Prebiotic Fiber Intervention in Parkinson's Disease, USA
38 gut metagenome samples from USA participants with Parkinson's disease, studying a prebiotic fiber intervention in an open-label, non-randomized design. machine-written summary
38 samples · 38 runs · US · Age unknown · 2021 · 1.86 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 247 sample values (collection date, country, health condition, health condition detail, intervention, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC13323702, PMC9938693 |
| ○ 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 |
intervention — arms not resolved
Prebiotic / dietary fibre supplement design single_arm_before_after · population neurological_psychiatric · Precision prebiotic fiber mixture, 10 days, open-label
“10 days of prebiotic intervention was evaluated” — abstract:36801916 (study level; per-sample arms are in the intervention column below)
longitudinal
2 of 2 people sampled more than once (38 samples; median 19, up to 20 per person) · follow-up median 10 d (max 10 d) · median interval between samples 10 d (time from visit codes mapped to the stated schedule). Schedule stated by the source: “Stool collected at baseline and after 10 days of prebiotic fiber intervention”; stated follow-up 10 d.
Each row is one person (2 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 32 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 | 38 | 100% | 38 | |||
| health_condition | 38 | 100% | 38 | |||
| subject_id | 38 | 100% | 38 | |||
| collection_date | 38 | 100% | 38 | |||
| health_condition_detail | 38 | 100% | 38 | |||
| timepoint_label | 38 | 100% | 38 | |||
| intervention | 19 | 50% | 19 |
- An open label, non-randomized study assessing a prebiotic fiber intervention in a small cohort of Parkinson's disease participants. 2023 PMID 36801916 PMC9938693 own_data
- Prebiotic intervention changes host and microbe proteomes in plasma extracellular vesicles of Parkinson's disease. 2026 PMID 42062487 PMC13323702 own_data
Archive description
In this study, we proposed to combine dietary fibers that target specific beneficial bacterial groups in the large intestine and distinct metabolites, such as acetate, butyrate and propionate, to compose a mixture with high tolerability and benefits to human colonic and systemic health.
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 study.title · “Human Health in Parkinson's Disease”
- body site run.scientific_name · “feces metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN20889846 | collection_date | 2020 | R1 | 0.90 | biosample.attribute:collection_date | 2020 |
| SAMN20889846 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA |
| SAMN20889846 | health_condition | neurological_psychiatric | R1 | 0.60 | biosample_attr | PD |
| SAMN20889846 | health_condition_detail | PD | R1 | 0.90 | sample.attr.host_disease | PD |
| SAMN20889865 | intervention | prebiotic_or_fibre | R1 | 0.85 | biosample.attribute:description | Prebiotic |
| SAMN20889846 | subject_id | Treated | R1 | 0.85 | sample.attr.host_subject_id | Treated |
| SAMN20889846 | timepoint_label | Baseline | R1 | 0.85 | biosample.attribute:description | Baseline |
Sequencing
38 runs over 38 samples · mean 1.81 Gbp per run (median 1.86 Gbp, total 68.89 Gbp; 38 runs with a base count) · layout PAIRED 38 · platform ILLUMINA 38 · models Illumina NovaSeq 6000 (38) · 84% of runs with a Sandpiper profile · first public 2021-08-25
Authors (24)
Hall DA first · Voigt RM · Cantu-Jungles TM · Hamaker B · Engen PA · Shaikh M · Raeisi S · Green SJ · Naqib A · Forsyth CB · Chen T · Manfready R · Ouyang B · Rasmussen HE · Sedghi S · Goetz CG · Keshavarzian A last · Sharma D first · Jones J · Li S · Hamaker BR · Bishehsari F · de Menezes EGM · Norris PJ
Downloads
PRJNA756556.csv.gz (1.8 KB) · parquet (70.8 KB) — all 38 samples, every field with route and confidence · PRJNA756556_determinations.csv.gz (1.8 KB) — 247 evidence rows