation: "5 a day" is not enough. 2025 PMID 40916941 PMC12415832 own_data
Archive description
Shotgun metagenomes of fecal samples collected from healthy adults in California with diverse diets
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.82. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “fecal samples collected from healthy adults”
- life stage study.description · “fecal samples collected from healthy adults”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN26733127 | collection_date | 2021-01-31 | R1 | 0.90 | biosample.attribute:collection_date | 2021-01-31T09:25:00Z |
| SAMN26733127 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Davis, California |
| SAMN26733127 | health_condition | healthy_control | R4 | 0.40 | study.description | healthy adults in California with diverse diets |
| SAMN26733127 | health_condition_detail | All subjects described as healthy | R4 | 0.40 | study.description | healthy adults in California with diverse diets |
| SAMN26733127 | latitude | 38.5449 | R1 | 0.90 | biosample.attribute:lat_lon | 38.5449 N 121.7405 W |
| SAMN26733127 | location_locality | Davis | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Davis, California |
| SAMN26733127 | location_region | California | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Davis, California |
| SAMN26733127 | longitude | -121.7405 | R1 | 0.90 | biosample.attribute:lat_lon | 38.5449 N 121.7405 W |
| SAMN26733127 | subject_id | SAMN26733127 | R3 | 0.75 | design.one_sample_per_subject:fulltext | thus, a total of eighteen stool samples from eighteen participants were analyzed |
Sequencing
18 runs over 18 samples · mean 12.14 Gbp per run (median 11.77 Gbp, total 218.54 Gbp; 18 runs with a base count) · layout PAIRED 18 · platform ILLUMINA 18 · models Illumina NovaSeq 6000 (18) · 94% of runs with a Sandpiper profile · first public 2025-05-04
Authors (25)
Masarweh C first · Maldonado-Gomez M · Paviani B · Bhattacharya M · Weng CY · Suarez C · Ehlers-Cheang S · Stacy A · Castillo J · Krishnakumar N · Kalanetra KA · Barile D · German JB · Lebrilla CB · Mills DA last · Blecksmith SE first · Kalanetra KM · Sitepu IR · Tang Y · Ehlers Cheang S · Jiang S · Cernioglo K · Damian-Medina K · Smilowitz JT · Lemay DG last
Downloads
PRJNA816918.csv.gz (1.5 KB) · parquet (71.0 KB) — all 18 samples, every field with route and confidence · PRJNA816918_determinations.csv.gz (2.0 KB) — 162 evidence rows