Metagenomic Characterization of Infected Diabetic Foot Ulcers in North Africa

Muhanad Abdullah Abdulsamad's study provides the first shotgun metagenomic characterization of infected diabetic foot ulcers from North Africa. It analyzes two cohorts: 25 non-infected US wounds as an ecological reference and 15 infected Libyan wounds for primary characterization. The dataset includes results from taxonomic classification, resistome and virulome profiling, and metagenome-assembled genome reconstruction.

Use Cases

• Profiling microbial community shifts based on wound depth stratification described in the US reference cohort.
• Identifying opportunistic pathogens and their genomic features based on the four major pathogens identified in the Libyan cohort.
• Analyzing antibiotic resistance gene ecology based on the 80 ARGs detected across depth groups, including mecA and mexAB-oprM.
• Studying virulence and mobile genetic elements based on the high-quality P. aeruginosa MAG carrying 220 virulence factors and 213 mobile genetic elements.

Strengths

• Includes a high-quality, reconstructed Pseudomonas aeruginosa genome with 99.68% completeness and 0.89% contamination.
• Profiles 80 antibiotic resistance genes in clinically non-infected wounds, providing a baseline for resistance ecology.
• Characterizes two distinct cohorts (25 US and 15 Libyan samples) for comparative analysis.

Limitations

• Row count is unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.
• The dataset is very small at 14.7 KB, indicating limited scope, likely containing summary results rather than raw sequencing data.

Provenance

Source

figshare

Collection Method

Shotgun metagenomic sequencing, taxonomic classification, resistome and virulome profiling, and metagenome-assembled genome reconstruction.

Time Range

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Freshness

Last updated 2026-05-20 05:50:41; freshness should be verified.

Geography

North Africa (specifically Libya) and the United States.