Longitudinal gut virome in healthy adults, Cork, Ireland
130 faecal samples from healthy adult volunteers in Cork, Ireland, collected monthly over one year as part of a longitudinal study of the gut virome. machine-written summary
130 samples · 140 runs · IE · Adult · 2019 · 0.92 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,305 sample values (age, antibiotic exposure, bmi, collection date, country, latitude, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 260 sample values (health condition, health condition detail) · PMC11034026, PMC11460016, PMC11792537, PMC11986028, PMC7062461, PMC8201803 |
| ○ 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
10 of 10 people sampled more than once (130 samples; median 13, up to 15 per person) · follow-up median 11 mo (max 18 mo) · median interval between samples 30 d (time from collection dates). Schedule stated by the source: “Monthly stool sampling over one year in 10 healthy adults (T1-T12)” (time origin: enrolment); stated follow-up 12 mo.
Each row is one person (10 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 98 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 | 130 | 100% | ||||
| country | 130 | 100% | 130 | |||
| health_condition | 130 | 100% | 130 | |||
| subject_id | 130 | 100% | 130 | |||
| age_at_collection_days | 130 | 100% | 130 | |||
| bmi | 130 | 100% | 130 | |||
| detailed_location | 130 | 100% | ||||
| health_condition_detail | 130 | 100% | 130 | |||
| latitude | 130 | 100% | 130 | |||
| location_region | 130 | 100% | 130 | |||
| longitude | 130 | 100% | 130 | |||
| sex | 130 | 100% | 130 | |||
| timepoint_label | 130 | 100% | 130 | |||
| collection_date | 129 | 99% | 129 | |||
| antibiotic_exposure | 6 | 5% | 6 |
- A catalog of tens of thousands of viruses from human metagenomes reveals hidden associations with chronic diseases. 2021 PMID 34083435 PMC8201803 own_data
- IPEV: identification of prokaryotic and eukaryotic virus-derived sequences in virome using deep learning. 2024 PMID 38649300 PMC11034026 own_data
- Viromes vs. mixed community metagenomes: choice of method dictates interpretation of viral community ecology. 2024 PMID 39375774 PMC11460016 own_data
- Resurrection of a global, metagenomically defined gokushovirus. 2020 PMID 32101162 PMC7062461 unsure
- Identification and characterization of <i>Faecalibacterium</i> prophages rich in diversity-generating retroelements. 2025 PMID 39745426 PMC11792537 unsure
1 more
- Characterization of the phyllosphere virome of fresh vegetables and potential transfer to the human gut. 2025 PMID 40210629 PMC11986028
Archive description
Longitudinal focused metagenomic study of faecal viral populations in ten healthy adults over one year period with monthly sampling.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by opus_adjudicated with confidence 0.70. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “faecal viral populations”
- life stage study.description · “ten healthy adults”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN11893691 | age_at_collection_days | 9857.0 | R1 | 0.85 | sample.attr.host_age | 27 |
| SAMN11893691 | antibiotic_exposure | yes | R1 | 0.85 | biosample.attribute:chem_administration | chem_administration: Co_amoxiclav |
| SAMN11893691 | bmi | 27.9 | R1 | 0.90 | sample.attr.host_body_mass_index | 27.9 |
| SAMN11893691 | collection_date | 2015-11-06 | R1 | 0.90 | biosample.attribute:collection_date | 2015-11-06 |
| SAMN11893691 | country | IE | R1 | 0.90 | sample.attr.geo_loc_name | Ireland: Cork |
| SAMN11893691 | health_condition | healthy_control | R3 | 0.70 | paper.fulltext.methods | 130 virome samples from 10 healthy adults |
| SAMN11893691 | health_condition_detail | Healthy adults, longitudinal gut virome, no reported disease | R3 | 0.70 | paper.fulltext.methods | 130 virome samples from 10 healthy adults |
| SAMN11893691 | latitude | 51.8900 | R1 | 0.90 | biosample.attribute:lat_lon | 51.89 N 8.49 W |
| SAMN11893691 | location_region | Cork | R1 | 0.85 | biosample.attribute:geo_loc_name | Ireland: Cork |
| SAMN11893691 | longitude | -8.4900 | R1 | 0.90 | biosample.attribute:lat_lon | 51.89 N 8.49 W |
| SAMN11893691 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMN11893691 | subject_id | APC055_916 | R1 | 0.85 | sample.attr.host_subject_id | APC055_916 |
| SAMN11893691 | timepoint_label | Month_1 | R1 | 0.85 | biosample.attribute:experimental_factor | experimental_factor: Month_1 |
| SAMN11895554 | timepoint_label | month 8 | R1 | 0.70 | sample.name_rule:alias | Lon_metagen_916_T8 |
Sequencing
140 runs over 130 samples · mean 1.55 Gbp per run (median 0.91 Gbp, total 217.65 Gbp; 140 runs with a base count) · layout PAIRED 140 · platform ILLUMINA 140 · models Illumina HiSeq 2500 (120), Illumina HiSeq 4000 (20) · 85% of runs with a Sandpiper profile · first public 2019-10-12
Authors (42)
Tisza MJ first · Buck CB last · Zeng S first · Almeida A · Li S · Ying J · Wang H · Qu Y · Paul Ross R · Stanton C · Zhou Z · Niu X · Mu D · Wang S last · Yin H first · Wu S · Tan J · Guo Q · Li M · Guo J · Wang Y · Jiang X · Zhu H last · Kosmopoulos JC first · Klier KM · Langwig MV · Tran PQ · Anantharaman K last · Gulyaeva A first · Liu L · Garmaeva S · Kruk M · Weersma RK · Harmsen HJM · Zhernakova A last · Park JW first · Yun YE · Cho JA · Yoon SI · In SA · Park EJ · Kim MS last
Downloads
PRJNA545408.csv.gz (4.7 KB) · parquet (76.9 KB) — all 130 samples, every field with route and confidence · PRJNA545408_determinations.csv.gz (10.5 KB) — 1,565 evidence rows