Gut metagenomics, omnivore, vegetarian, vegan adults, Italy
Cross-sectional study of 27 fecal samples from healthy adult omnivorous, vegetarian and vegan volunteers in Parma, Bari, Torino and Bologna, Italy, examining gut microbial functional diversity by diet type. machine-written summary
27 samples · 27 runs · IT · Age unknown · 2016 · 6.71 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 156 sample values (collection date, country, diet, location locality, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 35 sample values (antibiotic exposure, health condition, health condition detail) · PMC12199706, PMC7060259, PMC8634118 |
| ✓ Supplementary tables | 6 sample values (subject id) |
| ✓ External resources | 115 sample values (age, bmi, health condition, health condition detail, sex) · from curatedMetagenomicData 3 (cMD 3) |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 25 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 | 27 | 100% | ||||
| country | 27 | 100% | 27 | |||
| health_condition | 27 | 100% | 23 | 4 | ||
| subject_id | 27 | 100% | 21 | 6 | ||
| antibiotic_exposure | 27 | 100% | 27 | |||
| collection_date | 27 | 100% | 27 | |||
| detailed_location | 27 | 100% | ||||
| diet | 27 | 100% | 27 | |||
| health_condition_detail | 27 | 100% | 23 | 4 | ||
| location_locality | 27 | 100% | 27 | |||
| timepoint_label | 27 | 100% | 27 | |||
| age_at_collection_days | 23 | 85% | 23 | |||
| bmi | 23 | 85% | 23 | |||
| sex | 23 | 85% | 23 |
- Diet influences the functions of the human intestinal microbiome. 2020 PMID 32144387 PMC7060259 own_data
- A versatile genetic toolbox for Prevotella copri enables studying polysaccharide utilization systems. 2021 PMID 34676563 PMC8634118 unsure
- Integrating comparative genomics and risk classification by assessing virulence, antimicrobial resistance, and plasmid spread in microbial communities with gSpreadComp. 2025 PMID 40569694 PMC12199706 unsure
Archive description
Gut microbiota and metagenomic diversity of omnivore, vegetarian and vegan healthy subjects
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.72. Assay shotgun_dna.
- host run.scientific_name · “human gut metagenome”
- body site study.title · “Gut microbiota and metagenomic diversity”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN05710166 | age_at_collection_days | 12418.5 | R2 | 0.75 | external.cmd source | age: 34; age_unit: Year; age_group: Adult |
| SAMN05710166 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | consumption of antibiotics in the previous 3 months |
| SAMN05710166 | bmi | 21.5 | R2 | 0.75 | external.cmd source | bmi: 21.5 |
| SAMN05710166 | collection_date | 2013 | R1 | 0.90 | biosample.attribute:collection_date | 2013 |
| SAMN05710166 | country | IT | R1 | 0.90 | sample.attr.geo_loc_name | Italy:Bari |
| SAMN05710166 | diet | vegetarian | R1 | 0.85 | biosample.attribute:title | feces from vegetarian subject from Bari 01 |
| SAMN05710171 | diet | vegan | R1 | 0.70 | sample.name_rule:alias | 07.PR.V.2 |
| SAMN05710166 | health_condition | healthy_control | R2 | 0.75 | external.cmd source | disease: Healthy |
| SAMN05710172 | health_condition | healthy_control | R3 | 0.70 | paper.fulltext.methods | Thirty healthy adult volunteers |
| SAMN05710166 | health_condition_detail | Healthy | R2 | 0.75 | external.cmd source | disease: Healthy |
| SAMN05710172 | health_condition_detail | healthy adult volunteers | R3 | 0.70 | paper.fulltext.methods | Thirty healthy adult volunteers |
| SAMN05710166 | location_locality | Bari | R1 | 0.85 | biosample.attribute:geo_loc_name | Italy:Bari |
| SAMN05710166 | sex | male | R2 | 0.75 | external.cmd source | sex: Male |
| SAMN05710166 | subject_id | 01 | R1 | 0.70 | sample.name_rule:alias | 01.BA.VG.2 |
| SAMN05710167 | subject_id | Bari 04 | R2 | 0.80 | archive | |
| SAMN05710166 | timepoint_label | 2 | R1 | 0.70 | sample.name_rule:alias | 01.BA.VG.2 |
Sequencing
27 runs over 27 samples · mean 6.62 Gbp per run (median 6.71 Gbp, total 178.66 Gbp; 27 runs with a base count) · layout SINGLE 27 · platform ILLUMINA 27 · models Illumina HiSeq 1500 (27) · 93% of runs with a Sandpiper profile · first public 2016-09-05 – 2016-09-07
Authors (55)
De Angelis M first · Ferrocino I · Calabrese FM · De Filippis F · Cavallo N · Siragusa S · Rampelli S · Di Cagno R · Rantsiou K · Vannini L · Pellegrini N · Lazzi C · Turroni S · Lorusso N · Ventura M · Chieppa M · Neviani E · Brigidi P · O'Toole PW · Ercolini D · Gobbetti M · Cocolin L last · Li J first · Gálvez EJC · Amend L · Almási · Iljazovic A · Lesker TR · Bielecka AA · Schorr EM · Strowig T last · Argentini C first · Lugli GA · Tarracchini C · Fontana F · Mancabelli L · Viappiani A · Anzalone R · Angelini L · Alessandri G · Longhi G · Bianchi MG · Taurino G · Bussolati O · Milani C · van Sinderen D · Turroni F · Kasmanas JC first · Magnúsdóttir S · Zhang J · Smalla K · Schloter M · Stadler PF · de Leon Ferreira de Carvalho ACP · Rocha U last
Downloads
PRJNA340216.csv.gz (2.0 KB) · parquet (72.0 KB) — all 27 samples, every field with route and confidence · PRJNA340216_determinations.csv.gz (4.9 KB) — 312 evidence rows