Synbiotic intervention in healthy adults, Copenhagen
30 fecal samples from 15 healthy adult volunteers in Copenhagen, Denmark, studying gut microbiome changes after a 4-week synbiotic (Lactobacilli, Bifidobacteria, inulin) intervention; single-group design with baseline and post-intervention sampling. machine-written summary
30 samples · 30 runs · DK · Adult · 2022 · 3.07 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 262 sample values (age, collection date, country, latitude, location locality, location region, longitude, subject id) |
| ✓ Abstract / description | 60 sample values (health condition, health condition detail) |
| – Full text | no open-access full text linked · PMC9552601 |
| ○ 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
Synbiotic (probiotic + prebiotic) design single_arm_before_after · population healthy_control · Lactobacilli/Bifidobacteria probiotics plus inulin, daily for 4 weeks
“single-group-design trial, we analyzed changes in the gut microbiome” — abstract:36165644 (study level; per-sample arms are in the intervention column below)
longitudinal
14 of 14 people sampled more than once (28 samples; median 2, up to 2 per person) · follow-up median 28 d (max 31 d) · median interval between samples 28 d (time from collection dates). Schedule stated by the source: “stool at baseline and completion of 4-week synbiotic intervention”; stated follow-up 28 d.
Each row is one person (14 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 25 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 | 30 | 100% | ||||
| country | 30 | 100% | 30 | |||
| health_condition | 30 | 100% | 30 | |||
| subject_id | 28 | 93% | 28 | |||
| detailed_location | 30 | 100% | ||||
| health_condition_detail | 30 | 100% | 30 | |||
| latitude | 30 | 100% | 30 | |||
| location_locality | 30 | 100% | 30 | |||
| location_region | 30 | 100% | 30 | |||
| longitude | 30 | 100% | 30 | |||
| age_at_collection_days | 28 | 93% | 28 | |||
| collection_date | 28 | 93% | 28 | |||
| timepoint_label | 28 | 93% | 28 |
- Synbiotic Intervention with Lactobacilli, Bifidobacteria, and Inulin in Healthy Volunteers Increases the Abundance of Bifidobacteria but Does Not Alter Microbial Diversity. 2022 PMID 36165644 PMC9552601 own_data
Archive description
Shotgun metagenomic sequencing data from a single-group design trial analyzing changes in the gut microbiome, stool quality, and gastrointestinal well-being in 15 healthy volunteers after a synbiotic intervention comprising Lactobacillus rhamnosus, LGG, Lactobacillus acidophilus, LA-5, Lactobacillus paracasei subsp. paracasei, L. CASEI 431, Bifidobacterium animalis subsp. lactis, BB-12 and 15 g of inulin consumed daily for four weeks. Fecal samples were collected at baseline and completion of intervention. The data is depleted of human sequencing reads.
How this project entered the registry
Classified as human gut / stool 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.description · “changes in the gut microbiome, stool quality,”
- body site external_curation.infant_catalog · “body_site_call gut”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage study.title · “inulin in healthy volunteers”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN21193332 | age_at_collection_days | 12043.2 | R1 | 0.85 | sample.attr.host_age | 33 |
| SAMN21193332 | collection_date | 2019-03-12 | R1 | 0.90 | biosample.attribute:collection_date | 2019-03-12 |
| SAMN21193332 | country | DK | R1 | 0.90 | sample.attr.geo_loc_name | Denmark: Copenhagen |
| SAMN21193332 | health_condition | healthy_control | R4 | 0.50 | study.description | 15 healthy volunteers |
| SAMN21193332 | health_condition_detail | All participants were healthy volunteers with no disease mentioned. | R4 | 0.50 | study.description | 15 healthy volunteers |
| SAMN21193332 | latitude | 55.6700 | R1 | 0.90 | biosample.attribute:lat_lon | 55.67 N 12.57 E |
| SAMN21193332 | location_locality | Copenhagen | R1 | 0.85 | biosample.attribute:geo_loc_name | Denmark: Copenhagen |
| SAMN21193332 | location_region | Capital Region | R1 | 0.60 | biosample.attribute:lat_lon | 55.67 N 12.57 E |
| SAMN21193332 | longitude | 12.5700 | R1 | 0.90 | biosample.attribute:lat_lon | 55.67 N 12.57 E |
| SAMN21193332 | subject_id | 1 | R1 | 0.70 | sample.name_rule:title | Subject 1 baseline sample |
| SAMN21193332 | timepoint_label | baseline | R1 | 0.70 | sample.name_rule:title | Subject 1 baseline sample |
Sequencing
30 runs over 30 samples · mean 3.17 Gbp per run (median 3.07 Gbp, total 94.97 Gbp; 30 runs with a base count) · layout PAIRED 30 · platform ILLUMINA 30 · models NextSeq 500 (30) · 87% of runs with a Sandpiper profile · first public 2022-09-21
Authors (9)
Rubin IMC first · Mollerup S · Broholm C · Baker A · Holm MKA · Pedersen MS · Pinholt M · Westh H · Petersen AM last
Downloads
PRJNA759733.csv.gz (1.9 KB) · parquet (72.2 KB) — all 30 samples, every field with route and confidence · PRJNA759733_determinations.csv.gz (3.6 KB) — 322 evidence rows