Diet intervention in Parkinson's patients and spouses, Germany
44 gut metagenome samples from Germany, from Parkinson's disease patients and healthy spouse controls, studying a 4-week fibre-rich diet with lactulose in a prospective controlled pilot intervention study. machine-written summary
44 samples · 44 runs · DE · Adult · 2024 · 18.18 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 616 sample values (age, collection date, country, diet, diet detail, family id, health condition, health condition detail) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 88 sample values (family role, location site) · PMC11968880 |
| ○ 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
Controlled / prescribed diet or feeding regimen Prebiotic / dietary fibre supplement design single_arm_before_after · population neurological_psychiatric · 4-week high-fibre diet with lactulose prebiotic
“4-week diet rich in dietary fibre, including intake of the prebiotic Lactulose” — abstract:40180909 (study level; per-sample arms are in the intervention column below)
longitudinalhouseholdspartners / couples
20 of 22 people sampled more than once (42 samples; median 2, up to 3 per person) · follow-up median 28 d (max 3 mo) · median interval between samples 28 d (time from collection dates). Schedule stated by the source: “faecal samples at baseline and 4 weeks after diet” (time origin: baseline); stated follow-up 28 d.
Each row is one person (20 shown); dots are samples at days since that person's first sample; rows of one family are adjacent and coloured by role (mother, father, child, twin).
11 couples: Parkinson's patient + healthy spouse control, sampled before/after a 4-week fibre diet · 11 families with 22 sampled people.
partner · circles are people (pale = no sequenced sample), arrows run donor → recipient and parent → child, curved lines join twins, partners and siblings, squares are shared settings or families without recorded roles. Shown: 11 linked groups from explicit relations. 22 people in the project overall.
Families (11)
| family | members | samples |
|---|---|---|
| 4 | partner×2 | SAMEA111547180 · SAMEA111547181 · SAMEA111547201 · SAMEA111547202 · SAMEA111547203 |
| 6 | partner×2 | SAMEA111547182 · SAMEA111547183 · SAMEA111547204 · SAMEA111547205 · SAMEA111547206 |
| 11 | partner×2 | SAMEA111547170 · SAMEA111547171 · SAMEA111547191 · SAMEA111547192 |
| 12 | partner×2 | SAMEA111547172 · SAMEA111547173 · SAMEA111547193 · SAMEA111547194 |
| 14 | partner×2 | SAMEA111547174 · SAMEA111547175 · SAMEA111547195 · SAMEA111547196 |
| 2 | partner×2 | SAMEA111547176 · SAMEA111547177 · SAMEA111547197 · SAMEA111547198 |
| 3 | partner×2 | SAMEA111547178 · SAMEA111547179 · SAMEA111547199 · SAMEA111547200 |
| 7 | partner×2 | SAMEA111547184 · SAMEA111547185 · SAMEA111547207 · SAMEA111547208 |
| 8 | partner×2 | SAMEA111547186 · SAMEA111547187 · SAMEA111547209 · SAMEA111547210 |
| 9 | partner×2 | SAMEA111547188 · SAMEA111547189 · SAMEA111547211 · SAMEA111547212 |
| 10 | partner×2 | SAMEA111547169 · SAMEA111547190 |
Genera, mean relative abundance over 41 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 | 44 | 100% | ||||
| country | 44 | 100% | 44 | |||
| health_condition | 44 | 100% | 44 | |||
| subject_id | 44 | 100% | 44 | |||
| age_at_collection_days | 44 | 100% | 44 | |||
| collection_date | 44 | 100% | 44 | |||
| detailed_location | 44 | 100% | ||||
| diet | 44 | 100% | 44 | |||
| diet_detail | 44 | 100% | 44 | |||
| family_id | 44 | 100% | 44 | |||
| family_role | 44 | 100% | 44 | |||
| health_condition_detail | 44 | 100% | 44 | |||
| latitude | 44 | 100% | 44 | |||
| location_region | 44 | 100% | 44 | |||
| location_site | 44 | 100% | 44 | |||
| longitude | 44 | 100% | 44 | |||
| sex | 44 | 100% | 44 | |||
| timepoint_label | 44 | 100% | 44 |
- A prebiotic dietary pilot intervention restores faecal metabolites and may be neuroprotective in Parkinson's Disease. 2025 PMID 40180909 PMC11968880 own_data
Archive description
Placeholder
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and elderly by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- body site external_curation.infant_catalog · “body_site_call gut”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage sample.attr.host_age · “74 (n=18/44)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA111547169 | age_at_collection_days | 24106.5 | R1 | 0.70 | sample.attr.host_age | 66 |
| SAMEA111547169 | collection_date | 2017-10-25 | R1 | 0.90 | biosample.attribute:collection_date | 2017-10-25 |
| SAMEA111547169 | country | DE | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | Germany |
| SAMEA111547169 | diet | omnivore | R1 | 0.90 | biosample.attribute:host_diet | Omnivore [ecocore_00000082] |
| SAMEA111547169 | diet_detail | Omnivore [ecocore_00000082] | R1 | 0.90 | biosample.attribute:host_diet | Omnivore [ecocore_00000082] |
| SAMEA111547169 | family_id | 10 | R1 | 0.85 | biosample.attribute:host family relationship | host family relationship: 10 |
| SAMEA111547169 | family_role | partner | R3 | 0.60 | paper.body.Study design and participants[text] + biosample.attribute:host family relationship | N = 11 PD patients and their n = 11 healthy spouses (CO group) |
| SAMEA111547169 | health_condition | healthy_control | R1 | 0.90 | biosample_attr | Healthy [NCIT:C115935] |
| SAMEA111547169 | health_condition_detail | Healthy [NCIT:C115935] | R1 | 0.90 | sample.attr.host_disease_status | Healthy [NCIT:C115935] |
| SAMEA111547169 | latitude | 50.7014 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 50.701415 7.103049 |
| SAMEA111547169 | location_region | North Rhine-Westphalia | R1 | 0.60 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 50.701415 7.103049 |
| SAMEA111547169 | location_site | Department of Neurology, University of Bonn | R3 | 0.70 | paper.fulltext.methods | recruited from the Department of Neurology, University of Bonn |
| SAMEA111547169 | longitude | 7.1030 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 50.701415 7.103049 |
| SAMEA111547169 | sex | female | R1 | 0.90 | sample.attr.host_sex | female |
| SAMEA111547169 | subject_id | CO10 | R1 | 0.85 | sample.attr.host_subject_id | CO10 |
| SAMEA111547169 | timepoint_label | T0 | R1 | 0.70 | sample.name_rule:alias | C10T0 |
Sequencing
44 runs over 44 samples · mean 19.10 Gbp per run (median 18.18 Gbp, total 840.41 Gbp; 44 runs with a base count) · layout PAIRED 44 · platform ILLUMINA 44 · models Illumina NovaSeq 6000 (44) · 93% of runs with a Sandpiper profile · first public 2024-07-30
Authors (11)
Bedarf JR first · Romano S · Heinzmann SS · Duncan A · Traka MH · Ng D · Segovia-Lizano D · Simon MC · Narbad A · Wüllner U · Hildebrand F last
Downloads
PRJEB57228.csv.gz (2.6 KB) · parquet (74.2 KB) — all 44 samples, every field with route and confidence · PRJEB57228_determinations.csv.gz (6.5 KB) — 704 evidence rows