Gut microbiome in Mexican children with T2DM and MetS
Case-control study of 30 gut microbiome samples from school-age children and adolescents in Guadalupe, Mexico, comparing healthy, metabolic syndrome, and type-2 diabetes groups. machine-written summary
30 samples · 30 runs · MX · Child · 2023 · 6.10 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 280 sample values (age, collection date, country, health condition, health condition detail, latitude, location locality, location region) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 60 sample values (location site, subject id) · PMC10277889, PMC12134222 |
| ○ 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 28 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 | 30 | 100% | ||||
| country | 30 | 100% | 30 | |||
| health_condition | 20 | 67% | 20 | |||
| subject_id | 30 | 100% | 30 | |||
| age_at_collection_days | 30 | 100% | 30 | |||
| collection_date | 30 | 100% | 30 | |||
| detailed_location | 30 | 100% | ||||
| latitude | 30 | 100% | 30 | |||
| location_locality | 30 | 100% | 30 | |||
| location_region | 30 | 100% | 30 | |||
| location_site | 30 | 100% | 30 | |||
| longitude | 30 | 100% | 30 | |||
| sex | 30 | 100% | 30 | |||
| health_condition_detail | 20 | 67% | 20 |
- Gut microbial composition and functionality of school-age Mexican population with metabolic syndrome and type-2 diabetes mellitus using shotgun metagenomic sequencing. 2023 PMID 37342535 PMC10277889 own_data
- Lipidomic signatures linked to gut microbiota alterations in children and adolescents with type 2 diabetes mellitus and metabolic syndrome. 2025 PMID 40461716 PMC12134222 own_data
Archive description
The main objective of this project is to study and find significant differences in the gut microbiome of school-age Mexican children with a healthy, metabolic syndrome, and type-2 diabetes mellitus condition.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child and adolescent by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_child_over_36m”
- body site study.title · “Gut microbiome studies in”
- body site study.description · “differences in the gut microbiome of school-age”
- life stage external_curation.infant_catalog · “infant triage reason_code age_child_over_36m”
- life stage study.title · “microbiome studies in school-age Mexican population”
- life stage sample.attr.host_age · “14 (n=20/30)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN27113157 | age_at_collection_days | 4748.2 | R1 | 0.70 | sample.attr.host_age | 13 |
| SAMN27113157 | collection_date | 2017-04 | R1 | 0.90 | biosample.attribute:collection_date | 2017-04 |
| SAMN27113157 | country | MX | R1 | 0.90 | sample.attr.geo_loc_name | Mexico:Guadalupe |
| SAMN27113167 | health_condition | cardiometabolic_other | R1 | 0.90 | biosample_attr | metabolic syndrome |
| SAMN27113167 | health_condition_detail | metabolic syndrome | R1 | 0.90 | sample.attr.host_disease | metabolic syndrome |
| SAMN27113157 | latitude | 25.6944 | R1 | 0.90 | biosample.attribute:lat_lon | 25.6944 N 100.2231 W |
| SAMN27113157 | location_locality | Guadalupe | R1 | 0.85 | biosample.attribute:geo_loc_name | Mexico:Guadalupe |
| SAMN27113157 | location_region | Nuevo Leon | R1 | 0.60 | biosample.attribute:lat_lon | 25.6944 N 100.2231 W |
| SAMN27113157 | location_site | Hospital Regional Materno Infantil de Alta Especialidad | R3 | 0.70 | paper.fulltext.methods | Hospital Regional Materno Infantil de Alta Especialidad, Nuevo Leon, Mexico |
| SAMN27113157 | longitude | -100.2231 | R1 | 0.90 | biosample.attribute:lat_lon | 25.6944 N 100.2231 W |
| SAMN27113157 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMN27113157 | subject_id | SAMN27113157 | R3 | 0.70 | design.one_sample_per_subject:fulltext | metabolic syndrome (MetS, n = 10), type 2 diabetes mellitus (T2DM, n = 10), and a healthy control group (n = 10) |
Sequencing
30 runs over 30 samples · mean 6.05 Gbp per run (median 6.10 Gbp, total 181.52 Gbp; 30 runs with a base count) · layout PAIRED 30 · platform ILLUMINA 30 · models Illumina HiSeq X (30) · 93% of runs with a Sandpiper profile · first public 2023-03-19
Authors (12)
Carrizales-Sánchez AK first · Tamez-Rivera O · García-Gamboa R · García-Cayuela T · Rodríguez-Gutiérrez NA · Elizondo-Montemayor L · García-Rivas G · Pacheco A · Hernández-Brenes C · Senés-Guerrero C last · Mora-Godínez S first · de la Garza AL
Downloads
PRJNA821541.csv.gz (2.0 KB) · parquet (72.8 KB) — all 30 samples, every field with route and confidence · PRJNA821541_determinations.csv.gz (3.2 KB) — 340 evidence rows