Human and mouse lemur fecal metagenomes, Madagascar
Cross-sectional study of 57 fecal metagenome samples from sympatric humans and wild gray mouse lemurs near Ranomafana National Park, Madagascar, comparing gut microbiome bacterial species and antibiotic resistance genes. machine-written summary
57 samples · 68 runs · MG · Age unknown · 2023 · 2.20 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 171 sample values (collection date, country, location site) |
| ✓ Abstract / description | 114 sample values (health condition detail, lifestyle detail) |
| ✓ Full text | 57 sample values (location region) · PMC11296303 |
| ✓ Supplementary tables | 57 sample values (subject id) |
| – 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 |
households — not resolved
Humans sampled by household in 8 communities near Ranomafana NP (plus lemurs); household ids not published.
Genera, mean relative abundance over 64 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 | 57 | 100% | 57 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 57 | 100% | 57 | |||
| collection_date | 57 | 100% | 57 | |||
| detailed_location | 57 | 100% | ||||
| health_condition_detail | 57 | 100% | 57 | |||
| lifestyle_detail | 57 | 100% | 57 | |||
| location_region | 57 | 100% | 57 | |||
| location_site | 57 | 100% | 57 |
- Metagenome-wide characterization of shared antimicrobial resistance genes in sympatric people and lemurs in rural Madagascar. 2024 PMID 39099658 PMC11296303 own_data
Archive description
Collection of human and wild gray mouse lemur fecal metagenomes collected in 2017
How this project entered the registry
Classified as human and non-human (mixed) gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.68. Assay shotgun_dna.
- host study.title · “Fecal metagenomes from humans and mouse lemurs”
- host study.description · “Collection of human and wild gray mouse lemur fecal metagenomes”
- body site run.scientific_name · “gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN37113226 | collection_date | 2017-06-09 | R1 | 0.90 | biosample.attribute:collection_date | 2017-06-09 |
| SAMN37113226 | country | MG | R1 | 0.90 | sample.attr.geo_loc_name | Madagascar: Ranomafana National Park |
| SAMN37113226 | health_condition_detail | mixed_case_control: Study compares two distinct host species (humans and lemurs); no health status specified for either | R4 | 0.50 | paper.abstract | humans and wild mouse lemurs |
| SAMN37113226 | lifestyle_detail | rural Madagascar, forest-dominated roadless region near Ranomafana National Park | R4 | 0.50 | paper.abstract | rural Madagascar |
| SAMN37113226 | location_region | Ifanadiana District | R3 | 0.70 | paper.fulltext.methods | One Health research platform in Ifanadiana District, Madagascar |
| SAMN37113226 | location_site | Ranomafana National Park | R1 | 0.85 | biosample.attribute:geo_loc_name | Madagascar: Ranomafana National Park |
| SAMN37113226 | subject_id | HUM0038 | R2 | 0.85 | paper.supp.peerj-12-17805-s001.csv[!Study ID] | HUM0038 |
Sequencing
68 runs over 57 samples · mean 2.26 Gbp per run (median 2.20 Gbp, total 153.49 Gbp; 68 runs with a base count) · layout PAIRED 68 · platform ILLUMINA 68 · models NextSeq 2000 (68) · 94% of runs with a Sandpiper profile · first public 2023-11-28 – 2024-02-25
Authors (9)
Talbot BM first · Clennon JA · Rakotoarison MFN · Rautman L · Durry S · Ragazzo LJ · Wright PC · Gillespie TR · Read TD last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, health_condition. Share metadata
Downloads
PRJNA1008138.csv.gz (2.7 KB) · parquet (73.0 KB) — all 57 samples, every field with route and confidence · PRJNA1008138_determinations.csv.gz (3.6 KB) — 399 evidence rows