Gut microbiome in MS patients vs controls, Germany, case-control
77 gut metagenome samples from Germany, comparing treatment-naïve and ocrelizumab-treated multiple sclerosis patients with matched healthy controls, in a case-control design. machine-written summary
77 samples · 77 runs · DE · Adult · 2025 · 6.59 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 385 sample values (collection date, country, latitude, location region, longitude) |
| – Abstract / description | no abstract or project description |
| – 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 73 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 | 77 | 100% | ||||
| country | 77 | 100% | 77 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 77 | 100% | 77 | |||
| detailed_location | 77 | 100% | ||||
| latitude | 77 | 100% | 77 | |||
| location_region | 77 | 100% | 77 | |||
| longitude | 77 | 100% | 77 |
Archive description
The gut microbiome influences immune function, and its dysregulation has been linked to autoimmune diseases such as multiple sclerosis (MS). To reduce confounders of earlier single-center studies and 16S-based analyses, we performed a two-center metagenomic study including 61 treatment-naïve and 65 ocrelizumab-treated MS patients, compared with matched healthy controls. Treatment-naïve patients showed reduced microbial diversity and consistent taxonomic shifts across cohorts, including enrichment of Alistipes finegoldii and Bacteroides vulgatus and depletion of several Actinomycetota species. Functional profiling indicated altered carbohydrate metabolism and increased biosynthesis of L-citrulline and urea cycle intermediates, largely driven by A. finegoldii. Notably, vancomycin-resistance genes were significantly enriched, mainly contributed by Bacteroides and Streptococcus. Ocrelizumab-treated patients exhibited less pronounced microbial and functional alterations. These findings suggest that treatment-naïve MS is associated with a distinct dysbiotic and antibiotic-resistance-linked gut microbiome, potentially contributing to immune dysregulation.
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 · “changes in the gut microbiome of Multiple”
- body site study.description · “The gut microbiome influences immune”
- 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 |
|---|---|---|---|---|---|---|
| SAMEA120537018 | collection_date | 2018 | R1 | 0.90 | biosample.attribute:collection_date | 2018 |
| SAMEA120537018 | country | DE | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | Germany |
| SAMEA120537018 | latitude | 54.3213 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 54.32133 10.13489 |
| SAMEA120537018 | location_region | Schleswig-Holstein | R1 | 0.60 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 54.32133 10.13489 |
| SAMEA120537018 | longitude | 10.1349 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 54.32133 10.13489 |
Sequencing
77 runs over 77 samples · mean 6.51 Gbp per run (median 6.59 Gbp, total 501.38 Gbp; 77 runs with a base count) · layout PAIRED 77 · platform ILLUMINA 77 · models Illumina NovaSeq 6000 (77) · 95% of runs with a Sandpiper profile · first public 2025-11-30
Authors (0)
No author record.
Help complete this project
2 of the 4 core fields are below 50% coverage: health_condition, subject_id. Share metadata
Downloads
PRJEB103000.csv.gz (2.7 KB) · parquet (72.5 KB) — all 77 samples, every field with route and confidence · PRJEB103000_determinations.csv.gz (2.6 KB) — 385 evidence rows