Healthy Chinese gut microbiota across regions and time
239 fecal samples from healthy Chinese adults in Beijing, Henan, Jiangsu, and Sichuan, including a 1-year longitudinal cohort in Beijing, examining spatial and temporal changes in gut microbiota composition. machine-written summary
239 samples · 239 runs · CN · Adult · 2022 · 7.64 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 759 sample values (collection date, country, location locality, location region, subject id) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC9769860 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 478 sample values (health condition, health condition detail) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
6 of 7 people sampled more than once (41 samples; median 6, up to 11 per person). Schedule stated by the source: “Cross-sectional collection 2016-2019 across 4 regions; subset of 7 Beijing individuals sampled monthly June 2018-June 2019.”.
Genera, mean relative abundance over 222 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 | 239 | 100% | ||||
| country | 239 | 100% | 239 | |||
| health_condition | 239 | 100% | 239 | |||
| subject_id | 42 | 18% | 42 | |||
| collection_date | 239 | 100% | 239 | |||
| detailed_location | 239 | 100% | ||||
| health_condition_detail | 239 | 100% | 239 | |||
| location_locality | 151 | 63% | 151 | |||
| location_region | 88 | 37% | 88 |
- The Spatial Features and Temporal Changes in the Gut Microbiota of a Healthy Chinese Population. 2022 PMID 36453887 PMC9769860 own_data
Archive description
The spatial-temporal change feature of Gut microbiota community in healthy Chinese population
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 study.title · “Gut microbiota community in”
- body site study.description · “change feature of Gut microbiota community in”
- 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 |
|---|---|---|---|---|---|---|
| SAMN25290052 | collection_date | 2016 | R1 | 0.90 | biosample.attribute:collection_date | 2016 |
| SAMN25290052 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China:Beijing |
| SAMN25290052 | health_condition | healthy_control | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMN25290052 | health_condition_detail | Health | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMN25290052 | location_locality | Beijing | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Beijing |
| SAMN25290203 | location_region | Henan | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Henan |
| SAMN25290075 | subject_id | ZY5 | R1 | 0.70 | sample.name_rule:alias | S18ZYF5 |
Sequencing
239 runs over 239 samples · mean 8.40 Gbp per run (median 7.64 Gbp, total 2,008.44 Gbp; 239 runs with a base count) · layout PAIRED 239 · platform ILLUMINA 239 · models Illumina HiSeq 2000 (239) · 93% of runs with a Sandpiper profile · first public 2022-04-17 – 2022-10-02
Downloads
PRJNA801051.csv.gz (6.3 KB) · parquet (78.4 KB) — all 239 samples, every field with route and confidence · PRJNA801051_determinations.csv.gz (9.3 KB) — 1,237 evidence rows