cgMLSTatTaiwan

cgMLSTatTaiwan profiles Vibrio cholerae strains by generating core genome multilocus sequence typing (cgMLST) profiles from whole-genome sequencing (WGS) data to enable high-resolution strain comparison and global transmission tracking.

Key Features:

• Core Gene Allele Database: An extensive core gene allele database for Vibrio cholerae curated from genomic sequences retrieved from NCBI and constructed using an in-house computational pipeline.
• cgMLST Profile Generation: Generates cgMLST profiles based on 3,017 core genes from WGS data to provide high-resolution strain differentiation.
• Rapid Global Strain Tracking: Compares cgMLST profiles across geographic regions to support global tracking of V. cholerae strains.
• Clustering Analysis: Performs clustering analysis on cgMLST profiles to identify genetic relationships among isolates for outbreak and evolutionary investigations.

Scientific Applications:

• Outbreak Investigation: Facilitates investigation and management of cholera outbreaks through high-resolution cgMLST typing of isolates.
• Strain Transmission Tracking: Monitors the spread of specific V. cholerae strains across countries and regions by comparing cgMLST profiles.
• Research and Public Health: Supports cholera epidemiology research and public health surveillance by providing standardized cgMLST data for comparative analyses.

Methodology:

Integration of genomic data from NCBI into a structured database followed by application of an in‑house developed computational pipeline to generate cgMLST profiles.