High-fiber diet intervention on adult gut microbiome
86 fecal samples from 20 healthy adults (country not reported), collected before and during a 2-week high-fiber diet intervention, to assess changes in gut microbiome composition and SCFA abundance. machine-written summary
86 samples · 86 runs · Age unknown · 2021 · 0.14 Gbp / sample · cohort The NUTRIENT Trial (NUTRitional Intervention among
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 172 sample values (subject id, timepoint) |
| ✓ Abstract / description | 172 sample values (health condition, health condition detail) |
| ✓ Full text | 172 sample values (location locality, location site) · PMC10913729, PMC8546969 |
| ✓ Supplementary tables | 86 sample values (intervention) |
| – 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
18 people have samples in more than one arm.
Controlled / prescribed diet or feeding regimen design single_arm_before_after · population healthy_control · 2-week high-fiber diet intervention (40-50g fiber/day)
“2-week dietary fiber intervention aiming for 40” — abstract:33727392 (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
20 of 20 people sampled more than once (86 samples; median 4, up to 6 per person). Schedule stated by the source: “Fecal samples collected before and during a 2-week high fiber diet intervention, with multiple timepoints per subject (labels 1-6)” (time origin: intervention_start); stated follow-up 14 d.
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 86 | 100% | ||||
| country | 0 | 0% | ||||
| health_condition | 86 | 100% | 86 | |||
| subject_id | 86 | 100% | 86 | |||
| detailed_location | 86 | 100% | ||||
| health_condition_detail | 86 | 100% | 86 | |||
| intervention | 86 | 100% | 86 | |||
| location_locality | 86 | 100% | 86 | |||
| location_site | 86 | 100% | 86 | |||
| timepoint_label | 86 | 100% | 86 |
- High-Fiber, Whole-Food Dietary Intervention Alters the Human Gut Microbiome but Not Fecal Short-Chain Fatty Acids. 2021 PMID 33727392 PMC8546969 own_data
- The NUTRIENT Trial (NUTRitional Intervention among myEloproliferative Neoplasms): Results from a Randomized Phase I Pilot Study for Feasibility and Adherence. 2024 PMID 38391189 PMC10913729 unsure
Archive description
Shotgun sequencing of fecal samples from 20 individuals before and during a high fiber, food-based, diet intervention. Individuals increased their macronutrient fiber intake by 25g/day on average. Samples were sequenced using Illumina short read sequencing and run on a GC-FID to detect short-chain fatty acid (SCFA) abundance. We sought to examine whether a diet intervention for two weeks would alter the microbiome composition and abundance of measured SCFAs.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.80. Assay shotgun_dna.
- host study.title · “Human gut microbiome sequencing”
- body site study.description · “Shotgun sequencing of fecal samples”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN15597009 | health_condition | healthy_control | R4 | 0.50 | paper.abstract | healthy young adults |
| SAMN15597009 | health_condition_detail | healthy young adults | R4 | 0.50 | paper.abstract | healthy young adults |
| SAMN15597009 | intervention | diet_intervention | R2 | 0.85 | paper.supp.msystems.00115-21-st001.xlsx[metadata!Intervention] | Intervention: post |
| SAMN15597009 | location_locality | Irvine | R3 | 0.70 | paper.fulltext.methods | UC Irvine students and instructors volunteered |
| SAMN15597009 | location_site | UC Irvine | R3 | 0.70 | paper.fulltext.methods | UC Irvine students and instructors volunteered |
| SAMN15597009 | subject_id | 26 | R1 | 0.70 | sample.name_rule:attr.isolate | 26_4 |
| SAMN15597009 | timepoint_label | 4 | R1 | 0.70 | sample.name_rule:attr.isolate | 26_4 |
Sequencing
86 runs over 86 samples · mean 0.21 Gbp per run (median 0.14 Gbp, total 18.21 Gbp; 86 runs with a base count) · layout PAIRED 86 · platform ILLUMINA 86 · models NextSeq 500 (86) · 0% of runs with a Sandpiper profile · first public 2021-05-12
Authors (31)
Oliver A first · Chase AB · Weihe C · Orchanian SB · Riedel SF · Hendrickson CL · Lay M · Sewall JM · Martiny JBH · Whiteson K last · Mendez Luque LF first · Avelar-Barragan J · Nguyen H · Nguyen J · Soyfer EM · Liu J · Chen JH · Mehrotra N · Huang X · Kosiorek HE · Dueck A · Himstead A · Heide E · Lem M · El Alaoui K · Mas E · Scherber RM · Mesa RA · Whiteson KL · Odegaard A · Fleischman AG last
Downloads
PRJNA647720.csv.gz (2.8 KB) · parquet (72.9 KB) — all 86 samples, every field with route and confidence · PRJNA647720_determinations.csv.gz (3.9 KB) — 602 evidence rows