Gut microbiome & chronotype in adults, Israel
116 gut metagenome samples from adults (and 2 elderly) in Haifa and Kfar Saba, Israel, in a cross-sectional study examining associations between gut microbiota composition and human chronotype (early riser vs. late sleeper). machine-written summary
116 samples · 116 runs · IL · Adult · 2021 · 1.38 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,017 sample values (age, bmi, collection date, country, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| – 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 |
Genera, mean relative abundance over 81 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 | 116 | 100% | ||||
| country | 116 | 100% | 116 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 89 | 77% | 89 | |||
| age_at_collection_days | 116 | 100% | 116 | |||
| bmi | 116 | 100% | 116 | |||
| collection_date | 116 | 100% | 116 | |||
| detailed_location | 116 | 100% | ||||
| latitude | 116 | 100% | 116 | |||
| location_locality | 116 | 100% | 116 | |||
| location_region | 116 | 100% | 116 | |||
| longitude | 116 | 100% | 116 |
- Metagenomic analysis reveals the signature of gut microbiota associated with human chronotypes. 2021 PMID 34695305 own_data
- Metagenomic analysis reveals the signature of gut microbiota associated with human chronotypes 2021 own_data
Archive description
Patterns of diurnal activity differ substantially between individuals, with early risers and late sleepers being extreme examples of circadian phase referred to as chronotypes. Growing evidence suggests that the late chronotype significantly impacts the risk of developing mood disorders, obesity, diabetes, and other chronic diseases. Despite the vast potential of utilizing chronotype information for precision medicine, the factors that shape chronotypes remain poorly understood. Here, we determined whether chronotypes are associated with different gut microbiome composition.
How this project entered the registry
Classified as human gut / stool / other human site 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 · “the signature of gut microbiota associated with”
- body site study.description · “associated with different gut microbiome composition.”
- body site sample.attr.env_medium · “Wound microbiome (n=27/116)”
- 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 |
|---|---|---|---|---|---|---|
| SAMN18315920 | age_at_collection_days | 10601.0 | R1 | 0.85 | sample.attr.host_age | 29 |
| SAMN18315920 | bmi | 26.73 | R1 | 0.90 | sample.attr.bmi | 26.7299275 |
| SAMN18315920 | collection_date | 2018-11-18 | R1 | 0.90 | biosample.attribute:collection_date | 2018-11-18 |
| SAMN18315920 | country | IL | R1 | 0.90 | sample.attr.geo_loc_name | Israel: Haifa |
| SAMN18315920 | latitude | 32.8330 | R1 | 0.90 | biosample.attribute:lat_lon | 32.833049 N 34.985710 E |
| SAMN18315920 | location_locality | Haifa | R1 | 0.85 | biosample.attribute:geo_loc_name | Israel: Haifa |
| SAMN18315920 | location_region | Haifa | R1 | 0.60 | biosample.attribute:lat_lon | 32.833049 N 34.985710 E |
| SAMN18315920 | longitude | 34.9857 | R1 | 0.90 | biosample.attribute:lat_lon | 32.833049 N 34.985710 E |
| SAMN18315920 | subject_id | SAMN18315920 | R1 | 0.55 | design.one_sample_per_subject:archive | distinct host_age + BMI + MSF_hours + chronotype_groups combination for every gut sample |
Sequencing
116 runs over 116 samples · mean 1.56 Gbp per run (median 1.38 Gbp, total 181.39 Gbp; 116 runs with a base count) · layout PAIRED 116 · platform ILLUMINA 116 · models NextSeq 500 (116) · 91% of runs with a Sandpiper profile · first public 2021-10-23 – 2021-11-03
Authors (24)
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 · Ventura M last · De Biase R · Bocchio F · De Conto F · Nouvenne A · Ticinesi A · Meschi T · Cecchi R
Downloads
PRJNA714678.csv.gz (4.7 KB) · parquet (76.5 KB) — all 116 samples, every field with route and confidence · PRJNA714678_determinations.csv.gz (8.9 KB) — 1,017 evidence rows