Probiotic effects in preterm infants, Norway
Longitudinal cohort study of 220 fecal samples from extremely preterm infants/neonates in Norway, examining how probiotic supplementation reshapes gut microbiota, resistome, and mobilome networks following antibiotic exposure. machine-written summary
220 samples · 220 runs · NO · Infant / toddler · 2023 · 0.75 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 646 sample values (collection date, country, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 323 sample values (location region, preterm status) · PMC10192547, PMC11929092 |
| ✓ Supplementary tables | 1,483 sample values (age, antibiotic exposure, birth weight grams, delivery mode, feeding mode, gestational age weeks, health condition, health condition detail) |
| – 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
Probiotic (live microorganisms; single strain or mixture) design observational_with_procedure · population preterm_nicu · Probiotic supplementation in extremely preterm infants; cohort also had routine antibiotic exposure
“probiotic-supplemented and antibiotic-exposed extremely preterm infants” — abstract:37187112 (study level; per-sample arms are in the intervention column below)
longitudinal
70 of 72 people sampled more than once (218 samples; median 3, up to 4 per person) · follow-up median 4 d (max 12 mo) · median interval between samples 2 d (time from collection dates).
Each row is one person (36 shown of 70); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 52 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 | 220 | 100% | ||||
| country | 220 | 100% | 220 | |||
| health_condition | 104 | 47% | 104 | |||
| subject_id | 220 | 100% | 103 | 117 | ||
| collection_date | 220 | 100% | 220 | |||
| detailed_location | 220 | 100% | ||||
| location_region | 220 | 100% | 220 | |||
| preterm_status | 220 | 100% | 117 | 103 | ||
| timepoint_label | 220 | 100% | 103 | 117 | ||
| age_at_collection_days | 117 | 53% | 117 | |||
| antibiotic_exposure | 117 | 53% | 117 | |||
| birth_weight_grams | 117 | 53% | 117 | |||
| delivery_mode | 117 | 53% | 117 | |||
| feeding_mode | 117 | 53% | 117 | |||
| gestational_age_weeks | 117 | 53% | 117 | |||
| lifestyle | 117 | 53% | 117 | |||
| maternal_antibiotics | 105 | 48% | 105 | |||
| health_condition_detail | 104 | 47% | 104 |
- Development of early life gut resistome and mobilome across gestational ages and microbiota-modifying treatments. PMID 37187112 PMC10192547 curated
- Dynamics of gut resistome and mobilome in early life: a meta-analysis. PMID 40048849 PMC11929092 curated
Archive description
Probiotic supplementation reshapes antibiotic-impaired gut microbiota, resistome, and mobilome networks in extremely preterm infants
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of neonate and infant / toddler by opus_adjudicated with confidence 0.60. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host study.description · “extremely preterm infants”
- body site study.title · “PINGU Fecal samples Metagenome”
- life stage study.description · “extremely preterm infants”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN31618465 | age_at_collection_days | 28 | R2 | 0.75 | paper.supp.table | infant_age=28 |
| SAMN31618465 | antibiotic_exposure | yes | R2 | 0.75 | paper.supp.table | antibiotics_current_use=yes |
| SAMN31618465 | birth_weight_grams | 625 | R2 | 0.75 | paper.supp.table | birth_weight=625 |
| SAMN31618463 | collection_date | 2015-05-01 | R1 | 0.85 | biosample.attribute:collection_date | collection_date: 2015-05-01 |
| SAMN31618463 | country | NO | R1 | 0.90 | biosample_attr | Norway |
| SAMN31618465 | delivery_mode | c_section | R2 | 0.75 | paper.supp.table | born_method=c_section |
| SAMN31618465 | feeding_mode | exclusive_breast | R2 | 0.75 | paper.supp.table | feeding_practice=exclusive breastfeeding |
| SAMN31618465 | gestational_age_weeks | 26.0 | R2 | 0.75 | paper.supp.table | gestational_age=26 |
| SAMN31618465 | health_condition | preterm_nicu | R2 | 0.85 | paper.supp.mmc1.xlsx[Table S2][premature] | sample_id=SRR22213046; premature: yes |
| SAMN31618465 | health_condition_detail | yes | R2 | 0.85 | paper.supp.mmc1.xlsx[Table S2][premature] | sample_id=SRR22213046; premature: yes |
| SAMN31618465 | lifestyle | urban_industrialized | R2 | 0.85 | paper.supp.mmc1.xlsx[Table S2][lifestyle] | sample_id=SRR22213046; lifestyle: industrialized |
| SAMN31618463 | location_region | unstated | R3 | 0.70 | paper.fulltext.methods | six neonatal intensive care units (NICUs) in Norway |
| SAMN31618465 | maternal_antibiotics | no | R2 | 0.75 | paper.supp.table | maternal_abx=no |
| SAMN31618465 | preterm_status | preterm | R2 | 0.75 | paper.supp.table | premature=yes |
| SAMN31618463 | preterm_status | preterm | R3 | 0.50 | paper.fulltext.abstract | extremely preterm infants |
| SAMN31618463 | subject_id | EP-15 | R1 | 0.70 | sample.name_rule:sample_alias | EP-15-1-Day7_R1 |
| SAMN31618465 | subject_id | EP-15 | R2 | 0.75 | paper.supp.table | subject_id=EP-15 |
| SAMN31618463 | timepoint_label | Day7 | R1 | 0.70 | sample.name_rule:sample_alias | EP-15-1-Day7_R1 |
| SAMN31618465 | timepoint_label | 2 | R2 | 0.85 | paper.supp.mmc1.xlsx[Table S2][visit_number] | sample_id=SRR22213046; visit_number: 2 |
Sequencing
220 runs over 220 samples · mean 2.45 Gbp per run (median 0.75 Gbp, total 538.08 Gbp; 220 runs with a base count) · layout PAIRED 220 · platform ILLUMINA 220 · models Illumina MiSeq (220) · 24% of runs with a Sandpiper profile · first public 2023-06-05
Authors (14)
Bargheet A first · Klingenberg C · Esaiassen E · Hjerde E · Cavanagh JP · Bengtsson-Palme J · Pettersen VK last · Noordzij HT · Ponsero AJ · Jian C · Korpela K · Valles-Colomer M · Debelius J · Kurilshikov A
Downloads
PRJNA898628.csv.gz (8.9 KB) · parquet (83.0 KB) — all 220 samples, every field with route and confidence · PRJNA898628_determinations.csv.gz (23.1 KB) — 2,452 evidence rows