Metagenomic Characterization of Infected Diabetic Foot Ulcers in North Africa

North African diabetic foot ulcers are characterized in this shotgun metagenomic study. It analyzes two cohorts: 25 non-infected US wounds as a reference and 15 infected Libyan wounds as the primary cohort. The dataset includes taxonomic classification, resistome and virulome profiling, and a reconstructed Pseudomonas aeruginosa genome.

Use Cases

• Profiling microbial community shifts based on wound depth stratification described in the US reference cohort
• Identifying antibiotic resistance genes (ARGs) like mecA and the mexAB-oprM efflux system detected in non-infected wounds
• Characterizing major opportunistic pathogens (e.g., Pseudomonas aeruginosa, Staphylococcus aureus) from the Libyan infected cohort
• Analyzing virulence factors and mobile genetic elements based on the reconstructed high-quality P. aeruginosa MAG

Strengths

• Includes a high-quality metagenome-assembled genome (MAG) with 99.68% completeness and 0.89% contamination
• Profiles 220 virulence factors and 60 antibiotic resistance genes from a reconstructed P. aeruginosa genome
• Compares two distinct cohorts: 25 non-infected US DFUs and 15 infected Libyan DFUs

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 small (97.5 KB), indicating limited scope or summary-level data

Provenance

Source

figshare, author Muhanad Abdullah Abdulsamad

Collection Method

Shotgun metagenomic sequencing, taxonomic classification, resistome and virulome profiling, and MAG reconstruction.

Freshness

Last updated 2026-05-20 05:50:43; freshness should be verified

Geography

North Africa (Libya) and United States