Ileostoma probiotic intervention, Groningen
53 samples from adult ileostoma subjects in Groningen, Netherlands, studying effects of probiotic supplementation (Ecologic825) on small intestinal microbiota; intervention study design. machine-written summary
53 samples · 53 runs · NL · Age unknown · 2024 · 0.42 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 366 sample values (collection date, country, intervention, location region, medication, medication detail, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 106 sample values (health condition, health condition detail) · PMC10332219 |
| ○ 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 resolved
6 people have samples in more than one arm.
Probiotic (live microorganisms; single strain or mixture) design single_arm_before_after · population other_disease · Probiotic formula Ecologic825 supplementation to ileostoma microbiota
“supplementation with the probiotic formula led to a reduction” — abstract:37417553 (study level; per-sample arms are in the intervention column below)
longitudinal
6 of 6 people sampled more than once (53 samples; median 9, up to 9 per person) · follow-up median 1 d (max 1 d) · median interval between samples 0 d (time from timepoint labels).
Each row is one person (6 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 51 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 | 53 | 100% | ||||
| country | 53 | 100% | 53 | |||
| health_condition | 53 | 100% | 53 | |||
| subject_id | 53 | 100% | 53 | |||
| collection_date | 53 | 100% | 53 | |||
| detailed_location | 53 | 100% | ||||
| health_condition_detail | 53 | 100% | 53 | |||
| intervention | 53 | 100% | 53 | |||
| location_region | 53 | 100% | 53 | |||
| timepoint_label | 53 | 100% | 53 | |||
| medication | 24 | 45% | 24 | |||
| medication_detail | 24 | 45% | 24 |
- Dynamic effects of probiotic formula ecologic®825 on human small intestinal ileostoma microbiota: a network theory approach. 2023 PMID 37417553 PMC10332219 own_data
Archive description
The gut microbiota plays a pivotal role in health and disease. The use of probiotics as microbiota targeted therapies is a promising strategy to improve host health. However, dynamic molecular mechanisms are often not elucidated, especially when targeting the small intestinal microbiota. Here we show that supplementation of a probiotic formula (Ecologic825) to the small intestinal bacterial community counteracts the growth of Enterococcaceae, Bacteroidetes and Enterobacteriaceae and reduces ethanol production, leading to major changes in primary metabolism and dynamic resistance to perturbations. The observed alterations were the result of an initial decrease in pH due to increased lactate production by the probiotics, followed by a sharp increase in the levels of butyrate and propionate. As a consequence, probiotics supplementation increased the resistance to perturbation and increased nutrient utilization. Overall, this study shows how probiotic supplementation can affect the small intestinal microbiota and how network theory can be used for the improvement of current and development of novel probiotic therapies.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.45. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host run.scientific_name · “human gut metagenome”
- body site study.title · “ileostoma bacterial community”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN32925669 | collection_date | 2022 | R1 | 0.90 | biosample.attribute:collection_date | 2022 |
| SAMN32925669 | country | NL | R1 | 0.90 | sample.attr.geo_loc_name | Netherlands: Groningen, Gr |
| SAMN32925669 | health_condition | healthy_control | R3 | 0.60 | paper.fulltext.results | healthy middle aged-elderly test subjects |
| SAMN32925669 | health_condition_detail | healthy middle aged-elderly test subjects | R3 | 0.60 | paper.fulltext.results | healthy middle aged-elderly test subjects |
| SAMN32925669 | intervention | no_intervention | R1 | 0.85 | biosample.attribute:treatment | treatment: control |
| SAMN32925669 | location_region | Groningen | R1 | 0.85 | biosample.attribute:geo_loc_name | Netherlands: Groningen, Gr |
| SAMN32925680 | medication | probiotic_or_prebiotic | R1 | 0.90 | biosample.attribute:treatment | probiotic |
| SAMN32925680 | medication_detail | probiotic | R1 | 0.90 | biosample.attribute:treatment | probiotic |
| SAMN32925669 | subject_id | Donor1 | R1 | 0.85 | sample.attr.host_subject_id | Donor1 |
| SAMN32925669 | timepoint_label | 0h | R1 | 0.85 | sample.attr.timepoint | 0h |
Sequencing
53 runs over 53 samples · mean 0.50 Gbp per run (median 0.42 Gbp, total 26.45 Gbp; 53 runs with a base count) · layout PAIRED 53 · platform ILLUMINA 53 · models NextSeq 2000 (53) · 96% of runs with a Sandpiper profile · first public 2024-01-19
Authors (9)
Jansma J first · Thome NU · Schwalbe M · Chatziioannou AC · Elsayed SS · van Wezel GP · van den Abbeele P · van Hemert S · El Aidy S last
Downloads
PRJNA928311.csv.gz (2.3 KB) · parquet (72.2 KB) — all 53 samples, every field with route and confidence · PRJNA928311_determinations.csv.gz (3.5 KB) — 472 evidence rows