Gut metagenome of healthy Dutch school-age children (KOALA)
281 stool samples from healthy 6-9 year old children (mean age 7.25) in the KOALA Birth Cohort Study, Maastricht, Netherlands, examining gut microbiota composition and enterotypes; cross-sectional design. machine-written summary
281 samples · 572 runs · NL · Child · 2018 · 4.42 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,686 sample values (collection date, country, latitude, location locality, location region, longitude) |
| ✓ Abstract / description | 281 sample values (location site) |
| ○ Full text | read; no usable statement or table · PMC6320620 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 562 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 |
Genera, mean relative abundance over 255 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 | 281 | 100% | ||||
| country | 281 | 100% | 281 | |||
| health_condition | 281 | 100% | 281 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 281 | 100% | 281 | |||
| detailed_location | 281 | 100% | ||||
| health_condition_detail | 281 | 100% | 281 | |||
| latitude | 281 | 100% | 281 | |||
| location_locality | 281 | 100% | 281 | |||
| location_region | 281 | 100% | 281 | |||
| location_site | 281 | 100% | 281 | |||
| longitude | 281 | 100% | 281 |
- Impact of early events and lifestyle on the gut microbiota and metabolic phenotypes in young school-age children. 2019 PMID 30609941 PMC6320620 own_data
Archive description
To investigate the gut microbial characteristics of healthy Dutch children at 6-9 years as well as the relationship between their gut microbiota and multiple phenotypic factors, we collected stool samples from 281 children aged 6-9 years (mean age 7.25 years) enrolled in the KOALA Birth Cohort Study.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child by sonnet_x2 with confidence 0.85. Assay shotgun_dna.
- host study.description · “healthy Dutch children at 6-9 years”
- body site study.description · “we collected stool samples from 281 children”
- life stage study.description · “children aged 6-9 years (mean age 7.25 years)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA4809485 | collection_date | 2011 | R1 | 0.90 | biosample.attribute:collection_date | 2011 |
| SAMEA4809485 | country | NL | R1 | 0.90 | sample.attr.geographic_location | Netherlands : Maastricht |
| SAMEA4809485 | health_condition | healthy_control | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMEA4809485 | health_condition_detail | Health | R2 | 0.75 | external.gmrepo source | phenotype: Health |
| SAMEA4809485 | latitude | 50.8500 | R1 | 0.90 | biosample.attribute:latitude_and_longitude | 50.85 N 5.69 E |
| SAMEA4809485 | location_locality | Maastricht | R1 | 0.85 | biosample.attribute:geographic_location | Netherlands : Maastricht |
| SAMEA4809485 | location_region | Limburg | R1 | 0.60 | biosample.attribute:latitude_and_longitude | 50.85 N 5.69 E |
| SAMEA4809485 | location_site | KOALA Birth Cohort Study | R4 | 0.45 | ena.study_description | enrolled in the KOALA Birth Cohort Study |
| SAMEA4809485 | longitude | 5.6900 | R1 | 0.90 | biosample.attribute:latitude_and_longitude | 50.85 N 5.69 E |
Sequencing
572 runs over 281 samples · mean 2.24 Gbp per run (median 1.01 Gbp, total 1,279.18 Gbp; 572 runs with a base count) · layout SINGLE 287, PAIRED 285 · platform ILLUMINA 572 · models Illumina HiSeq 2000 (571), Illumina HiSeq 2500 (1) · 45% of runs with a Sandpiper profile · first public 2018-08-03 – 2018-12-19
Authors (36)
Zhong H first · Penders J · Shi Z · Ren H · Cai K · Fang C · Ding Q · Thijs C · Blaak EE · Stehouwer CDA · Xu X · Yang H · Wang J · Jonkers DMAE · Masclee AAM · Brix S · Li J · Arts ICW · Kristiansen K last · Mancabelli L first · Milani C · De Biase R · Bocchio F · Fontana F · Lugli GA · Alessandri G · Tarracchini C · Viappiani A · De Conto F · Nouvenne A · Ticinesi A · Bussolati O · Meschi T · Cecchi R · Turroni F · Ventura M last
Downloads
PRJEB26795.csv.gz (7.7 KB) · parquet (80.9 KB) — all 281 samples, every field with route and confidence · PRJEB26795_determinations.csv.gz (16.0 KB) — 2,529 evidence rows