Gut Metagenome in Parkinson's Disease, Case-Control, China
Shotgun metagenomic sequencing of fecal samples from 30 Parkinson's disease patients and 30 healthy spouse controls in China, comparing gut microbial composition in a case-control design (80 samples total). machine-written summary
80 samples · 80 runs · CN · Age unknown · 2020 · 13.19 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 240 sample values (country, health condition, health condition detail) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 240 sample values (location locality, location region, location site) · PMC10609969, PMC11109112, PMC11334437, PMC12059030, PMC13483817, PMC8528855, PMC9204254 |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
partners / couples — not resolved
40 Parkinson's disease patients and their healthy spouses (MP###/MC### aliases); per-sample pairing not committed.
Genera, mean relative abundance over 72 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 | 80 | 100% | 80 | |||
| health_condition | 80 | 100% | 80 | |||
| subject_id | 0 | 0% | ||||
| detailed_location | 80 | 100% | ||||
| health_condition_detail | 80 | 100% | 80 | |||
| location_locality | 80 | 100% | 80 | |||
| location_region | 80 | 100% | 80 | |||
| location_site | 80 | 100% | 80 |
- Integrative multi-omics analysis reveals host-microbiome metabolic alterations and candidate biomarkers in Parkinson's disease. 2026 PMID 42168845 PMC13483817 own_data
- Compositional and genetic alterations in Graves' disease gut microbiome reveal specific diagnostic biomarkers. 2021 PMID 34079079 PMC8528855 unsure
- Integrated Microbiome and Host Transcriptome Profiles Link Parkinson's Disease to Blautia Genus: Evidence From Feces, Blood, and Brain. 2022 PMID 35722294 PMC9204254 unsure
- Gut Microbiota Composition in Patients with Neurodegenerative Disorders (Parkinson's and Alzheimer's) and Healthy Controls: A Systematic Review. 2023 PMID 37892440 PMC10609969 unsure
- Meta-analysis of shotgun sequencing of gut microbiota in Parkinson's disease. 2024 PMID 38773112 PMC11109112 unsure
3 more
- Meta-analysis of the human gut microbiome uncovers shared and distinct microbial signatures between diseases. 2024 PMID 39078158 PMC11334437
- Machine learning-based meta-analysis reveals gut microbiome alterations associated with Parkinson's disease. 2025 PMID 40335465 PMC12059030
- Machine learning-based meta-analysis reveals gut microbiome alterations associated with Parkinson’s disease 2023
Archive description
Identification of gut microbial genes in Parkinson’s disease by shotgun metagenomic sequencing
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.description · “gut microbial genes in Parkinson's disease”
- body site run.scientific_name · “gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN08511838 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China |
| SAMN08511838 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:alias | MC002 |
| SAMN08511838 | health_condition_detail | MC | R1 | 0.70 | sample.name_rule:alias | MC002 |
| SAMN08511838 | location_locality | Xiangyang | R3 | 0.70 | paper.fulltext.methods | Xiangyang city, Hubei Province, China |
| SAMN08511838 | location_region | Hubei Province | R3 | 0.70 | paper.fulltext.methods | Xiangyang city, Hubei Province, China |
| SAMN08511838 | location_site | Department of Neurology, Xiangyang No. 1 People's Hospital | R3 | 0.70 | paper.fulltext.methods | Department of Neurology, Xiangyang No. 1 People's Hospital |
Sequencing
80 runs over 80 samples · mean 14.41 Gbp per run (median 13.19 Gbp, total 1,152.57 Gbp; 80 runs with a base count) · layout PAIRED 80 · platform ILLUMINA 80 · models HiSeq X Ten (80) · 90% of runs with a Sandpiper profile · first public 2020-02-05 – 2020-09-23
Authors (42)
Tarracchini C first · Fontana F · Mancabelli L · Lugli GA · Alessandri G · Turroni F · Ventura M · Milani C last · Nishiwaki H first · Ueyama J · Ito M · Hamaguchi T · Takimoto K · Maeda T · Kashihara K · Tsuboi Y · Mori H · Kurokawa K · Katsuno M · Hirayama M · Ohno K last · Jin DM first · Morton JT · Bonneau R last · Romano S first · Wirbel J · Ansorge R · Schudoma C · Ducarmon QR · Narbad A · Zeller G last · Zhao Q first · Zuo S · Liu S · Wang J · Tang J · Zou X · Leng Y · Li X · Zhou M · Tian J · Wang P last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA433459.csv.gz (2.9 KB) · parquet (73.3 KB) — all 80 samples, every field with route and confidence · PRJNA433459_determinations.csv.gz (3.3 KB) — 480 evidence rows