Gut microbiome in preterm infants, Auckland (DIAMOND trial)
94 shotgun metagenome samples from moderate-late preterm infants in Auckland, New Zealand, from a randomized trial examining diet, perinatal environment, feeding mode, and socioeconomic factors linked to gut microbiome and growth. machine-written summary
94 samples · 94 runs · NZ · Infant / toddler · 2020 · 6.98 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 376 sample values (collection date, country, sex, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 282 sample values (age, location region, preterm status) · PMC10269646, PMC7958882, PMC9512645 |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 86 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 | 94 | 100% | ||||
| country | 94 | 100% | 94 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| age_at_collection_days | 94 | 100% | 94 | |||
| collection_date | 94 | 100% | 94 | |||
| detailed_location | 94 | 100% | ||||
| location_region | 94 | 100% | 94 | |||
| preterm_status | 94 | 100% | 94 | |||
| sex | 94 | 100% | 94 | |||
| timepoint_label | 94 | 100% | 94 |
- Factors Associated With the Microbiome in Moderate-Late Preterm Babies: A Cohort Study From the DIAMOND Randomized Controlled Trial. PMID 33732655 PMC7958882 curated
- Gut microbe metabolism of small molecules supports human development across the early stages of life. PMID 36177457 PMC9512645 curated
- Exploring Molecular Interactions between Human Milk Hormone Insulin and Bifidobacteria. PMID 37191543 PMC10269646 curated
Archive description
This study focused on identifying associations between early-life dietary nutrition, perinatal medical environments, feeding mode, and socioeconomic factors, and the gut microbiome of MLPT babies. We also investigated if longitudinal changes in gut microbial structure from D10 to 4M were associated with infant growth. Our results aim to provide an insights to optimise the health outcomes for MLPT babies.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of infant / toddler and neonate by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage verdict include”
- body site study.description · “factors, and the gut microbiome of MLPT”
- 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 moderate-late preterm babies - the DIAMOND”
- life stage study.title · “microbiome in moderate-late preterm babies - the”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN15643010 | age_at_collection_days | 157 | R3 | 0.40 | paper.fulltext.results | 4-months corrected age 157 ± 14 |
| SAMN15643010 | collection_date | 2017-09-23 | R1 | 0.85 | biosample.attribute:collection_date | 2017-09-23 |
| SAMN15643010 | country | NZ | R1 | 0.90 | biosample_attr | New Zealand: Auckland |
| SAMN15643010 | location_region | Auckland | R3 | 0.70 | paper.fulltext.methods | four hospitals in Auckland, New Zealand |
| SAMN15643010 | preterm_status | preterm | R3 | 0.80 | paper.fulltext.abstract | moderate–late preterm (MLPT) babies enrolled in a randomized |
| SAMN15643010 | sex | male | R1 | 0.90 | biosample_attr | male |
| SAMN15643010 | timepoint_label | 4 month | R1 | 0.80 | biosample_attr | 4 month |
Sequencing
94 runs over 94 samples · mean 6.97 Gbp per run (median 6.98 Gbp, total 654.79 Gbp; 94 runs with a base count) · layout PAIRED 94 · platform ILLUMINA 94 · models Illumina NovaSeq 6000 (94) · 91% of runs with a Sandpiper profile · first public 2020-07-26
Authors (18)
Chong CYL first · Vatanen T · Alexander T · Bloomfield FH · O'Sullivan JM last · Tarracchini C first · Fontana F · Mancabelli L · Lugli GA · Alessandri G · Turroni F · Ventura M · Milani C last · Rizzo SM first · Viappiani A · Bianchi MG · Bussolati O · van Sinderen D
Help complete this project
2 of the 4 core fields are below 50% coverage: health_condition, subject_id. Share metadata
Downloads
PRJNA648487.csv.gz (3.5 KB) · parquet (74.5 KB) — all 94 samples, every field with route and confidence · PRJNA648487_determinations.csv.gz (4.2 KB) — 658 evidence rows