Gut metagenomes from UK TwinsUK cohort, cross-sectional
1,004 fecal metagenome samples from TwinsUK (UK Adult Twin Registry) participants in the United Kingdom, part of a cross-sectional study examining gut microbiome composition in relation to impaired fasting glucose and metabolic health. machine-written summary
1,004 samples · 1,004 runs · GB · Age unknown · 2019 · 6.20 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 4,016 sample values (collection date, country, latitude, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 1,004 sample values (subject id) · PMC10115644, PMC10140478, PMC10395212, PMC10658071, PMC10907771, PMC11304618, PMC6776654, PMC8551085, PMC8812230 |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
twins — not resolved
TwinsUK cohort of 1,004 older adults (twins); twin-pair / zygosity ids not in the archive or linked paper.
Genera, mean relative abundance over 916 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 | 0 | 0% | ||||
| country | 1,004 | 100% | 1,004 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 1,004 | 100% | 1,004 | |||
| collection_date | 1,004 | 100% | 1,004 | |||
| latitude | 1,004 | 100% | 1,004 | |||
| longitude | 1,004 | 100% | 1,004 |
- Interplay between the human gut microbiome and host metabolism. 2019 PMID 31582752 PMC6776654 own_data
- Microbial Species that Initially Colonize the Human Gut at Birth or in Early Childhood Can Stay in Human Body for Lifetime. 2021 PMID 33410935 PMC8551085 own_data
- Yoghurt consumption is associated with changes in the composition of the human gut microbiome and metabolome. 2022 PMID 35114943 PMC8812230 own_data
- Multiomic signatures of body mass index identify heterogeneous health phenotypes and responses to a lifestyle intervention. 2023 PMID 36941332 PMC10115644 own_data
- A Fecal Metabolite Signature of Impaired Fasting Glucose: Results From Two Independent Population-Based Cohorts. 2023 PMID 37699401 PMC10658071 own_data
7 more
- Cross-sectional analyses of metabolites across biological samples mediating dietary acid load and chronic kidney disease. 2024 PMID 38433906 PMC10907771
- Multiomic Body Mass Index signatures in blood reveal clinically relevant population heterogeneity and variable responses to a healthy lifestyle intervention 2022
- Codiversification of gut microbiota with humans. 2022 PMID 36108023 PMC10777373
- The secondary bile acid isoursodeoxycholate correlates with post-prandial lipemia, inflammation, and appetite and changes post-bariatric surgery. 2023 PMID 37023745 PMC10140478
- Genetic and gut microbiome determinants of SCFA circulating and fecal levels, postprandial responses and links to chronic and acute inflammation. 2023 PMID 37526398 PMC10395212
- Vitamin A carotenoids, but not retinoids, mediate the impact of a healthy diet on gut microbial diversity. 2024 PMID 39113058 PMC11304618
- CroCoDeEL: accurate control-free detection of cross-sample contamination in metagenomic data. 2026 PMID 42103726 PMC13377033
Archive description
Nextera XT libraries were prepared manually following the manufacturers' protocol (Illumina, PN. 15031942). Briefly, samples were normalized to 0.2 ng/ml DNA material per library using a Quant-iT picogreen assay system (Life Technologies, PN. Q33120) on an AF2200 plate reader (Eppendorf), then fragmented and tagged via tagmentation. Amplification was performed by Veriti 96 well PCR (Applied Biosystems) followed by AMPure XP bead cleanup (Beckman Coulter, PN. A63880). Fragment size for all libraries was measured using a Labchip GX Touch HiSens. Sequencing was performed on an Illumina HiSeq 2500 using SBS kit V4 Chemistry, with a read length of 2x125 bp. Metadata on TwinsUK twin participants are available to bona fide researchers under managed access due to governance and ethical constraints. Raw data should be requested via our website (http://twinsuk.ac.uk/resources-for-researchers/access-our-data/) and requests are reviewed by the TwinsUK Resource Executive Committee (TREC) regularly.
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 metagenome”
- body site study.title · “human gut microbiome and host metabolism”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA5813845 | collection_date | 2012 | R1 | 0.90 | biosample.attribute:collection_date | 2012 |
| SAMEA5813845 | country | GB | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | United Kingdom |
| SAMEA5813845 | latitude | 51.5000 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 51.5 -0.12 |
| SAMEA5813845 | longitude | -0.1200 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 51.5 -0.12 |
| SAMEA5813845 | subject_id | SAMEA5813845 | R3 | 0.70 | design.one_sample_per_subject:fulltext | we re-analyzed the stool samples from 1004 individuals from the TwinsUK cohort |
Sequencing
1,004 runs over 1,004 samples · mean 6.41 Gbp per run (median 6.20 Gbp, total 6,435.99 Gbp; 1,004 runs with a base count) · layout PAIRED 1,004 · platform ILLUMINA 1,004 · models Illumina HiSeq 2500 (1,004) · 91% of runs with a Sandpiper profile · first public 2019-09-23 – 2019-11-06
Authors (63)
Li W first · Nelson KE last · Zeng S first · Patangia D · Almeida A · Zhou Z · Mu D · Paul Ross R · Stanton C · Wang S last · Louca P first · Meijnikman AS · Nogal A · Asnicar F · Attaye I · Vijay A · Kouraki A · Visconti A · Wong K · Berry SE · Leeming ER · Mompeo O · Tettamanzi F · Baleanu AF · Falchi M · Hadjigeorgiou G · Wolf J · Acherman YIZ · Van de Laar AW · Gerdes VEA · Michelotti GA · Franks PW · Segata N · Mangino M · Spector TD · Bulsiewicz WJ · Nieuwdorp M · Valdes AM · Menni C last · Li S · Ying J · Wang H · Qu Y · Niu X · Beynon-Cobb B · Michellotti G · Bell JT · Bermingham K · Tarracchini C first · Lugli GA · Mancabelli L · van Sinderen D · Turroni F · Ventura M · Milani C last · Goulet L first · Plaza Oñate F · Famechon A · Quinquis B · Belda E · Prifti E · Le Chatelier E · Gautreau G last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, health_condition. Share metadata
Downloads
PRJEB32731.csv.gz (24.2 KB) · parquet (112.1 KB) — all 1,004 samples, every field with route and confidence · PRJEB32731_determinations.csv.gz (28.9 KB) — 5,020 evidence rows