Gut microbiota of Chinese infant twins, longitudinal
19 samples from heal machine-written summary
19 samples · 26 runs · CN · Infant / toddler · 2016 · 1.37 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 76 sample values (collection date, country, health condition, health condition detail) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC10092070, PMC10175488, PMC10269646, PMC10769871, PMC11019788, PMC11494892, PMC12769767, PMC8518733, PMC9512645, PMC9622858 |
| ✓ Supplementary tables | 53 sample values (age, sex, subject id) |
| – 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 |
twins — not resolved
10 pairs of Chinese infant twins (5 monozygotic, 5 dizygotic); 19-20 samples total..
Genera, mean relative abundance over 16 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 | 15 | 79% | ||||
| country | 19 | 100% | 19 | |||
| health_condition | 19 | 100% | 19 | |||
| subject_id | 19 | 100% | 19 | |||
| collection_date | 19 | 100% | 19 | |||
| health_condition_detail | 19 | 100% | 19 | |||
| sex | 19 | 100% | 19 | |||
| age_at_collection_days | 15 | 79% | 15 |
- Investigating the infant gut microbiota in developing countries: worldwide metagenomic meta-analysis involving infants living in sub-urban areas of Côte d'Ivoire. PMID 34152069 PMC8518733 curated
- Designation of optimal reference strains representing the infant gut bifidobacterial species through a comprehensive multi-omics approach. PMID 36123315 PMC10092070 curated
- Gut microbe metabolism of small molecules supports human development across the early stages of life. PMID 36177457 PMC9512645 curated
- Exploring species-level infant gut bacterial biodiversity by meta-analysis and formulation of an optimized cultivation medium. PMID 36316342 PMC9622858 curated
- Comprehensive insights from composition to functional microbe-based biodiversity of the infant human gut microbiota. PMID 37169786 PMC10175488 curated
5 more
- Exploring Molecular Interactions between Human Milk Hormone Insulin and Bifidobacteria. PMID 37191543 PMC10269646
- BilR is a gut microbial enzyme that reduces bilirubin to urobilinogen. PMID 38172624 PMC10769871
- Taxonomic and metabolic development of the human gut microbiome across life stages: a worldwide metagenomic investigation. PMID 38441032 PMC11019788
- Exploring the vitamin biosynthesis landscape of the human gut microbiota. PMID 39287373 PMC11494892
- Compiling an early life human gut microbiome atlas and identification of key microbial drivers. PMID 41350579 PMC12769767
Archive description
Early colonization of intestinal microflora in the human gut is a complex process. It remains unclear when intestinal microflora colonization occurs and how it proceeds. we recruited 10 healthy pairs of twins, including five monozygotic(MZ) and five dizygotic(DZ) twin pairs,who ranged in age from 0 to 6 years old.We performed shotgun metagenomic sequencing on 20 samples and generated averaged data output of 2G per sample.
How this project entered the registry
Classified as human gut / stool 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 microbiota of 10”
- body site study.description · “Early colonization of intestinal microflora in the”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.title · “pairs of Chinese infant twins”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA4031699 | age_at_collection_days | 150 | R2 | 0.75 | paper.supp.table | Age (days)=150 |
| SAMEA4031699 | collection_date | 2015 | R1 | 0.85 | biosample.attribute:collection_date | 2015 |
| SAMEA4031699 | country | CN | R1 | 0.90 | biosample_attr | China |
| SAMEA4031699 | health_condition | healthy_control | R1 | 0.85 | biosample.attribute:environment_feature | normal infant |
| SAMEA4031699 | health_condition_detail | normal infant | R1 | 0.85 | biosample.attribute:environment_feature | normal infant |
| SAMEA4031699 | sex | female | R2 | 0.75 | paper.supp.table | Sex=female |
| SAMEA4031699 | subject_id | ERR1449723 | R2 | 0.75 | paper.supp.table | BioSample=ERR1449723 |
Sequencing
26 runs over 19 samples · mean 1.34 Gbp per run (median 1.07 Gbp, total 34.76 Gbp; 26 runs with a base count) · layout PAIRED 26 · platform ILLUMINA 26 · models Illumina HiSeq 4000 (26) · 62% of runs with a Sandpiper profile · first public 2016-06-12
Authors (58)
Zhou S first · Xu R · He F · Zhou J · Wang Y · Wang M · Zhou W last · Fontana F first · Mancabelli L · Lugli GA · Taracchini C · Alessandri G · Longhi G · Anzalone R · Viappiani A · Famo R · Brognan M · Micondo KH · Turroni F · Ventura M · D'Alfonso R · Milani C last · Tarracchini C · Bianchi MG · Rizzo SM · Argentini C · Vergna LM · Taurino G · Chiu M · Bussolati O · van Sinderen D · Hall B first · Levy S · Dufault-Thompson K · Arp G · Zhong A · Ndjite GM · Weiss A · Braccia D · Jenkins C · Grant MR · Abeysinghe S · Yang Y · Jermain MD · Wu CH · Ma B · Jiang X last · De Biase R · Bocchio F · De Conto F · Nouvenne A · Ticinesi A · Meschi T · Cecchi R · Gennaioli E · Muscò A · Vitale SG · Angioni S
Downloads
PRJEB12669.csv.gz (1.5 KB) · parquet (70.6 KB) — all 19 samples, every field with route and confidence · PRJEB12669_determinations.csv.gz (1.7 KB) — 129 evidence rows