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Updated: Mar 21, 2026

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

StreptoBase: An Oral Streptococcus mitis Group Genomic Resource and Analysis Platform.

Wenning Zheng^1,2, Tze King Tan^1,2, Ian C Paterson^2,3

¹Genome Informatics Research Laboratory, High Impact Research Building (HIR) Building, University of Malaya, 50603 Kuala Lumpur, Malaysia.

|May 4, 2016

Summary

StreptoBase is a new genomic resource for oral streptococci, offering 104 genomes and bioinformatics tools. This platform accelerates research on Streptococcus mitis group bacteria, crucial for understanding infections like endocarditis.

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Identification of Rare Bacterial Pathogens by 16S rRNA Gene Sequencing and MALDI-TOF MS

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Published on: July 11, 2016

Area of Science:

Microbiology
Genomics
Bioinformatics

Background:

Oral streptococci, particularly the Streptococcus mitis group, are significant pathogens causing infective endocarditis and septicaemia.
The Streptococcus mitis group includes well-known colonizers and recently classified species requiring further study.
Genomic data and analysis tools are essential for understanding the characteristics and virulence of these bacteria.

Purpose of the Study:

To present StreptoBase, a specialized, free online resource for genomic analysis of oral Streptococcus mitis group species.
To provide a comprehensive collection of S. mitis group genomes for comparative analyses.
To offer advanced bioinformatics tools for pathogenomics analysis of Streptococcus strains.

Main Methods:

Sequencing of 27 novel Streptococcus mitis group strains using Illumina HiSeq technology.
Hosting of 104 S. mitis group genomes within the StreptoBase resource.
Development and integration of bioinformatics web tools, including Pairwise Genome Comparison (PGC) and Pathogenomic Profiling Tool (PathoProT).

Main Results:

StreptoBase provides access to 104 S. mitis group genomes, including 27 newly sequenced strains.
The platform incorporates sophisticated tools for comparative genomics and pathogenomics, enabling cross-species and cross-strain analyses.
Demonstrated utility of StreptoBase in comparing genome structures and virulence gene profiles across different Streptococcus strains.

Conclusions:

StreptoBase serves as an invaluable, accessible platform for streptococci research.
The resource accelerates research by providing genomic data and advanced analysis tools for the Streptococcus mitis group.
Facilitates deeper understanding of oral streptococci, their evolution, and their role in human health and disease.