Infant gut microbiome in Sao Paulo, Brazil (cohort)
961 samples from infants in Sao Paulo, Brazil, collected as part of a longitudinal cohort study on typical neurodevelopment (BRAINRISE Initiative). machine-written summary
961 samples · 961 runs · BR · Infant / toddler · 2024 · 1.50 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 3,844 sample values (collection date, country, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 961 sample values (preterm status) · PMC12005435 |
| ○ 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 |
longitudinal
420 of 541 people sampled more than once (840 samples; median 2, up to 2 per person) · follow-up median 4 mo (max 16 mo) · median interval between samples 4 mo (time from collection dates).
Each row is one person (36 shown of 420); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 883 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 | 961 | 100% | ||||
| country | 961 | 100% | 961 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 961 | 100% | 961 | |||
| collection_date | 961 | 100% | 961 | |||
| preterm_status | 961 | 100% | 961 | |||
| timepoint_label | 961 | 100% | 961 |
- Exclusive breastfeeding is associated with the gut microbiome maturation in infants according to delivery mode. PMID 40237336 PMC12005435 curated
Archive description
The BRAINRISE is a unified proposal from the University of Sao Paulo to integrate research teams from different Departments across different disciplines. Researchers are national and international experts in the fields of early microbiome, childhood development, childhood mental disorders, language development, neurophysiology, neuropsychopharmacology, neurogenetics, biochemistry, neuromathematics, and network science/statistics
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child and infant / toddler by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage verdict include”
- body site external_curation.infant_catalog · “infant triage verdict include (gut/stool scope)”
- life stage study.title · “Typical Neurodevelopment in Children , the BRAINRISE”
- life stage study.description · “of early microbiome, childhood development, childhood mental”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN39727965 | collection_date | 2021-12-01 | R1 | 0.85 | biosample.attribute:collection_date | collection_date: 2021-12-01 |
| SAMN39727965 | country | BR | R1 | 0.90 | biosample_attr | Brazil: Sao Paulo |
| SAMN39727965 | preterm_status | term | R3 | 0.80 | paper.fulltext.methods | gestational age at birth (>37 weeks) |
| SAMN39727965 | subject_id | 1 | R1 | 0.70 | sample.name_rule:sample_id | sample_id: 1_1 |
| SAMN39727965 | timepoint_label | 1 | R1 | 0.70 | sample.name_rule:sample_id | sample_id: 1_1 |
Sequencing
961 runs over 961 samples · mean 1.57 Gbp per run (median 1.50 Gbp, total 1,509.60 Gbp; 961 runs with a base count) · layout PAIRED 961 · platform ILLUMINA 961 · models NextSeq 2000 (961) · 92% of runs with a Sandpiper profile · first public 2024-02-23 – 2024-03-24
Authors (14)
Naspolini NF first · Schüroff PA · Vanzele PAR · Pereira-Santos D · Valim TA · Bonham KS · Fujita A · Passos-Bueno MR · Beltrão-Braga PCB · Carvalho ACPLF · Klepac-Ceraj V · Polanczyk GV · Campos AC · Taddei CR last
Downloads
PRJNA1072081.csv.gz (28.6 KB) · parquet (114.3 KB) — all 961 samples, every field with route and confidence · PRJNA1072081_determinations.csv.gz (44.5 KB) — 4,805 evidence rows