Gut microbiota in pre-diabetes and type 2 diabetes, Sweden
Cross-sectional study of 1825 gut metagenome samples from treatment-naïve adults in Sweden, examining cardiometabolic phenotypes including pre-diabetes and type 2 diabetes. machine-written summary
1,826 samples · 1,826 runs · SE · Age unknown · 2025 · 6.70 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 9,127 sample values (collection date, country, latitude, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 3,653 sample values (health condition, health condition detail, location region) · PMC12823436 |
| ○ 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 |
Genera, mean relative abundance over 1 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 | 1,826 | 100% | ||||
| country | 1,826 | 100% | 1,826 | |||
| health_condition | 1,826 | 100% | 1,826 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 1,826 | 100% | 1,826 | |||
| detailed_location | 1,826 | 100% | ||||
| health_condition_detail | 1,826 | 100% | 1,826 | |||
| location_region | 1,826 | 100% | 1,825 | 1 | ||
| latitude | 1,825 | 100% | 1,825 | |||
| longitude | 1,825 | 100% | 1,825 |
- Multi-omic definition of metabolic obesity through adipose tissue-microbiome interactions. 2026 PMID 41482560 PMC12823436 own_data
Archive description
The rising prevalence of type 2 diabetes (T2D) represents a major public health challenge with significant medical and societal implications. The gut metagenome has emerged as a potential contributor to the development of insulin resistance and T2D however, its role remains insufficiently understood, partly due to disease heterogeneity and the high risk of cardiometabolic complications. Additionally, the confounding effects of antidiabetic treatments hinder the interpretation of associations between gut microbiota and T2D. To address these limitations, we profiled the gut microbiota of 1,831 treatment-naïve individuals from a Swedish cohort, all of whom provided fecal samples and underwent extensive cardiometabolic and multi-omics phenotyping. This study aims to determine whether alterations in the gut microbiome are detectable prior to disease onset and to stratify individuals based on clinical parameters, metabolite profiles, and microbiota composition, thereby enhancing our understanding of T2D heterogeneity and related co-morbidities.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.75. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.description · “provided fecal samples”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA120401865 | collection_date | 2014 | R1 | 0.90 | biosample.attribute:collection_date | 2014 |
| SAMEA120401865 | country | SE | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | Sweden |
| SAMEA120401865 | health_condition | cardiometabolic_other | R3 | 0.70 | paper.fulltext.methods | without known or presumed cardiovascular disease |
| SAMEA120401865 | health_condition_detail | Impaired Glucose Tolerance and Microbiota Study, at-risk individuals without diagnosed T2D | R3 | 0.70 | paper.fulltext.methods | without known or presumed cardiovascular disease |
| SAMEA120401865 | latitude | 57.7060 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 57.706 11.954 |
| SAMEA120401865 | location_region | Vaestra Goetaland | R1 | 0.60 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 57.706 11.954 |
| SAMEA120402832 | location_region | Gothenburg | R3 | 0.70 | paper.fulltext.methods | from the greater Gothenburg area |
| SAMEA120401865 | longitude | 11.9540 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 57.706 11.954 |
Sequencing
1,826 runs over 1,826 samples · mean 6.86 Gbp per run (median 6.70 Gbp, total 12,526.66 Gbp; 1,826 runs with a base count) · layout PAIRED 1,826 · platform ILLUMINA 1,826 · models Illumina HiSeq 4000 (1,826) · 0% of runs with a Sandpiper profile · first public 2025-12-19 – 2026-09-23
Authors (17)
Chakaroun RM first · Pradhan M · Björnson E · Arvidsson D · Fridolfsson J · Gummesson A · Schoeler M · Mitteregger M · Smith GJ · Larsson I · Börjesson M · Blüher M · Uhlén M · Stumvoll M · Bergström G · Tremaroli V · Bäckhed F last
Downloads
PRJEB100670.csv.gz (41.7 KB) · parquet (135.5 KB) — all 1,826 samples, every field with route and confidence · PRJEB100670_determinations.csv.gz (65.8 KB) — 12,780 evidence rows