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PRJNA1490646 SRP715731

Mother-infant gut/vaginal microbiome, Michigan cohort

Gut Microbiome of Pregnancy and Infancy

Longitudinal cohort study with 319 shotgun metagenomic samples from mother-infant dyads in Michigan, USA, covering pregnancy gut and vaginal sites and infant gut samples during the first year of life. machine-written summary

319 samples · 319 runs · US · Infant / toddler · 2026 · 10.16 Gbp / sample

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Sources

✓Sequence archive 1,222○Abstract / description–Full text–Supplementary tables–External resources–User contribution–Human verified

Checked this project's papers and archive records yourself? Mark it human-verified.

what each source gave

✓ Sequence archive	1,222 sample values (collection date, country, health condition, health condition detail, subject id)
○ Abstract / description	read; no usable statement
– Full text	no open-access full text linked
– Supplementary tables	no supplementary tables available (or none open access)
– 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

Samples at a glance

1 country

Age

unknown319

Condition

pregnancy_postpartum136

Country

US319

Body site

primary183

linked136

Collected 2018–2022

Sequencing depth per sample · this project all projects

Sampling design and relatedness

longitudinalmother–infant — not resolved

41 of 68 people sampled more than once (150 samples; median 3, up to 9 per person) · follow-up median 5 mo (max 12 mo) · median interval between samples 2 mo (time from collection dates). Schedule stated by the source: “Infant gut sampled repeatedly during first year of life; maternal gut/vaginal sampled during pregnancy; exact intervals not stated.” (time origin: birth).

Each row is one person (36 shown of 41); dots are samples at days since that person's first sample.

68 mother-infant dyads; maternal gut/vaginal and infant gut sampled in Michigan, USA..

How longitudinal and relatedness information is derived

Community composition

No Sandpiper profile for this project's samples yet.

Field coverage

field	samples	coverage	R1
age_category	0	0%
country	319	100%	319
health_condition	136	43%	136
subject_id	312	98%	312
collection_date	319	100%	319
health_condition_detail	136	43%	136

Papers (1)

Mother-infant sharing of gut and vaginal microbes at the species and strain level. 2026 PMID 42684889 own_data

Details

Archive description

Shotgun metagenomic sequencing of samples collected from 68 mother-infant dyads: pregnancy gut, pregnancy vaginal and infant gut during the first year of life.

How this project entered the registry

Classified as human gut / stool / vaginal / urogenital 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 · “Gut Microbiome of Pregnancy”
body site study.description · “mother-infant dyads: pregnancy gut , pregnancy vaginal”
body site study.description · “pregnancy gut, pregnancy vaginal and infant gut”
life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
life stage study.title · “of Pregnancy and Infancy”

Evidence examples (one per field × route)

sample	field	value	route	conf.	source	quote
SAMN61434958	collection_date	2021-07-14	R1	0.85	biosample.attribute:collection_date	2021-07-14
SAMN61434958	country	US	R1	0.90	biosample_attr	USA: Michigan
SAMN61435141	health_condition	pregnancy_postpartum	R1	0.85	biosample.attribute:isolation_source	Mother_stool
SAMN61435141	health_condition_detail	Mother_stool	R1	0.85	biosample.attribute:isolation_source	Mother_stool
SAMN61434958	subject_id	dyad17_infant	R1	0.70	sample.name_rule:library_names	17fe1

Sequencing

319 runs over 319 samples · mean 10.41 Gbp per run (median 10.16 Gbp, total 3,319.70 Gbp; 319 runs with a base count) · layout PAIRED 319 · platform ILLUMINA 319 · models Illumina NovaSeq 6000 (319) · 0% of runs with a Sandpiper profile · first public 2026-08-09

Authors (0)

No author record.

Help complete this project

2 of the 4 core fields are below 50% coverage: age_category, health_condition. Share metadata

Downloads

PRJNA1490646.csv.gz (11.0 KB) · parquet (86.2 KB) — all 319 samples, every field with route and confidence · PRJNA1490646_determinations.csv.gz (11.6 KB) — 1,222 evidence rows

Samples (319 · every field this project has values for · hover a cell for its source)

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