Phylogenetic Analysis and Species Delineation of Corynebacterium Isolates using Whole-Genome Sequencing

This dataset contains raw sequencing data, genome assemblies and derived analyses associated with the Master’s thesis:

Mundt, C.J.F. (2026). Phylogenetic Analysis and Species Delineation of Corynebacterium Isolates using Whole-Genome Sequencing.

The project implements a genome-based taxonomic framework for species delineation within the genus Corynebacterium using whole-genome sequencing data.

The dataset includes:

• Raw Illumina paired-end reads

• Read-level QC (FastQC)

• De novo genome assemblies

• Assembly quality assessment summaries (QUAST, CheckM2)

• Genome annotations (Prokka)

• Pairwise ANI matrices (FastANI)

• Integrated digital DNA-DNA hybridization (dDDH) results (TYGS)

• ANI-based cluster delineations

• Core-genome SNP alignments and maximum-likelihood phylogenies (Snippy)

• Core-gene phylogenomics (bcgTree)

• Final phylogenetic visualizations

All analyses were performed in a Linux (WSL2) environment.

The computational workflow scripts are maintained in a separate version-controlled GitHub repository and are available upon reasonable request.

The dataset enables reproducibility of the genome-based taxonomic analyses presented in the thesis and may support further comparative genomic studies within Corynebacterium.

These data are associated with the genomic characterization of potentially novel Corynebacterium species.