Infant gut microbiota in propionic acidemia, Verona, Italy
5 gut microbiome samples from an infant with propionic acidemia in Verona, Italy, collected before and after supplementation with a three-strain bifidobacteria probiotic; case series design. machine-written summary
5 samples · 5 runs · IT · Infant / toddler · 2022 · 0.45 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 38 sample values (age, antibiotic exposure, collection date, country, health condition, health condition detail, intervention, sex) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 10 sample values (location locality, location site) · PMC8703847 |
| ○ 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
Probiotic (live microorganisms; single strain or mixture) design single_arm_before_after · population other_disease · Three-strain bifidobacteria probiotic supplementation after metronidazole antibiotic cycles in infant with propionic acidemia
“supplemented with a daily mixture of three bifidobacterial strains” — abstract:34946200 (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
Schedule stated by the source: “during the first month of life and at the age of 4 months” (time origin: birth).
Genera, mean relative abundance over 4 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 | 5 | 100% | ||||
| country | 5 | 100% | 5 | |||
| health_condition | 5 | 100% | 5 | |||
| subject_id | 0 | 0% | ||||
| age_at_collection_days | 5 | 100% | 5 | |||
| collection_date | 5 | 100% | 5 | |||
| detailed_location | 5 | 100% | ||||
| health_condition_detail | 5 | 100% | 5 | |||
| location_locality | 5 | 100% | 5 | |||
| location_site | 5 | 100% | 5 | |||
| sex | 5 | 100% | 5 | |||
| timepoint_label | 5 | 100% | 5 | |||
| antibiotic_exposure | 2 | 40% | 2 | |||
| intervention | 1 | 20% | 1 |
- Assessing Gut Microbiota in an Infant with Congenital Propionic Acidemia before and after Probiotic Supplementation. PMID 34946200 PMC8703847 curated
Archive description
In the present project we described the results of the investigation on gut microbiota composition of an infant diagnosed with propionic acidemia (a rare metabolic disease) following standard therapy (antibiotic treatment and diet monitoring)</p><p>Microbiota composition was assessed during the first month of life and at the age of 4 months when the infant received supplementation of well-characterized probiotic bifidobacteria (low dosage mixture of 3 three strains).</p><p>Molecular analyses were performed with both metabarcoding and low coverage whole metagenome sequencing.
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 in an”
- body site study.description · “the investigation on gut microbiota composition of”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.title · “microbiota in an infant with propionic acidemia”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN20336866 | age_at_collection_days | 30 | R1 | 0.90 | biosample_attr | 1 month |
| SAMN20336866 | antibiotic_exposure | no | R1 | 0.85 | biosample.attribute:chem_administration | Before 1st antibiotic therapy |
| SAMN20336866 | collection_date | 2020-05-18 | R1 | 0.85 | biosample.attribute:collection_date | 2020-05-18 |
| SAMN20336866 | country | IT | R1 | 0.90 | biosample_attr | Italy: Verona |
| SAMN20336866 | health_condition | other_disease | R1 | 0.90 | sample.attr.host_disease | host_disease=propionic acidemia |
| SAMN20336866 | health_condition_detail | propionic acidemia | R1 | 0.90 | biosample.attribute:host_disease | host_disease: propionic acidemia |
| SAMN20336866 | intervention | no_intervention | R1 | 0.85 | biosample.attribute:chem_administration | Before 1st antibiotic therapy |
| SAMN20336866 | location_locality | Verona | R3 | 0.70 | paper.fulltext.methods | AOUI Verona, Italy |
| SAMN20336866 | location_site | Inherited Metabolic Disease Unit, Pediatric Clinic C, AOUI Verona | R3 | 0.70 | paper.fulltext.methods | Inherited Metabolic Disease Unit, Pediatric Clinic C, Azienda Ospedaliera Universitaria Integrata, AOUI |
| SAMN20336866 | sex | male | R1 | 0.90 | biosample_attr | male |
| SAMN20336866 | timepoint_label | Before 1st antibiotic therapy | R1 | 0.85 | biosample.attribute:chem_administration | Before 1st antibiotic therapy |
Sequencing
5 runs over 5 samples · mean 0.49 Gbp per run (median 0.45 Gbp, total 2.45 Gbp; 5 runs with a base count) · layout PAIRED 5 · platform ILLUMINA 5 · models Illumina MiSeq (5) · 80% of runs with a Sandpiper profile · first public 2022-08-22
Authors (11)
Bordugo A first · Salvetti E · Rodella G · Piazza M · Dianin A · Amoruso A · Piacentini G · Pane M · Torriani S · Vitulo N · Felis GE last
Downloads
PRJNA746509.csv.gz (1.2 KB) · parquet (71.5 KB) — all 5 samples, every field with route and confidence · PRJNA746509_determinations.csv.gz (1.2 KB) — 48 evidence rows