Vegan vs ketogenic diet gut metagenomes in healthy US adults
30 samples from healthy adults in Maryland, USA, studied in a crossover clinical trial where each participant sequentially consumed vegan and ketogenic diets for two weeks. machine-written summary
30 samples · 30 runs · US · Adult · 2023 · 3.26 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 390 sample values (age, collection date, country, diet, diet detail, intervention, intervention detail, latitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 60 sample values (health condition, health condition detail) · PMC10878979 |
| ○ 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
Controlled / prescribed diet or feeding regimen design crossover · population healthy_control · Sequential vegan vs ketogenic diet, 2 weeks each, randomized order
“consumed vegan or ketogenic diets for 2 weeks” — abstract:38291301 (study level; per-sample arms are in the intervention column below)
longitudinal
10 of 10 people sampled more than once (30 samples; median 3, up to 3 per person) · follow-up median 22 d (max 27 d) · median interval between samples 12 d (time from collection dates). Schedule stated by the source: “Stool samples collected at different time points per individual per diet period (baseline, vegan, ketogenic), ~3 samples/subject”.
Each row is one person (10 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 30 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 | 30 | 100% | ||||
| country | 30 | 100% | 30 | |||
| health_condition | 30 | 100% | 30 | |||
| subject_id | 30 | 100% | 30 | |||
| age_at_collection_days | 30 | 100% | 30 | |||
| collection_date | 30 | 100% | 30 | |||
| detailed_location | 30 | 100% | ||||
| health_condition_detail | 30 | 100% | 30 | |||
| intervention | 30 | 100% | 30 | |||
| intervention_detail | 30 | 100% | 30 | |||
| latitude | 30 | 100% | 30 | |||
| location_region | 30 | 100% | 30 | |||
| longitude | 30 | 100% | 30 | |||
| sex | 30 | 100% | 30 | |||
| timepoint_label | 30 | 100% | 30 | |||
| diet | 20 | 67% | 20 | |||
| diet_detail | 20 | 67% | 20 | |||
| lifestyle | 10 | 33% | 10 | |||
| lifestyle_detail | 10 | 33% | 10 |
- Differential peripheral immune signatures elicited by vegan versus ketogenic diets in humans. 2024 PMID 38291301 PMC10878979 own_data
Archive description
Nutrition broadly affects all physiological processes. However, how nutrition impacts human immunity remains largely unknown. Here, we explored the impact of a dietary intervention on both immunity and the microbiota in a highly controlled clinical setting, with each participant sequentially consuming vegan or ketogenic diets for 2 weeks, in random order.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.65. Assay shotgun_dna.
- host study.title · “in humans”
- body site run.scientific_name · “gut metagenome”
- life stage study.description · “each participant sequentially consuming vegan or ketogenic diets”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN35663305 | age_at_collection_days | 8391.0 | R1 | 0.85 | sample.attr.host_age | 23 |
| SAMN35663305 | collection_date | 2019-08-07 | R1 | 0.90 | biosample.attribute:collection_date | 2019-08-07 |
| SAMN35663305 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA:Maryland |
| SAMN35663306 | diet | vegan | R1 | 0.90 | biosample.attribute:host_diet | vegan |
| SAMN35663306 | diet_detail | vegan | R1 | 0.90 | biosample.attribute:host_diet | vegan |
| SAMN35663305 | health_condition | healthy_control | R3 | 0.70 | paper.fulltext.methods | no metabolic, cardiovascular or any other disease |
| SAMN35663305 | health_condition_detail | no metabolic, cardiovascular or other disease influencing metabolism | R3 | 0.70 | paper.fulltext.methods | no metabolic, cardiovascular or any other disease |
| SAMN35663305 | intervention | no_intervention | R1 | 0.90 | biosample.attribute:host_diet | host_diet: baseline |
| SAMN35663305 | intervention_detail | pre-intervention baseline | R1 | 0.90 | biosample.attribute:host_diet | host_diet: baseline |
| SAMN35663305 | latitude | 39.0100 | R1 | 0.90 | biosample.attribute:lat_lon | 39.01 N 77.10 W |
| SAMN35663306 | lifestyle | vegetarian_or_vegan | R1 | 0.85 | biosample.attribute:host_diet | vegan |
| SAMN35663306 | lifestyle_detail | vegan | R1 | 0.85 | biosample.attribute:host_diet | vegan |
| SAMN35663305 | location_region | Maryland | R1 | 0.85 | biosample.attribute:geo_loc_name | USA:Maryland |
| SAMN35663305 | longitude | -77.1000 | R1 | 0.90 | biosample.attribute:lat_lon | 39.01 N 77.10 W |
| SAMN35663305 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMN35663305 | subject_id | S9 | R1 | 0.85 | sample.attr.host_subject_id | S9 |
| SAMN35663305 | timepoint_label | 7 | R1 | 0.70 | sample.name_rule:alias | S9D7 |
Sequencing
30 runs over 30 samples · mean 3.37 Gbp per run (median 3.26 Gbp, total 101.11 Gbp; 30 runs with a base count) · layout PAIRED 30 · platform ILLUMINA 30 · models NextSeq 500 (30) · 100% of runs with a Sandpiper profile · first public 2023-12-01 – 2023-12-24
Authors (14)
Link VM first · Subramanian P · Cheung F · Han KL · Stacy A · Chi L · Sellers BA · Koroleva G · Courville AB · Mistry S · Burns A · Apps R · Hall KD · Belkaid Y last
Downloads
PRJNA981159.csv.gz (2.1 KB) · parquet (73.5 KB) — all 30 samples, every field with route and confidence · PRJNA981159_determinations.csv.gz (4.4 KB) — 450 evidence rows