Strain-resolved gut colonization in a premature infant
A case series of 27 samples examining strain-resolved gut microbial community colonization in a premature infant. machine-written summary
27 samples · 43 runs · Infant / toddler · 2011 · 0.5 Mbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 27 sample values (subject id) |
| ✓ Abstract / description | 108 sample values (gestational age weeks, health condition, health condition detail, preterm status) |
| – Full text | no open-access full text linked · PMC3024690 |
| – 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 |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
1 of 2 people sampled more than once (26 samples; median 26, up to 26 per person). Schedule stated by the source: “Serial fecal samples collected during first 3 weeks of life of a single infant born at 28-wk gestation” (time origin: birth); stated follow-up 21 d.
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 27 | 100% | ||||
| country | 0 | 0% | ||||
| health_condition | 27 | 100% | 27 | |||
| subject_id | 27 | 100% | 27 | |||
| gestational_age_weeks | 27 | 100% | 27 | |||
| health_condition_detail | 27 | 100% | 27 | |||
| preterm_status | 27 | 100% | 27 |
- Strain-resolved community genomic analysis of gut microbial colonization in a premature infant. 2011 PMID 21191099 PMC3024690 own_data
Archive description
This study used metagenomic methods (community genomic analysis and sequencing of amplified 16S rRNA genes) to document microbial colonization of the gut of a premature infant born at 28 weeks gestation.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of infant / toddler and neonate by deterministic_prior with confidence 0.00. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage verdict include”
- body site study.title · “genomic analysis of gut microbial colonization in”
- body site external_curation.infant_catalog · “infant triage verdict include (gut/stool scope)”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.title · “in a premature infant”
- life stage study.title · “colonization in a premature infant”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN00139190 | gestational_age_weeks | 28 | R4 | 0.50 | study.description | premature infant born at 28 weeks gestation |
| SAMN00139190 | health_condition | preterm_nicu | R4 | 0.50 | paper.abstract | within the fecal microbiota of an infant born at 28-wk gestation |
| SAMN00139190 | health_condition_detail | premature infant born at 28-wk gestation | R4 | 0.50 | paper.abstract | within the fecal microbiota of an infant born at 28-wk gestation |
| SAMN00139190 | preterm_status | preterm | R4 | 0.50 | study.title | premature infant |
| SAMN00139190 | subject_id | UC1 | R1 | 0.70 | sample.name_rule:library_names | UC1 |
Sequencing
43 runs over 27 samples · mean 6.6 Mbp per run (median 0.4 Mbp, total 0.29 Gbp; 43 runs with a base count) · layout SINGLE 43 · platform LS454 43 · models 454 GS FLX Titanium (43) · 0% of runs with a Sandpiper profile · first public 2011-01-10
Authors (7)
Morowitz MJ first · Denef VJ · Costello EK · Thomas BC · Poroyko V · Relman DA · Banfield JF last
Downloads
PRJNA61745.csv.gz (1.4 KB) · parquet (69.9 KB) — all 27 samples, every field with route and confidence · PRJNA61745_determinations.csv.gz (1.3 KB) — 135 evidence rows