NTM-DB

NTM-DB curates and integrates genomic, bioinformatic, and analytical resources for cross-species analysis of Non-Tuberculosis Mycobacteria (NTM).

Key Features:

• Genome Collection: NTM-DB contains 16,469 genome assemblies, including 13,134 newly assembled genomes and 189 type/standard strain genomes representing 177 species and 12 subspecies.
• MLST Profiling: NTM-DB provides 705 MLST types for bacterial strain typing and genotyping analysis.
• Resistance Gene Database: NTM-DB includes 33,240 resistance genes for antimicrobial resistance annotation and analysis.
• Virulence Gene Database: NTM-DB contains 74,315 virulence genes for pathogenicity factor identification.
• Online Analysis Tools: NTM-DB supports customized genotyping, cross-species phylogeny, pan-genome analysis, and virulence and drug resistance gene annotation using database data or user-uploaded data.

Scientific Applications:

• NTM Infection Research: NTM-DB supports investigation of the prevalence, severity, and public health impact of non-tuberculous mycobacterial infections, particularly respiratory diseases.
• Cross-Species Genomic Comparison: NTM-DB enables comparative genomic analysis across 177 NTM species and 12 subspecies to identify shared and species-specific genetic features.
• Drug Resistance Prediction: NTM-DB facilitates annotation and study of antimicrobial resistance mechanisms through its curated resistance gene collection.
• Virulence Factor Identification: NTM-DB supports characterization of pathogenicity determinants through virulence gene annotation and analysis.
• Pan-Genome Analysis: NTM-DB enables pan-genome studies to investigate core and accessory genome components across NTM strains.
• Phylogenetic Analysis: NTM-DB supports cross-species phylogeny reconstruction to elucidate evolutionary relationships among NTM species.
• Clinical Diagnosis and Treatment: NTM-DB provides genomic resources to improve diagnosis and treatment strategies for NTM-related diseases.

Methodology:

High-throughput sequencing data were used to generate 13,134 newly assembled genomes; MLST profiling was performed for strain typing; resistance and virulence genes were curated and annotated; online analysis tools implement customized genotyping, cross-species phylogeny, pan-genome analysis, and gene annotation.