Gut microbiota, BNT162b2 immunogenicity, Hong Kong
242 baseline stool samples from adult BNT162b2 two-dose recipients in Hong Kong, in a cross-sectional study examining gut microbiota associations with longer-term vaccine neutralizing antibody response. machine-written summary
242 samples · 242 runs · HK · Adult · 2023 · 10.09 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 484 sample values (collection date, country) |
| ✓ Abstract / description | 726 sample values (health condition, health condition detail, location site) |
| ✓ Full text | 242 sample values (subject id) · PMC11903479 |
| ○ 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
Vaccination as the study intervention design observational_with_procedure · population healthy_control · BNT162b2 mRNA COVID-19 vaccine, two-dose recipients observed
“BNT162b2 two-dose recipients were prospectively recruited” — bioproject.description (study level; per-sample arms are in the intervention column below)
Genera, mean relative abundance over 217 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 | 242 | 100% | ||||
| country | 242 | 100% | 242 | |||
| health_condition | 242 | 100% | 242 | |||
| subject_id | 242 | 100% | 242 | |||
| collection_date | 242 | 100% | 242 | |||
| detailed_location | 242 | 100% | ||||
| health_condition_detail | 242 | 100% | 242 | |||
| location_site | 242 | 100% | 242 |
- Gut microbiota is associated with persistence of longer-term BNT162b2 vaccine immunogenicity. 2025 PMID 40083550 PMC11903479 own_data
Archive description
This study aimed to investigate association between gut microbiota and long-term immunogenicity of BNT162b2 mRNA COVID-19 Vaccine. BNT162b2 two-dose recipients were prospectively recruited for measurement of serum neutralizing antibody (NAb) level against wild type SARS-CoV-2 virus at baseline and day180 after the first dose. Shotgun DNA metagenomic sequencing was performed to characterize the microbiome for baseline stool samples. Putative associated bacterial species and metabolic pathways were identified for high NAb response.
How this project entered the registry
Classified as human gut / stool / blood / tissue / internal fluids shotgun DNA metagenome of adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- body site study.title · “Gut microbiota is associated”
- body site study.description · “investigate association between gut microbiota and long-term”
- body site study.description · “for measurement of serum neutralizing antibody (NAb)”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN35823611 | collection_date | 2021 | R1 | 0.90 | biosample.attribute:collection_date | 2021 |
| SAMN35823611 | country | HK | R1 | 0.90 | sample.attr.geo_loc_name | Hong Kong |
| SAMN35823611 | health_condition | healthy_control | R4 | 0.50 | paper.abstract | None had COVID-19 at end of study |
| SAMN35823611 | health_condition_detail | Healthy vaccine recipients without COVID-19 infection | R4 | 0.50 | paper.abstract | None had COVID-19 at end of study |
| SAMN35823611 | location_site | vaccination centers | R4 | 0.50 | paper.abstract | three vaccination centers in Hong Kong |
| SAMN35823611 | subject_id | SAMN35823611 | R3 | 0.70 | design.one_sample_per_subject:fulltext | We recruited 242 eligible adults who had received two doses of BNT162b2. |
Sequencing
242 runs over 242 samples · mean 10.23 Gbp per run (median 10.09 Gbp, total 2,476.67 Gbp; 242 runs with a base count) · layout PAIRED 242 · platform ILLUMINA 242 · models Illumina NovaSeq 6000 (242) · 90% of runs with a Sandpiper profile · first public 2023-06-26 – 2023-06-27
Authors (10)
Ng HY first · Liao Y · Cheung CL · Zhang R · Chan KH · Seto WK · Leung WK · Hung IFN · Lam TTY · Cheung KS last
Downloads
PRJNA983517.csv.gz (7.0 KB) · parquet (80.1 KB) — all 242 samples, every field with route and confidence · PRJNA983517_determinations.csv.gz (8.4 KB) — 1,452 evidence rows