Western vs Mediterranean diet effects on gut microbiota
35 shotgun metagenome samples from adults in Barcelona, Spain, studying effects of western and Mediterranean-type diets on gut microbiota as part of a dietary intervention design. machine-written summary
35 samples · 35 runs · ES · Adult · 2021 · 3.67 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 315 sample values (collection date, country, diet, diet detail, intervention, intervention detail, location locality, sex) |
| ✓ Abstract / description | 70 sample values (health condition, health condition detail) |
| ○ Full text | read; no usable statement or table · PMC8400818 |
| ○ 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 |
longitudinal — not resolved
15 of 20 people sampled more than once (30 samples; median 2, up to 2 per person). Schedule stated by the source: “Cross-over: 2-week washout diet, then 2-week WD or FMD diet period, then crossover; faecal samples from last days of each diet period” (time origin: intervention_start).
Genera, mean relative abundance over 31 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 | 35 | 100% | ||||
| country | 35 | 100% | 35 | |||
| health_condition | 35 | 100% | 35 | |||
| subject_id | 35 | 100% | 35 | |||
| collection_date | 35 | 100% | 35 | |||
| detailed_location | 35 | 100% | ||||
| diet | 35 | 100% | 35 | |||
| diet_detail | 35 | 100% | 35 | |||
| health_condition_detail | 35 | 100% | 35 | |||
| intervention | 35 | 100% | 35 | |||
| intervention_detail | 35 | 100% | 35 | |||
| location_locality | 35 | 100% | 35 | |||
| sex | 35 | 100% | 35 |
- Differential Effects of Western and Mediterranean-Type Diets on Gut Microbiota: A Metagenomics and Metabolomics Approach. 2021 PMID 34444797 PMC8400818 own_data
Archive description
Shotgun metagenomics sequencing data for the article "Differential effects of western and mediterranean-type diets on gut microbiota: a metagenomics and metabolomics approach" (manuscript ID nutrients-1289360)
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 · “mediterranean-type diets on gut microbiota: a metagenomics”
- body site study.description · “mediterranean-type diets on gut microbiota: a metagenomics”
- 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 |
|---|---|---|---|---|---|---|
| SAMN20837588 | collection_date | 2020-01-28 | R1 | 0.90 | biosample.attribute:collection_date | 2020-01-28 |
| SAMN20837588 | country | ES | R1 | 0.90 | sample.attr.geo_loc_name | Spain: Barcelona |
| SAMN20837588 | diet | therapeutic_or_study_diet | R1 | 0.90 | biosample.attribute:host_diet | Fiber-enriched Mediterranean-type Diet (FMD) |
| SAMN20837588 | diet_detail | Fiber-enriched Mediterranean-type Diet (FMD) | R1 | 0.90 | biosample.attribute:host_diet | Fiber-enriched Mediterranean-type Diet (FMD) |
| SAMN20837588 | health_condition | healthy_control | R4 | 0.50 | paper.abstract | In 20 healthy men, each diet was administered for 2 weeks preceded by a 2-week washout diet |
| SAMN20837588 | health_condition_detail | healthy men | R4 | 0.50 | paper.abstract | In 20 healthy men, each diet was administered for 2 weeks preceded by a 2-week washout diet |
| SAMN20837588 | intervention | diet_intervention | R1 | 0.90 | biosample.attribute:host_diet | host_diet: Fiber-enriched Mediterranean-type Diet (FMD) |
| SAMN20837588 | intervention_detail | fiber-enriched mediterranean-type diet (FMD) arm | R1 | 0.90 | biosample.attribute:host_diet | host_diet: Fiber-enriched Mediterranean-type Diet (FMD) |
| SAMN20837588 | location_locality | Barcelona | R1 | 0.85 | biosample.attribute:geo_loc_name | Spain: Barcelona |
| SAMN20837588 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMN20837588 | subject_id | 1 | R1 | 0.70 | sample.name_rule:alias | ED1F |
Sequencing
35 runs over 35 samples · mean 3.52 Gbp per run (median 3.67 Gbp, total 123.37 Gbp; 35 runs with a base count) · layout PAIRED 35 · platform ILLUMINA 35 · models NextSeq 500 (35) · 89% of runs with a Sandpiper profile · first public 2021-08-25
Authors (0)
No author record.
Downloads
PRJNA755720.csv.gz (2.0 KB) · parquet (71.9 KB) — all 35 samples, every field with route and confidence · PRJNA755720_determinations.csv.gz (3.6 KB) — 385 evidence rows