FMT for C. difficile in HCT recipients, longitudinal
27 samples from adult hematopoietic stem cell transplant recipients with C. difficile-associated diarrhoea, studying gut microbiota changes after fecal microbiota transplantation (FMT) over a longitudinal, >1-year follow-up. machine-written summary
27 samples · 27 runs · Adult · 2017 · 3.13 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 64 sample values (collection date, subject id, timepoint) |
| ✓ Abstract / description | 54 sample values (health condition, health condition detail) |
| ✓ Full text | 16 sample values (sex) · PMC5565110 |
| ✓ Supplementary tables | 4 sample values (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 single_arm_before_after · population transplant_or_immunocompromised · Fecal microbiota transplantation for CDAD in HCT recipients
“following fecal microbiota transplantation in immunocompromised patients” — abstract:28827811 (study level; per-sample arms are in the intervention column below)
longitudinalFMT donor → recipient
4 of 9 people sampled more than once (22 samples; median 6, up to 8 per person) · follow-up median 10 mo (max 13 mo) · median interval between samples 7 d (time from collection dates). Schedule stated by the source: “pre-FMT, early (<21 days), and late (>6 months) timepoints over >1 year following FMT” (time origin: intervention_start); stated follow-up 12 mo.
Each row is one person (4 shown); dots are samples at days since that person's first sample.
FMT in 6 HCT recipients (A–F): donor #29 (D29 stool time series) supplied recipients A, B, C, E, F; donor samples D28, D32 not linked.
donorrecipient · 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: 1 linked group from explicit relations. 9 people in the project overall.
Genera, mean relative abundance over 26 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 | 27 | 100% | ||||
| country | 0 | 0% | ||||
| health_condition | 27 | 100% | 27 | |||
| subject_id | 27 | 100% | 27 | |||
| collection_date | 27 | 100% | 27 | |||
| health_condition_detail | 27 | 100% | 27 | |||
| sex | 16 | 59% | 16 | |||
| timepoint_label | 14 | 52% | 10 | 4 |
- Long-term taxonomic and functional divergence from donor bacterial strains following fecal microbiota transplantation in immunocompromised patients. 2017 PMID 28827811 PMC5565110 own_data
- Engrafting gut bacteriophages have potential to modulate microbial metabolism in fecal microbiota transplantation. 2025 PMID 40542451 PMC12180181 unsure
Archive description
We sought to investigate genomic events following FMT in immunocompromised patients and observe patterns of bacterial engraftment over a long-term (>1 year) period.
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 external_curation.infant_catalog · “body_site_call gut”
- 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 |
|---|---|---|---|---|---|---|
| SAMN05930818 | collection_date | 2015-01-20 | R1 | 0.90 | biosample.attribute:collection_date | 2015-01-20 |
| SAMN05930818 | health_condition | gi_infection_or_diarrhoea | R4 | 0.30 | paper.abstract | Immunocompromised individuals are at high risk of developing Clostridium difficile-associated disease |
| SAMN05930818 | health_condition_detail | Clostridium difficile-associated disease (CDAD) in hematopoietic stem cell transplant recipients | R4 | 0.50 | paper.abstract | CDAD-affected hematopoietic stem cell (HCT) recipients following FMT |
| SAMN05930818 | sex | female | R3 | 0.75 | paper.body.Table 1[M/F] | F |
| SAMN05930818 | subject_id | A | R1 | 0.70 | sample.name_rule:alias | A_1 |
| SAMN05930818 | timepoint_label | 1 | R1 | 0.70 | sample.name_rule:alias | A_1 |
| SAMN05930830 | timepoint_label | 456 | R2 | 0.75 | paper.supp.pone.0182585.s001.docx[table1!Days From FMT/Initial Timepoint] | 456 |
Sequencing
27 runs over 27 samples · mean 2.98 Gbp per run (median 3.13 Gbp, total 80.40 Gbp; 27 runs with a base count) · layout PAIRED 27 · platform ILLUMINA 27 · models Illumina HiSeq 2500 (27) · 96% of runs with a Sandpiper profile · first public 2017-08-03
Authors (16)
Moss EL first · Falconer SB · Tkachenko E · Wang M · Systrom H · Mahabamunuge J · Relman DA · Hohmann EL · Bhatt AS last · Ji S first · Ahmad F · Peng B · Yang Y · Su M · Zhao X · Vatanen T last
Downloads
PRJNA349197.csv.gz (1.8 KB) · parquet (71.1 KB) — all 27 samples, every field with route and confidence · PRJNA349197_determinations.csv.gz (2.1 KB) — 138 evidence rows