Fecal metagenomics in gut-brain disorders, New Zealand
282 fecal samples from adults and elderly individuals in Palmerston North, New Zealand, comparing healthy controls with patients having disorders of gut-brain interaction (IBS, functional constipation, functional diarrhea) in a case-control design. machine-written summary
282 samples · 282 runs · NZ · Adult · 2024 · 1.85 Gbp / sample
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what each source gave
| ✓ Sequence archive | 1,938 sample values (age, collection date, country, health condition, health condition detail, location locality, sex) |
| ✓ Abstract / description | 7 sample values (health condition detail) |
| ✓ Full text | 289 sample values (collection date, subject id) · PMC12758187 |
| ○ 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 |
Genera, mean relative abundance over 266 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 | 282 | 100% | ||||
| country | 282 | 100% | 282 | |||
| health_condition | 275 | 98% | 275 | |||
| subject_id | 282 | 100% | 282 | |||
| collection_date | 282 | 100% | 275 | 7 | ||
| detailed_location | 282 | 100% | ||||
| health_condition_detail | 282 | 100% | 275 | 7 | ||
| location_locality | 282 | 100% | 282 | |||
| sex | 275 | 98% | 275 | |||
| age_at_collection_days | 274 | 97% | 274 |
- Integrated multi-omic and symptom clustering reveals lower-gastrointestinal disorders of gut-brain interaction heterogeneity. 2026 PMID 41431864 PMC12758187 own_data
Archive description
The etiology of lower GI disorders of gut-brain interactions (DGBIs), including irritable bowel syndrome (IBS), functional constipation (FC) and functional diarrhea (FD), is multifactorial but alterations of the colonic microbiota likely contribute. However, it remains uncertain if these disorders are part of the same disease spectrum or are different diseases. Metagenomic analysis of fecal samples allows the investigation of the composition and functional potential of the microbiota and has been used to understand better several diseases but there are relatively few DGBI studies. We aimed to apply metagenomic analysis of the fecal microbiota in DGBIs, and integrative analysis with gastrointestinal and non- gastrointestinal symptoms. We hypothesized we would identify different pathways and markers of dysbiosis discriminating DGBIs within subtypes and from controls.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and elderly by sonnet_x2 with confidence 0.80. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.description · “fecal microbiota in DGBIs”
- life stage sample.attr.age · “60 (n=210/282)”
- life stage sample.attr.age · “66 (n=64/282)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN40534334 | age_at_collection_days | 18614.0 | R1 | 0.85 | sample.attr.age | 51 |
| SAMN40534334 | collection_date | 2016-07-11 | R1 | 0.90 | biosample.attribute:collection_date | 2016-07-11 |
| SAMN40534381 | collection_date | 2016/2019 | R3 | 0.70 | paper.fulltext.methods | Mechanisms FOr gut Relief and improved Transit (COMFORT; 2016-2019) |
| SAMN40534334 | country | NZ | R1 | 0.90 | sample.attr.geo_loc_name | New Zealand: Palmerston North |
| SAMN40534334 | health_condition | ibs | R1 | 0.85 | biosample.attribute:isolate | isolate: IBS-D |
| SAMN40534334 | health_condition_detail | IBS-D | R1 | 0.85 | biosample.attribute:isolate | isolate: IBS-D |
| SAMN40534373 | health_condition_detail | mixed_case_control: IBS, functional constipation, functional diarrhea patients vs healthy controls. | R4 | 0.40 | paper.abstract | healthy controls and patients with lower-gastrointestinal tract DGBI |
| SAMN40534334 | location_locality | Palmerston North | R1 | 0.85 | biosample.attribute:geo_loc_name | New Zealand: Palmerston North |
| SAMN40534334 | sex | female | R1 | 0.90 | sample.attr.sex | female |
| SAMN40534334 | subject_id | SAMN40534334 | R3 | 0.75 | design.one_sample_per_subject:fulltext | COMFORT was a cross-sectional observation study comprised of participants between 18 and 70 years of age |
Sequencing
282 runs over 282 samples · mean 1.91 Gbp per run (median 1.85 Gbp, total 539.34 Gbp; 282 runs with a base count) · layout PAIRED 282 · platform ILLUMINA 282 · models Illumina NovaSeq 6000 (282) · 94% of runs with a Sandpiper profile · first public 2024-04-28 – 2026-01-20
Authors (17)
Dowrick JM first · Roy NC · Carco C · James SC · Heenan PE · Frampton CMA · Fraser K · Young W · Cooney J · Trower T · Keenan JI · McNabb WC · Mullaney JA · Bayer SB · Talley NJ · Gearry RB · Angeli-Gordon TR last
Downloads
PRJNA1088844.csv.gz (10.1 KB) · parquet (84.4 KB) — all 282 samples, every field with route and confidence · PRJNA1088844_determinations.csv.gz (19.0 KB) — 2,234 evidence rows