Microbiota in resistant starch trial for obesity, Shanghai
86 samples from adults with obesity in Shanghai, China, from a randomized placebo-controlled crossover trial testing resistant starch supplementation as a prebiotic intervention for weight and insulin resistance. machine-written summary
86 samples · 86 runs · CN · Age unknown · 2022 · 5.44 Gbp / sample · cohort Risk assessment with gut microbiome and metabolite
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 559 sample values (collection date, country, intervention, latitude, location locality, longitude, subject id) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 172 sample values (health condition, health condition detail) · PMC10963277 |
| ○ 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
Prebiotic / dietary fibre supplement design crossover · population obesity · Resistant starch supplementation, 8 weeks, randomized placebo-controlled crossover
“randomized placebo-controlled crossover design trial” — abstract:38409604 (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
27 of 27 people sampled more than once (86 samples; median 4, up to 4 per person). Schedule stated by the source: “Faeces collected before and after each 8-week intervention (V1, V5, V6, V10): baseline, end of RS/CS1, start of RS/CS2 (post 4-wk washout), end of RS/CS2” (time origin: intervention_start); stated follow-up 5 mo.
Genera, mean relative abundance over 80 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 | 86 | 100% | ||||
| country | 86 | 100% | 86 | |||
| health_condition | 86 | 100% | 86 | |||
| subject_id | 86 | 100% | 86 | |||
| collection_date | 86 | 100% | 86 | |||
| detailed_location | 86 | 100% | ||||
| health_condition_detail | 86 | 100% | 86 | |||
| latitude | 86 | 100% | 86 | |||
| location_locality | 86 | 100% | 86 | |||
| longitude | 86 | 100% | 86 | |||
| intervention | 43 | 50% | 43 |
- Resistant starch intake facilitates weight loss in humans by reshaping the gut microbiota. 2024 PMID 38409604 PMC10963277 own_data
- Risk assessment with gut microbiome and metabolite markers in NAFLD development. 2022 PMID 35675435 PMC9746350 unsure
Archive description
Weight management is key for the prevention and treatment of diabetes and cardiovascular disease. The addition of resistant starch (RS) to the diet may offer such a solution as shown in rodent studies. In our study, RS treatment shifts the microbiome structure and drives the abundance changes in specific microbes, among which Bifidobacterium adolescentis and Prevotella copri have the strongest influences on the obesity and insulin sensitivity. Our findings uncover the mechanisms of gut microbiota in mediating RS’s anti-obese effect and emphasize the possibility of using a prebiotic approach involving both diet and microbiota to treat obesity.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.55. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host run.scientific_name · “human gut metagenome”
- body site study.title · “gut microbiota from resistant starch project”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN28004216 | collection_date | 2013-07-03/2016-10-14 | R1 | 0.90 | biosample.attribute:collection_date | 2013-07-03/2016-10-14 |
| SAMN28004216 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Shanghai |
| SAMN28004216 | health_condition | obesity | R3 | 0.70 | paper.fulltext.methods | overweight or obesity |
| SAMN28004216 | health_condition_detail | overweight or obesity, BMI >=24 kg/m2 or elevated waist circumference | R3 | 0.70 | paper.fulltext.methods | overweight or obesity |
| SAMN28004217 | intervention | placebo | R1 | 0.70 | sample.name_rule:title | Subject 13 after the Treatment of CS intervention |
| SAMN28004216 | latitude | 30.5300 | R1 | 0.90 | biosample.attribute:lat_lon | 30.53 N 121.48 E |
| SAMN28004216 | location_locality | Shanghai | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Shanghai |
| SAMN28004216 | longitude | 121.4800 | R1 | 0.90 | biosample.attribute:lat_lon | 30.53 N 121.48 E |
| SAMN28004216 | subject_id | 13 | R1 | 0.70 | sample.name_rule:title | Subject 13 at the Baseline of CS intervention |
Sequencing
86 runs over 86 samples · mean 5.52 Gbp per run (median 5.44 Gbp, total 474.72 Gbp; 86 runs with a base count) · layout PAIRED 86 · platform ILLUMINA 86 · models Illumina HiSeq 1500 (86) · 93% of runs with a Sandpiper profile · first public 2022-07-01
Authors (39)
Leung H first · Long X · Ni Y · Qian L · Nychas E · Siliceo SL · Pohl D · Hanhineva K · Liu Y · Xu A · Nielsen HB · Belda E · Clément K · Loomba R · Li H · Jia W · Panagiotou G last · Zhang L · Li J · Wu Q · He J · Kovatcheva-Datchary P · Yuan R · Liu S · Shen L · Zhang M · Sheng B · Li P · Kang K · Wu L · Fang Q · Wang X · Li Y · Ye Y · Ye J · Bao Y · Zhao Y · Xu G · Liu X
Downloads
PRJNA414688.csv.gz (3.1 KB) · parquet (73.7 KB) — all 86 samples, every field with route and confidence · PRJNA414688_determinations.csv.gz (5.6 KB) — 731 evidence rows