Gut microbiota of obese child with Prader-Willi syndrome, China
7 fecal samples from a child with Prader-Willi syndrome in China, studied during a 105-day dietary intervention with non-digestible carbohydrates/prebiotic fibre, in an intervention design. machine-written summary
7 samples · 7 runs · CN · Child · 2017 · 8.42 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 49 sample values (collection date, country, latitude, location region, longitude, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 28 sample values (health condition, health condition detail, location locality, location site) · PMC5312088 |
| ○ 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
Controlled / prescribed diet or feeding regimen Prebiotic / dietary fibre supplement design single_arm_before_after · population obesity · 105-day diet enriched with nondigestible carbohydrates
“dietary intervention enriched with nondigestible carbohydrates for 105 days” — abstract:28196965 (study level; per-sample arms are in the intervention column below)
longitudinal
1 of 1 people sampled more than once (7 samples; median 7, up to 7 per person) · follow-up median 3 mo (max 3 mo) · median interval between samples 15 d (time from timepoint numbers, unit from the stated sampling schedule). Schedule stated by the source: “fecal samples at 0, 15, 30, 45, 60, 75, and 105 days” (time origin: intervention_start); stated follow-up 3 mo.
Each row is one person (1 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 7 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 | 7 | 100% | ||||
| country | 7 | 100% | 7 | |||
| health_condition | 7 | 100% | 7 | |||
| subject_id | 7 | 100% | 7 | |||
| collection_date | 7 | 100% | 7 | |||
| detailed_location | 7 | 100% | ||||
| health_condition_detail | 7 | 100% | 7 | |||
| latitude | 7 | 100% | 7 | |||
| location_locality | 7 | 100% | 7 | |||
| location_region | 7 | 100% | 7 | |||
| location_site | 7 | 100% | 7 | |||
| longitude | 7 | 100% | 7 | |||
| timepoint_label | 7 | 100% | 7 |
- Genomic Microdiversity of Bifidobacterium pseudocatenulatum Underlying Differential Strain-Level Responses to Dietary Carbohydrate Intervention. 2017 PMID 28196965 PMC5312088 own_data
Archive description
One obese child lost 18.4% in bodyweight accompanying with alleviation of inflammation after a 105-days intervention. Meanwhile, his gut microbiota was changed largely during the intervention.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child by sonnet_x2 with confidence 0.70. Assay shotgun_dna.
- host study.title · “An obese child finished a 105-days intervenion”
- body site study.description · “his gut microbiota was changed largely”
- life stage study.title · “An obese child finished a 105-days”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA24874918 | collection_date | 2012 | R1 | 0.90 | biosample.attribute:collection_date | 2012 |
| SAMEA24874918 | country | CN | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | China |
| SAMEA24874918 | health_condition | other_disease | R3 | 0.70 | paper.fulltext.abstract | genetically obese child with Prader-Willi syndrome |
| SAMEA24874918 | health_condition_detail | genetically obese child with Prader-Willi syndrome | R3 | 0.70 | paper.fulltext.abstract | genetically obese child with Prader-Willi syndrome |
| SAMEA24874918 | latitude | 23.1600 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 23.16 113.23 |
| SAMEA24874918 | location_locality | Guangzhou | R3 | 0.70 | paper.fulltext.methods | Guangdong Women and Children Hospital, Guangzhou, China |
| SAMEA24874918 | location_region | Guangdong | R1 | 0.60 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 23.16 113.23 |
| SAMEA24874918 | location_site | Guangdong Women and Children Hospital | R3 | 0.70 | paper.fulltext.methods | Guangdong Women and Children Hospital, Guangzhou, China |
| SAMEA24874918 | longitude | 113.2300 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 23.16 113.23 |
| SAMEA24874918 | subject_id | GD02_sample | R1 | 0.85 | biosample.attribute:title | title: GD02_sample |
| SAMEA24874918 | timepoint_label | 0 | R1 | 0.70 | sample.name_rule:alias | Day0 |
Sequencing
7 runs over 7 samples · mean 8.49 Gbp per run (median 8.42 Gbp, total 59.46 Gbp; 7 runs with a base count) · layout PAIRED 7 · platform ILLUMINA 7 · models Illumina HiSeq 2000 (7) · 100% of runs with a Sandpiper profile · first public 2017-03-08
Authors (11)
Wu G first · Zhang C · Wu H · Wang R · Shen J · Wang L · Zhao Y · Pang X · Zhang X · Zhao L · Zhang M last
Downloads
PRJEB18557.csv.gz (1.2 KB) · parquet (71.4 KB) — all 7 samples, every field with route and confidence · PRJEB18557_determinations.csv.gz (1.4 KB) — 77 evidence rows