Gut microbiota after FMT for GvHD in a Hong Kong teen
55 longitudinal fecal samples from one adolescent with graft-versus-host disease in Shatin, Hong Kong, tracking gut bacterial, fungal and viral communities before and after four weekly fecal microbiota transplantations. machine-written summary
55 samples · 55 runs · HK · Adult · 2020 · 8.93 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 403 sample values (collection date, country, latitude, location locality, location region, longitude, subject id, timepoint) |
| ✓ Abstract / description | 110 sample values (health condition, health condition detail) |
| ○ Full text | read; no usable statement or table · PMC7782528 |
| ○ 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 |
intervention — arms not resolved
Faecal microbiota transplantation design single_arm_before_after · population transplant_or_immunocompromised · Four weekly doses of FMT for gut GvHD in a teenager
“after receiving four doses of FMT” — abstract:33397897 (study level; per-sample arms are in the intervention column below)
longitudinalFMT donor → recipient
3 of 3 people sampled more than once (55 samples; median 10, up to 43 per person) · follow-up median 2 mo (max 4 mo) · median interval between samples 2 d (time from collection dates). Schedule stated by the source: “Pre-FMT day0; FMTs day0,5,13,25; post-FMT stools daily day1-36, then every half month until day120” (time origin: intervention_start); stated follow-up 4 mo.
Each row is one person (2 shown of 3); dots are samples at days since that person's first sample.
1 GvHD patient received FMT; 6 donor stool samples (donor D8 x5, D4 x1) sequenced in this project.
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. 3 people in the project overall.
Genera, mean relative abundance over 33 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 | 55 | 100% | ||||
| country | 55 | 100% | 55 | |||
| health_condition | 55 | 100% | 55 | |||
| subject_id | 55 | 100% | 55 | |||
| collection_date | 55 | 100% | 55 | |||
| detailed_location | 55 | 100% | ||||
| health_condition_detail | 55 | 100% | 55 | |||
| latitude | 55 | 100% | 55 | |||
| location_locality | 55 | 100% | 55 | |||
| longitude | 55 | 100% | 55 | |||
| timepoint_label | 43 | 78% | 43 | |||
| location_region | 30 | 55% | 30 |
- Longitudinal dynamics of gut bacteriome, mycobiome and virome after fecal microbiota transplantation in graft-versus-host disease. 2021 PMID 33397897 PMC7782528 own_data
Archive description
we investigate longitudinal dynamics of gut bacterial, fungal and viral microbiota in a teenager with gut GvHD treated with multiple fecal microbiota transplantation by using 16s rRNA and metagenomics analysis
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and adolescent 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 · “Fecal microbiota transplantations reconstitute”
- body site study.description · “longitudinal dynamics of gut bacterial, fungal and”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage study.description · “microbiota in a teenager with gut GvHD”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN15379447 | collection_date | 2018-03-08 | R1 | 0.90 | biosample.attribute:collection_date | 2018-03-08 |
| SAMN15379447 | country | HK | R1 | 0.90 | sample.attr.geo_loc_name | Hong Kong: Shatin |
| SAMN15379447 | health_condition | transplant_or_immunocompromised | R4 | 0.50 | paper.abstract | severe colitis associated with graft-versus-host disease |
| SAMN15379447 | health_condition_detail | graft-versus-host disease with severe colitis | R4 | 0.50 | paper.abstract | severe colitis associated with graft-versus-host disease |
| SAMN15379447 | latitude | 22.3800 | R1 | 0.90 | biosample.attribute:lat_lon | 22.38 N 114.20 E |
| SAMN15379447 | location_locality | Shatin | R1 | 0.85 | biosample.attribute:geo_loc_name | Hong Kong: Shatin |
| SAMN15379448 | location_region | Sha Tin | R1 | 0.60 | biosample.attribute:lat_lon | 22.38 N 114.21 E |
| SAMN15379447 | longitude | 114.2000 | R1 | 0.90 | biosample.attribute:lat_lon | 22.38 N 114.20 E |
| SAMN15379447 | subject_id | D8 | R1 | 0.70 | sample.name_rule:TITLE | TITLE=D8-26 |
| SAMN15379453 | subject_id | pGvST | R1 | 0.70 | sample.name_rule:alias | alias=pGvST_001 |
| SAMN15379453 | timepoint_label | day 0 | R1 | 0.70 | biosample.attribute:TITLE | TITLE: 0 | alias: pGvST_001 | collection_date: 2018-03-08 |
Sequencing
55 runs over 55 samples · mean 9.03 Gbp per run (median 8.93 Gbp, total 496.42 Gbp; 55 runs with a base count) · layout PAIRED 55 · platform ILLUMINA 55 · models Illumina NovaSeq 6000 (55) · 82% of runs with a Sandpiper profile · first public 2020-06-30 – 2020-07-01
Authors (15)
Zhang F first · Zuo T · Yeoh YK · Cheng FWT · Liu Q · Tang W · Cheung KCY · Yang K · Cheung CP · Mo CC · Hui M · Chan FKL · Li CK · Chan PKS · Ng SC last
Downloads
PRJNA641975.csv.gz (2.5 KB) · parquet (72.9 KB) — all 55 samples, every field with route and confidence · PRJNA641975_determinations.csv.gz (6.2 KB) — 513 evidence rows