Gut microbiome response to FOS intake in healthy US adults
947 stool samples from healthy adult volunteers in California, USA, in a randomized, open-label intervention study evaluating effects of increasing fructooligosaccharide (FOS) feeding amounts on gut microbiota structure and function. machine-written summary
947 samples · 947 runs · US · Adult · 2020 · 0.12 Gbp / sample · cohort High-resolution temporal profiling of the human gu
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 8,502 sample values (collection date, country, intervention, intervention detail, latitude, location region, longitude, subject id) |
| ✓ Abstract / description | 1,894 sample values (health condition, health condition detail) |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – 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 |
intervention · arms resolved
28 people have samples in more than one arm.
Prebiotic / dietary fibre supplement design randomized_controlled_trial · population healthy_control · Fructooligosaccharides (FOS) and polydextrose glycan feeding, healthy volunteers
“effect of two chemically distinct glycans (fructooligosaccharides and polydextrose)” — abstract:32620143 (study level; per-sample arms are in the intervention column below)
longitudinal
28 of 29 people sampled more than once (946 samples; median 38, up to 41 per person) · follow-up median 3 d (max 4 d) · median interval between samples 3 d (time from collection dates). Schedule stated by the source: “Repeated stool sampling per subject across Run-In, Feeding1, Feeding2, and Washout periods; study_day values span roughly -8 to +52 days.”.
Each row is one person (3 shown of 28); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 577 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 | 947 | 100% | ||||
| country | 947 | 100% | 947 | |||
| health_condition | 947 | 100% | 947 | |||
| subject_id | 947 | 100% | 947 | |||
| detailed_location | 947 | 100% | ||||
| health_condition_detail | 947 | 100% | 947 | |||
| intervention | 947 | 100% | 947 | |||
| intervention_detail | 947 | 100% | 947 | |||
| latitude | 947 | 100% | 947 | |||
| location_region | 947 | 100% | 947 | |||
| longitude | 947 | 100% | 947 | |||
| timepoint_label | 947 | 100% | 947 | |||
| collection_date | 926 | 98% | 926 |
- High-resolution temporal profiling of the human gut microbiome reveals consistent and cascading alterations in response to dietary glycans. 2020 PMID 32620143 PMC7386241 unsure
Archive description
A Randomized, Open-Label Study to Evaluate the Effect of Increasing Feeding Amounts of Oligofructose (FOS) on Gut Microbiota Structure and Function Shifts in Healthy Subjects
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- body site study.title · “Human gut microbiome response to”
- body site study.description · “Oligofructose (FOS) on Gut Microbiota Structure and”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN13514486 | collection_date | 2017-08-28 | R1 | 0.90 | biosample.attribute:collection_date | 2017-08-28 |
| SAMN13514486 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: California |
| SAMN13514486 | health_condition | healthy_control | R4 | 0.50 | paper.abstract | three clinical studies conducted with 80 healthy volunteers |
| SAMN13514486 | health_condition_detail | Healthy volunteers | R4 | 0.50 | paper.abstract | three clinical studies conducted with 80 healthy volunteers |
| SAMN13514486 | intervention | no_intervention | R1 | 0.90 | biosample.attribute:period | period: Run-In |
| SAMN13514486 | intervention_detail | run-in baseline period before FOS feeding | R1 | 0.90 | biosample.attribute:period | period: Run-In |
| SAMN13514486 | latitude | 33.0000 | R1 | 0.90 | biosample.attribute:lat_lon | 33 N 117 W |
| SAMN13514486 | location_region | California | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: California |
| SAMN13514486 | longitude | -117.0000 | R1 | 0.90 | biosample.attribute:lat_lon | 33 N 117 W |
| SAMN13514486 | subject_id | 101-024 | R1 | 0.85 | sample.attr.subject | 101-024 |
| SAMN13514486 | timepoint_label | Run-In | R1 | 0.85 | sample.attr.period | Run-In |
Sequencing
947 runs over 947 samples · mean 0.12 Gbp per run (median 0.12 Gbp, total 112.57 Gbp; 947 runs with a base count) · layout SINGLE 947 · platform ILLUMINA 947 · models HiSeq X Ten (947) · 61% of runs with a Sandpiper profile · first public 2020-06-16
Authors (14)
Creswell R first · Tan J · Leff JW · Brooks B · Mahowald MA · Thieroff-Ekerdt R · Gerber GK last · Tarracchini C first · Lugli GA · Mancabelli L · van Sinderen D · Turroni F · Ventura M · Milani C last
Downloads
PRJNA594393.csv.gz (20.1 KB) · parquet (99.7 KB) — all 947 samples, every field with route and confidence · PRJNA594393_determinations.csv.gz (55.9 KB) — 10,396 evidence rows