Fecal metagenomics of apple pomace pectin metabolism, Spain
Shotgun metagenomic study of 41 fecal samples from Asturias, Spain, examining cooperative gut microbial metabolism of pectins derived from apple pomace as a prebiotic/fibre intervention. machine-written summary
41 samples · 41 runs · ES · Age unknown · 2023 · 6.89 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 293 sample values (collection date, country, health condition, health condition detail, intervention, location region, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – 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.
Prebiotic / dietary fibre supplement design observational_with_procedure · In vitro fecal fermentation with apple pomace-derived pectins
“cooperative metabolism of pectins derived from apple pomace” — study.title (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
6 of 6 people sampled more than once (41 samples; median 7, up to 7 per person). Schedule stated by the source: “Only a '0h' timepoint_label is given (15% coverage); title indicates in vitro fecal fermentation of apple pomace pectins, so '0h' likely marks fermentation incubation start, not repeated human samplin”.
Genera, mean relative abundance over 34 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 | 0 | 0% | ||||
| country | 41 | 100% | 41 | |||
| health_condition | 41 | 100% | 41 | |||
| subject_id | 41 | 100% | 41 | |||
| collection_date | 41 | 100% | 41 | |||
| detailed_location | 41 | 100% | ||||
| health_condition_detail | 41 | 100% | 41 | |||
| intervention | 41 | 100% | 41 | |||
| location_region | 41 | 100% | 41 | |||
| timepoint_label | 6 | 15% | 6 |
- Fecal microbiota cooperative metabolism of pectins derived from apple pomace: A functional metagenomic study 2023 own_data
Archive description
Shotgun metagenomics sequencing data for the article "Fecal microbiota cooperative metabolism of pectins derived from apple pomace: a functional metagenomic study"
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.85. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host run.scientific_name · “human gut metagenome(41)”
- body site run.scientific_name · “human gut metagenome(41)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN36510064 | collection_date | 2022-03-20 | R1 | 0.90 | biosample.attribute:collection_date | 2022-03-20 |
| SAMN36510064 | country | ES | R1 | 0.90 | sample.attr.geo_loc_name | Spain: Asturias |
| SAMN36510064 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:description | Fecal fermentation Healthy donor 1 - Homogenate - Time: 0h |
| SAMN36510064 | health_condition_detail | Healthy / control (name token 'Healthy') | R1 | 0.70 | sample.name_rule:description | Fecal fermentation Healthy donor 1 - Homogenate - Time: 0h |
| SAMN36510064 | intervention | no_intervention | R1 | 0.70 | sample.name_rule:description | Fecal fermentation Healthy donor 1 - Homogenate - Time: 0h |
| SAMN36510064 | location_region | Asturias | R1 | 0.85 | biosample.attribute:geo_loc_name | Spain: Asturias |
| SAMN36510064 | subject_id | Healthy donor 1 | R1 | 0.70 | sample.name_rule:description | Fecal fermentation Healthy donor 1 - Homogenate - Time: 0h |
| SAMN36510064 | timepoint_label | 0h | R1 | 0.70 | sample.name_rule:description | Fecal fermentation Healthy donor 1 - Homogenate - Time: 0h |
Sequencing
41 runs over 41 samples · mean 6.34 Gbp per run (median 6.89 Gbp, total 259.75 Gbp; 41 runs with a base count) · layout PAIRED 41 · platform ILLUMINA 41 · models Illumina NovaSeq 6000 (41) · 83% of runs with a Sandpiper profile · first public 2023-10-21
Authors (0)
No author record.
Downloads
PRJNA995911.csv.gz (2.0 KB) · parquet (71.3 KB) — all 41 samples, every field with route and confidence · PRJNA995911_determinations.csv.gz (3.0 KB) — 293 evidence rows