Human resistome in rectal swabs via hybrid capture, Italy
Cross-sectional study of 120 rectal swab samples from Italy, using targeted hybrid capture sequencing (xHYB) versus PCR to profile antimicrobial resistance genes and compare carbapenemase-positive and -negative samples. machine-written summary
120 samples · 120 runs · IT · Age unknown · 2026 · 0.71 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 240 sample values (collection date, country) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC13410987 |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 0 | 0% | ||||
| country | 120 | 100% | 120 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 120 | 100% | 120 |
- From gene detection to resistome ecology: targeted hybrid capture in AMR surveillance. 2026 PMID 42294626 PMC13410987 own_data
Archive description
Human Resistome studied on rectal swabs by using hybrid capture library (QiagenFX + xHYB) and AVITI LT sequencer (Element Biosciences)
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.65. Assay shotgun_dna.
- host study.title · “Human Resistome”
- body site study.description · “studied on rectal swabs”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA122709689 | collection_date | 2025 | R1 | 0.90 | biosample.attribute:collection_date | 2025 |
| SAMEA122709689 | country | IT | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | Italy |
Sequencing
120 runs over 120 samples · mean 0.85 Gbp per run (median 0.71 Gbp, total 101.89 Gbp; 120 runs with a base count) · layout PAIRED 120 · platform ILLUMINA 120 · models Illumina NovaSeq 6000 (120) · 0% of runs with a Sandpiper profile · first public 2026-05-29
Authors (8)
Santarelli G first · Fiori B · Mannavola CM · Rosato R · Cafaro G · Monzo FR · Sanguinetti M · De Maio F last
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, health_condition, subject_id. Share metadata
Downloads
PRJEB113311.csv.gz (3.3 KB) · parquet (73.1 KB) — all 120 samples, every field with route and confidence · PRJEB113311_determinations.csv.gz (1.4 KB) — 240 evidence rows