Gut microbiome in adults from polluted areas of Italy
359 fecal samples from adult subjects in Campania, Italy, living in areas with high, medium, or low environmental pollution; cross-sectional study examining pollution exposure effects on gut microbiome composition and function. machine-written summary
359 samples · 359 runs · IT · Adult · 2023 · 8.10 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 718 sample values (collection date, country) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 1,436 sample values (health condition, health condition detail, location region, subject id) · PMC11130323 |
| ✓ Supplementary tables | 1,436 sample values (age, antibiotic exposure, bmi, sex) |
| – 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 |
Genera, mean relative abundance over 334 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 | 359 | 100% | ||||
| country | 359 | 100% | 359 | |||
| health_condition | 359 | 100% | 359 | |||
| subject_id | 359 | 100% | 359 | |||
| age_at_collection_days | 359 | 100% | 359 | |||
| antibiotic_exposure | 359 | 100% | 359 | |||
| bmi | 359 | 100% | 359 | |||
| collection_date | 359 | 100% | 359 | |||
| detailed_location | 359 | 100% | ||||
| health_condition_detail | 359 | 100% | 359 | |||
| location_region | 359 | 100% | 359 | |||
| sex | 359 | 100% | 359 |
- Exposure to environmental pollutants selects for xenobiotic-degrading functions in the human gut microbiome. 2024 PMID 38802370 PMC11130323 own_data
Archive description
gut microbiome of adult subjects living in high-polluted areas
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.72. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “gut microbiome of adult subjects”
- life stage study.description · “gut microbiome of adult subjects”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN29924300 | age_at_collection_days | 16802 | R2 | 0.85 | paper.supp.41467_2024_48739_MOESM4_ESM.xlsx[Suppl Data S1!age (years)] | 46 |
| SAMN29924300 | antibiotic_exposure | no | R2 | 0.85 | paper.supp.41467_2024_48739_MOESM4_ESM.xlsx[Suppl Data S1!antibiotics in the past 6 months] | no |
| SAMN29924300 | bmi | 25.5 | R2 | 0.85 | paper.supp.41467_2024_48739_MOESM4_ESM.xlsx[Suppl Data S1!Body Mass Index (BMI)] | 25.51 |
| SAMN29924300 | collection_date | 2015 | R1 | 0.90 | biosample.attribute:collection_date | 2015 |
| SAMN29924300 | country | IT | R1 | 0.90 | sample.attr.geo_loc_name | Italy |
| SAMN29924300 | health_condition | healthy_control | R3 | 0.70 | paper.fulltext.methods | healthy subjects (no severe, chronic or neoplastic conditions) |
| SAMN29924300 | health_condition_detail | healthy subjects (no severe, chronic or neoplastic conditions) | R3 | 0.70 | paper.fulltext.methods | healthy subjects (no severe, chronic or neoplastic conditions) |
| SAMN29924300 | location_region | Campania | R3 | 0.70 | paper.fulltext.methods | population of healthy adults from Campania region |
| SAMN29924300 | sex | male | R2 | 0.85 | paper.supp.41467_2024_48739_MOESM4_ESM.xlsx[Suppl Data S1!sex] | m |
| SAMN29924300 | subject_id | SAMN29924300 | R3 | 0.75 | design.one_sample_per_subject:fulltext | was randomly selected from the entire SPES cohort for this study, including all subjects providing the fecal sample. |
Sequencing
359 runs over 359 samples · mean 8.01 Gbp per run (median 8.10 Gbp, total 2,875.22 Gbp; 359 runs with a base count) · layout PAIRED 359 · platform ILLUMINA 359 · models Illumina NovaSeq 6000 (359) · 93% of runs with a Sandpiper profile · first public 2023-04-01
Authors (12)
De Filippis F first · Valentino V · Sequino G · Borriello G · Riccardi MG · Pierri B · Cerino P · Pizzolante A · Pasolli E · Esposito M · Limone A · Ercolini D last
Downloads
PRJNA861716.csv.gz (11.2 KB) · parquet (86.9 KB) — all 359 samples, every field with route and confidence · PRJNA861716_determinations.csv.gz (24.9 KB) — 3,590 evidence rows