Infant gut microbiome and 2'-FL formula supplementation, USA
162 samples from healthy breastfed and formula-fed infants and neonates in the USA, studying effects of formula supplementation with the HMO 2-fucosyllactose on the gut microbiome, in a randomized trial. machine-written summary
162 samples · 162 runs · US · Infant / toddler · 2022 · 6.65 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,085 sample values (collection date, country, feeding mode, intervention, sex, subject id, timepoint) |
| ✓ Abstract / description | 162 sample values (health condition) |
| ✓ Full text | 324 sample values (age, preterm status) · PMC9539000 |
| ○ 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 |
intervention — arms not resolved
Prebiotic / dietary fibre supplement design randomized_controlled_trial · population healthy_control · Infant formula supplemented with 2'-fucosyllactose (2FL), an HMO
“supplementation of infant formula with the Human Milk Oligosaccharide” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal
29 of 133 people sampled more than once (58 samples; median 2, up to 2 per person) · follow-up median 4 mo (max 4 mo) · median interval between samples 4 mo (time from age at collection).
Each row is one person (29 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 152 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 | 162 | 100% | ||||
| country | 162 | 100% | 162 | |||
| health_condition | 162 | 100% | 162 | |||
| subject_id | 162 | 100% | 162 | |||
| age_at_collection_days | 162 | 100% | 162 | |||
| collection_date | 162 | 100% | 162 | |||
| feeding_mode | 162 | 100% | 162 | |||
| preterm_status | 162 | 100% | 162 | |||
| sex | 162 | 100% | 162 | |||
| timepoint_label | 162 | 100% | 162 | |||
| intervention | 113 | 70% | 113 |
- Effects of addition of 2-fucosyllactose to infant formula on growth and specific pathways of utilization by Bifidobacterium in healthy term infants. PMID 36211486 PMC9539000 curated
Archive description
Study characterising the effect of the supplementation of infant formula with the Human Milk Oligosaccharide (HMO) 2-fucosyllactose (2FL) on the gut microbiome. Breastfed and formula fed infants were included. Formula fed infants received either a formula with or without 2FL.
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.description · “(2FL) on the gut microbiome. Breastfed and”
- body site external_curation.infant_catalog · “infant triage verdict include (gut/stool scope)”
- body site study.description · “formula with the Human Milk Oligosaccharide (HMO) 2-fucosyllactose”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.title · “Shotgun metagenomics of infant formula study”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA110418395 | age_at_collection_days | 0 | R3 | 0.40 | paper.fulltext.methods | Fecal samples were obtained at baseline |
| SAMEA110418395 | collection_date | 2017 | R1 | 0.85 | biosample.attribute:collection_date | 2017 |
| SAMEA110418395 | country | US | R1 | 0.90 | biosample_attr | USA |
| SAMEA110418395 | feeding_mode | formula | R1 | 0.85 | biosample_attr | Test Formula |
| SAMEA110418395 | health_condition | healthy_control | R4 | 0.50 | paper.abstract | human milk was fed to healthy term infants |
| SAMEA110418396 | intervention | placebo | R1 | 0.85 | biosample.attribute:host_diet | Control Formula |
| SAMEA110418395 | preterm_status | term | R3 | 0.60 | paper.fulltext.methods | Healthy term (37–42 weeks of gestation) infants |
| SAMEA110418395 | sex | female | R1 | 0.90 | biosample_attr | female |
| SAMEA110418395 | subject_id | 085 | R1 | 0.70 | sample.name_rule:title | C085_v1 |
| SAMEA110418395 | timepoint_label | v1 | R1 | 0.70 | sample.title | C085_v1 |
Sequencing
162 runs over 162 samples · mean 6.80 Gbp per run (median 6.65 Gbp, total 1,102.11 Gbp; 162 runs with a base count) · layout PAIRED 162 · platform ILLUMINA 162 · models unspecified (162) · 94% of runs with a Sandpiper profile · first public 2022-08-03 – 2022-09-02
Authors (3)
Wallingford JC first · Neve Myers P · Barber CM last
Downloads
PRJEB54991.csv.gz (5.8 KB) · parquet (78.1 KB) — all 162 samples, every field with route and confidence · PRJEB54991_determinations.csv.gz (11.2 KB) — 1,571 evidence rows