Oral lyophilized FMT trial in ulcerative colitis, Australia
Shotgun metagenomics of 221 fecal samples from adult ulcerative colitis patients in Australia, collected in the LOTUS trial of oral lyophilized fecal microbiota transplantation, an intervention study. machine-written summary
221 samples · 221 runs · AU · Adult · 2024 · 11.58 Gbp / sample · cohort Fungal Trans-kingdom Dynamics Linked to Responsive
One study deposited as 2 BioProjects (252 catalog samples together): PRJEB50699 · PRJEB58035 · show together
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 442 sample values (collection date, country) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC11487140, PMC12542657 |
| ✓ Supplementary tables | 798 sample values (health condition, health condition detail, intervention, timepoint) |
| – 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
Faecal microbiota transplantation design randomized_controlled_trial · population ulcerative_colitis · Oral lyophilized donor FMT vs placebo in ulcerative colitis patients
“randomized, double-blind, placebo-controlled clinical trial of FMT in UC” — abstract:40952001 (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
Schedule stated by the source: “Timepoints observed: Baseline, Week 1, 2, 3, 4, 8, 20, 32, and Post abx, implying repeated sampling of the same UC patients over the FMT trial.” (time origin: intervention_start).
Genera, mean relative abundance over 179 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 | 221 | 100% | ||||
| country | 221 | 100% | 221 | |||
| health_condition | 221 | 100% | 221 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 221 | 100% | 221 | |||
| health_condition_detail | 221 | 100% | 221 | |||
| timepoint_label | 221 | 100% | 221 | |||
| intervention | 135 | 61% | 135 |
- The phageome of patients with ulcerative colitis treated with donor fecal microbiota reveals markers associated with disease remission. 2024 PMID 39420033 PMC11487140 unsure
- Bacterial taxonomic and functional changes following oral lyophilized donor fecal microbiota transplantation in patients with ulcerative colitis. 2025 PMID 40952001 PMC12542657 unsure
Archive description
Shotgun metagenomic sequencing of DNA from fecal samples of patients with ulcerative colitis being treated with oral lyophilized fecal microbiota transplantation. Patients were recruited as part of the LOTUS study.
How this project entered the registry
Classified as human gut / stool / oral cavity 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 · “from lyophilised oral faecal microbiota transplantation for”
- body site study.description · “of DNA from fecal samples of patients”
- body site study.title · “samples from lyophilised oral faecal microbiota transplantation”
- body site study.description · “being treated with oral lyophilized fecal microbiota”
- 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 |
|---|---|---|---|---|---|---|
| SAMEA116069531 | collection_date | 2019 | R1 | 0.90 | biosample.attribute:collection_date | 2019 |
| SAMEA116069531 | country | AU | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | Australia |
| SAMEA116069531 | health_condition | ulcerative_colitis | R2 | 0.80 | paper.supp.msystems.00991-25-s0002.xlsx[S1!Type] | Type: Patient |
| SAMEA116069531 | health_condition_detail | Patient | R2 | 0.80 | paper.supp.msystems.00991-25-s0002.xlsx[S1!Type] | Type: Patient |
| SAMEA116069533 | intervention | placebo | R2 | 0.80 | paper.supp.msystems.00991-25-s0002.xlsx[S1!Induction Tx] | Induction Tx: Placebo |
| SAMEA116069531 | timepoint_label | Week 32 | R2 | 0.80 | paper.supp.msystems.00991-25-s0002.xlsx[S1!Week] | Week: Week 32 |
Sequencing
221 runs over 221 samples · mean 10.43 Gbp per run (median 11.58 Gbp, total 2,304.74 Gbp; 221 runs with a base count) · layout PAIRED 221 · platform ILLUMINA 221 · models Illumina NovaSeq 6000 (221) · 81% of runs with a Sandpiper profile · first public 2024-10-01
Authors (10)
Majzoub ME first · Paramsothy S · Haifer C · Parthasarathy R · Borody TJ · Leong RW · Kamm MA · Kaakoush NO last · Raich SS first · Shamim MMI
Downloads
PRJEB58035.csv.gz (6.4 KB) · parquet (77.6 KB) — all 221 samples, every field with route and confidence · PRJEB58035_determinations.csv.gz (7.8 KB) — 1,240 evidence rows