MAMI cohort mother-infant gut, breastmilk, Valencia
112 fecal and breastmilk metagenome samples from mothers and infants in Valencia, Spain, collected as part of a longitudinal cohort study (MAMI). machine-written summary
146 samples · 146 runs · ES · Infant / toddler · 2025 · 6.81 Gbp / sample · cohort MAMI
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 471 sample values (country, family id, family role, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 80 sample values (preterm status) · PMC12222458, PMC13589485 |
| ✓ Supplementary tables | 766 sample values (antibiotic exposure, bmi, delivery mode, feeding mode, gestational age weeks, health condition, health condition detail, maternal antibiotics) |
| – 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 |
longitudinalmother–infant
8 of 11 people sampled more than once (24 samples; median 3, up to 4 per person) · follow-up median 12 mo (max 12 mo) · median interval between samples 6 mo (time from timepoint labels). Schedule stated by the source: “7 days, 1 month, 6 months, and 12 months of infant age” (time origin: birth); stated follow-up 12 mo.
Each row is one person (8 shown); dots are samples at days since that person's first sample; rows of one family are adjacent and coloured by role (mother, father, child, twin).
20 families with ≥2 sampled people (45 family codes); mother stool/milk + infant stool; 5 TW_ESP families with 2nd child code C (role not stated) · 20 families with 93 sampled people (19 with a parent and a child).
motherchild · circles are people (pale = no sequenced sample), arrows run donor → recipient and parent → child, curved lines join twins, partners and siblings, squares are shared settings or families without recorded roles. Shown: 20 families. 11 people in the project overall.
Families (20)
Genera, mean relative abundance over 77 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 | 114 | 78% | ||||
| country | 146 | 100% | 146 | |||
| health_condition | 27 | 18% | 27 | |||
| subject_id | 34 | 23% | 34 | |||
| family_id | 139 | 95% | 139 | |||
| family_role | 122 | 84% | 122 | |||
| timepoint_label | 120 | 82% | 30 | 90 | ||
| antibiotic_exposure | 105 | 72% | 105 | |||
| sex | 105 | 72% | 105 | |||
| preterm_status | 80 | 55% | 80 | |||
| delivery_mode | 77 | 53% | 77 | |||
| feeding_mode | 77 | 53% | 77 | |||
| gestational_age_weeks | 77 | 53% | 77 | |||
| maternal_antibiotics | 77 | 53% | 77 | |||
| probiotic_exposure | 77 | 53% | 77 | |||
| bmi | 27 | 18% | 27 | |||
| health_condition_detail | 27 | 18% | 27 |
- Maternal secretor status and human milk oligosaccharides influence the infant gut resistome. 2026 PMID 42679805 PMC13589485 cites_accession
- Breastfeeding and early Bifidobacterium-driven microbial colonization shape the infant gut resistome. PMID 40603287 PMC12222458 curated
- Breastfeeding and early Bifidobacterium-driven microbial colonization shape the infant gut resistome. 2025 PMID 40603287 PMC12222458 own_data
Archive description
Metagenomes from mother-infant fecal and breastmilk samples of the MAMI cohort.
How this project entered the registry
Classified as human gut / stool / human milk shotgun DNA metagenome of infant / toddler by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage verdict include”
- body site study.title · “Metagenomes from mother-infant fecal and breastmilk samples”
- body site study.description · “Metagenomes from mother-infant fecal and breastmilk samples”
- body site study.title · “mother-infant fecal and breastmilk samples of the”
- body site study.description · “mother-infant fecal and breastmilk samples of the”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.title · “Metagenomes from mother- infant fecal and breastmilk”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN47606037 | antibiotic_exposure | no | R2 | 0.75 | paper.supp.table | AB_BB=no |
| SAMN47741923 | bmi | 16.00 | R2 | 0.85 | paper.supp.41467_2025_61154_MOESM8_ESM.xlsx[metadata_infants!BMI_BB] | Code TW_ESP_018B08H; BMI_BB 16.003 |
| SAMN47606037 | country | ES | R1 | 0.90 | biosample_attr | Spain:Valencia |
| SAMN47741923 | country | ES | R1 | 0.90 | sample.attr.geo_loc_name | Spain:Valencia |
| SAMN47606037 | delivery_mode | c_section | R2 | 0.75 | paper.supp.table | Delivery=c-section |
| SAMN47606037 | family_id | MAMI_007 | R1 | 0.70 | biosample.attribute:TITLE | MAMI_007B07H |
| SAMN47606037 | family_role | child | R1 | 0.70 | biosample.attribute:TITLE | MAMI_007B07H |
| SAMN47606037 | feeding_mode | exclusive_breast | R2 | 0.75 | paper.supp.table | Diet=breasfteeding |
| SAMN47606037 | gestational_age_weeks | 41.0 | R2 | 0.75 | paper.supp.table | Gestational_age=41 |
| SAMN47741924 | health_condition | healthy_control | R2 | 0.85 | paper.supp.41467_2025_61154_MOESM8_ESM.xlsx[metadata_infants!Disease] | Code TW_ESP_018C03H; Disease no |
| SAMN47741924 | health_condition_detail | no disease reported (healthy full-term infant) | R2 | 0.85 | paper.supp.41467_2025_61154_MOESM8_ESM.xlsx[metadata_infants!Disease] | Code TW_ESP_018C03H; Disease no |
| SAMN47606037 | maternal_antibiotics | yes | R2 | 0.75 | paper.supp.table | AB_delivery=yes |
| SAMN47606037 | preterm_status | term | R3 | 0.80 | paper.fulltext.methods | healthy, full-term mother-infant pairs from the MAMI cohort |
| SAMN47606037 | probiotic_exposure | no | R2 | 0.75 | paper.supp.table | Probiotic=no |
| SAMN47606037 | sex | female | R2 | 0.75 | paper.supp.table | Gender=Female |
| SAMN47606037 | subject_id | 007 | R1 | 0.70 | sample.name_rule:library_names | MAMI_007B07H |
| SAMN47606219 | timepoint_label | 04 | R1 | 0.70 | sample.name_rule:library_names | MAMI_006M04H |
| SAMN47741923 | timepoint_label | 12months | R1 | 0.70 | sample.name_rule:library_name | library_name: TW_ESP_018B08H |
| SAMN47606037 | timepoint_label | 6months | R2 | 0.75 | paper.supp.table | Time=6months |
Sequencing
146 runs over 146 samples · mean 6.17 Gbp per run (median 6.81 Gbp, total 900.98 Gbp; 146 runs with a base count) · layout PAIRED 146 · platform ILLUMINA 146 · models Illumina HiSeq 2500 (146) · 92% of runs with a Sandpiper profile · first public 2025-06-01 – 2025-06-09
Authors (20)
García-Mantrana I first · Alcántara C · Selma-Royo M · Boix-Amorós A · Dzidic M · Gimeno-Alcañiz J · Úbeda-Sansano I · Sorribes-Monrabal I · Escuriet R · Gil-Raga F · Parra-Llorca A · Martínez-Costa C · Collado MC · MAMI team last · Samarra A first · Alcañiz AJ · Marina A · Comas I · Segata N · Quijada NM
Help complete this project
2 of the 4 core fields are below 50% coverage: health_condition, subject_id. Share metadata
Downloads
PRJNA1227883.csv.gz (6.1 KB) · parquet (78.9 KB) — all 146 samples, every field with route and confidence · PRJNA1227883_determinations.csv.gz (13.7 KB) — 1,317 evidence rows