Gut mycobiome & exercise in Chinese men with prediabetes
138 samples from 39 Chinese men with prediabetes in a randomized controlled trial of 12-week exercise intervention. Shotgun metagenomics and ITS2 sequencing analyzed fungal and bacterial community changes associated with glycaemic control. machine-written summary
107 samples · 138 runs · HK · Age unknown · 2019 · 5.62 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 749 sample values (collection date, country, intervention, latitude, longitude, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 321 sample values (health condition, health condition detail, sex) · PMC11533799 |
| ○ 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 resolved
Exercise / physical-training programme design single_arm_before_after · population type2_diabetes · 12-week high-intensity exercise training in prediabetic males
“high-intensity exercise intervention on glycaemic control” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal
38 of 69 people sampled more than once (76 samples; median 2, up to 2 per person) · follow-up median 3 mo (max 3 mo) · median interval between samples 3 mo (time from timepoint labels). Schedule stated by the source: “Fecal samples at baseline and after 12-week exercise training (week 12); monthly specimen collection noted in methods” (time origin: intervention_start); stated follow-up 3 mo.
Each row is one person (36 shown of 38); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 130 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 | 107 | 100% | ||||
| country | 107 | 100% | 107 | |||
| health_condition | 107 | 100% | 107 | |||
| subject_id | 107 | 100% | 107 | |||
| collection_date | 107 | 100% | 107 | |||
| health_condition_detail | 107 | 100% | 107 | |||
| intervention | 107 | 100% | 107 | |||
| latitude | 107 | 100% | 107 | |||
| longitude | 107 | 100% | 107 | |||
| sex | 107 | 100% | 107 | |||
| timepoint_label | 107 | 100% | 107 |
- Exercise-changed gut mycobiome as a potential contributor to metabolic benefits in diabetes prevention: an integrative multi-omics study. 2024 PMID 39473051 PMC11533799 own_data
- Identification of robust and generalizable biomarkers for microbiome-based stratification in lifestyle interventions. 2023 PMID 37553697 PMC10408196 unsure
- Discovery of robust and highly specific microbiome signatures of non-alcoholic fatty liver disease. 2025 PMID 39810263 PMC11730835 unsure
Archive description
In this clinical study, we investigated the effect of high-intensity exercise intervention on glycaemic control in human and performed shotgun metagenomic sequencing to elucidate the role of human gut microbiota within such process.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.70. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host study.description · “role of human gut microbiota”
- body site study.title · “Human gut metagenome”
- body site run.scientific_name · “gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN09042583 | collection_date | 2016-12 | R1 | 0.90 | biosample.attribute:collection_date | 2016-12 |
| SAMN09042583 | country | HK | R1 | 0.90 | sample.attr.geo_loc_name | Hong Kong |
| SAMN09042583 | health_condition | type2_diabetes | R3 | 0.70 | paper.fulltext.methods | overweight males with prediabetes were enrolled |
| SAMN09042583 | health_condition_detail | overweight males with prediabetes | R3 | 0.70 | paper.fulltext.methods | overweight males with prediabetes were enrolled |
| SAMN09042583 | intervention | exercise | R1 | 0.85 | biosample.attribute:title | title: Exercise Group, baseline |
| SAMN09042583 | latitude | 22.2830 | R1 | 0.90 | biosample.attribute:lat_lon | 22.2830 N 114.1371 E |
| SAMN09042583 | longitude | 114.1371 | R1 | 0.90 | biosample.attribute:lat_lon | 22.2830 N 114.1371 E |
| SAMN09042583 | sex | male | R3 | 0.70 | paper.fulltext.methods | Thirty-nine overweight males with prediabetes were enrolled |
| SAMN09042583 | subject_id | R1003 | R1 | 0.70 | sample.name_rule:alias | R1003-0w |
| SAMN09042583 | timepoint_label | baseline | R1 | 0.70 | sample.name_rule:alias | R1003-0w |
Sequencing
138 runs over 107 samples · mean 5.56 Gbp per run (median 5.62 Gbp, total 767.08 Gbp; 138 runs with a base count) · layout PAIRED 138 · platform ILLUMINA 138 · models Illumina HiSeq 4000 (138) · 94% of runs with a Sandpiper profile · first public 2019-01-02 – 2019-10-25
Authors (18)
Chen J first · Siliceo SL · Ni Y · Nielsen HB · Xu A · Panagiotou G last · Wang Y first · Liu Y · Gao X · Tse MA · Nychas E first · Marfil-Sánchez A · Chen X · Mirhakkak M · Li H · Jia W · Nieuwdorp M · Loomba R
Downloads
PRJNA454826.csv.gz (3.5 KB) · parquet (74.9 KB) — all 107 samples, every field with route and confidence · PRJNA454826_determinations.csv.gz (7.6 KB) — 1,070 evidence rows