New dairy workers gut microbiome, Washington USA, longitudinal
37 healthy-control gut microbiome samples from adult new dairy workers in Washington, USA, studying gut colonization following zoonotic exposure in a longitudinal design. machine-written summary
37 samples · 37 runs · US · Adult · 2025 · 35.57 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 255 sample values (collection date, country, latitude, location region, longitude, sex, subject id) |
| ✓ Abstract / description | 74 sample values (health condition, health condition detail) |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – 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 not resolved
design observational_with_procedure
longitudinal
9 of 9 people sampled more than once (35 samples; median 4, up to 5 per person) · follow-up median 6 mo (max 2.7 y) · median interval between samples 4 mo (time from collection dates).
Each row is one person (9 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 20 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 | 37 | 100% | ||||
| country | 37 | 100% | 37 | |||
| health_condition | 37 | 100% | 37 | |||
| subject_id | 35 | 95% | 35 | |||
| collection_date | 37 | 100% | 37 | |||
| detailed_location | 37 | 100% | ||||
| health_condition_detail | 37 | 100% | 37 | |||
| latitude | 37 | 100% | 37 | |||
| location_region | 37 | 100% | 37 | |||
| longitude | 37 | 100% | 37 | |||
| sex | 35 | 95% | 35 |
Archive description
Zoonotic diseases result from the spillover of pathogens from animal reservoirs to humans due to contact with animals or animal products. An estimated 60% of known infectious diseases and up to 75% of emerging infectious diseases are zoonotic in origin. Despite this, relatively little is known about the alterations to the human microbiome in persons with a high degree of close contact with animals on farms. These samples enable the study of which bacteria colonize the human gut after zoonotic exposure by surveying "new" dairy workers (those without prior employment in the animal husbandry industry) soon after they commence dairy work.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.57. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “which bacteria colonize the human gut”
- life stage study.title · “Dairy Worker Longitudinal New Workers”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN48715750 | collection_date | 2023-05-24 | R1 | 0.90 | biosample.attribute:collection_date | 2023-05-24 |
| SAMN48715750 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Washington |
| SAMN48715750 | health_condition | healthy_control | R4 | 0.50 | study.title | Healthy Dairy Worker Longitudinal New Workers |
| SAMN48715750 | health_condition_detail | Study focuses on healthy dairy workers without prior animal husbandry employment | R4 | 0.50 | study.title | Healthy Dairy Worker Longitudinal New Workers |
| SAMN48715750 | latitude | 47.6062 | R1 | 0.90 | biosample.attribute:lat_lon | 47.6062 N 122.3321 W |
| SAMN48715750 | location_region | Washington | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Washington |
| SAMN48715750 | longitude | -122.3321 | R1 | 0.90 | biosample.attribute:lat_lon | 47.6062 N 122.3321 W |
| SAMN48715752 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMN48715752 | subject_id | S200 | R1 | 0.85 | sample.attr.host_subject_id | S200 |
Sequencing
37 runs over 37 samples · mean 33.06 Gbp per run (median 35.57 Gbp, total 1,223.08 Gbp; 37 runs with a base count) · layout PAIRED 37 · platform ILLUMINA 37 · models Illumina NovaSeq 6000 (37) · 54% of runs with a Sandpiper profile · first public 2025-05-28
Authors (0)
No author record.
Downloads
PRJNA1267264.csv.gz (2.1 KB) · parquet (72.0 KB) — all 37 samples, every field with route and confidence · PRJNA1267264_determinations.csv.gz (2.8 KB) — 329 evidence rows