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methylMapR-an R package to generate the functional prokaryotic methylome
Christopher Morrissey1,2, Arun Sethuraman1
1Department of Biology, San Diego State University, San Diego, California, USA.
Microbiology Resource Announcements
|May 20, 2025
Summary
We developed methylMapR, an R package for analyzing functional methylomes in prokaryotic genomes using long-read sequencing. This tool aids in comparative methylome analyses across bacterial species.
Area of Science:
- Genomics
- Bioinformatics
- Microbiology
Background:
- Functional methylomes are crucial for understanding prokaryotic gene regulation.
- Long-read sequencing offers comprehensive genome coverage for methylome analysis.
- Existing tools may not fully capture functional methylation patterns from long reads.
Purpose of the Study:
- To introduce methylMapR, a novel R package for functional methylome analysis.
- To enable efficient processing of long-read sequencing data for prokaryotic genomes.
- To facilitate comparative studies of bacterial functional methylomes.
Main Methods:
- Development of the methylMapR R package.
- Utilizing PacBio long-read sequencing data.
- Comparative analysis of functional methylomes in *E. coli*, *K. pneumoniae*, and *P. aeruginosa*.
Main Results:
- methylMapR effectively captures functional methylome data from long-read sequencing.
- Comparative analysis reveals distinct methylation patterns across the studied bacterial species.
- The package provides a robust framework for prokaryotic methylome research.
Conclusions:
- methylMapR is a valuable tool for exploring prokaryotic functional methylomes.
- Long-read sequencing combined with methylMapR enhances our understanding of bacterial epigenetics.
- This work facilitates future comparative genomic and epigenomic studies.
