Metagenomic Characterization of Infected Diabetic Foot Ulcers in North Africa

Muhanad Abdullah Abdulsamad's study provides shotgun metagenomic data from diabetic foot ulcers. It includes analysis of 25 non-infected US wounds as a reference and 15 infected Libyan wounds, with profiling of microbial communities, virulence factors, and antibiotic resistance genes. The dataset was last updated on 2026-05-20.

Use Cases

• Profiling microbial community shifts based on wound depth stratification mentioned in the description
• Identifying antibiotic resistance genes (ARGs) like mecA and efflux systems in clinically non-infected wounds
• Characterizing virulence factors and mobile genetic elements in reconstructed metagenome-assembled genomes (MAGs)
• Comparing opportunistic pathogen prevalence (e.g., Pseudomonas aeruginosa ST664) between geographic cohorts

Strengths

• Includes a high-quality, reconstructed Pseudomonas aeruginosa MAG with 99.68% completeness and 0.89% contamination
• Profiles 220 virulence factors and 60 antibiotic resistance genes in a single MAG
• Provides the first genomic evidence of the P. aeruginosa sequence type ST664 in a North African DFU
• Analyzes two distinct cohorts totaling 40 samples for ecological and pathogenic characterization

Limitations

• Dataset is a 1.4 MB PDF; underlying raw sequencing or processed tabular data is not directly available
• Row and column counts are unknown, limiting suitability assessment for direct computational analysis
• Description metadata is limited; actual data quality and structure require manual inspection after download

Provenance

Source

Muhanad Abdullah Abdulsamad via figshare

Collection Method

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

Freshness

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

Geography

North Africa (Libya) and United States