Genome-wide analysis of DtxR and HrrA regulons reveals novel targets and a high level of interconnectivity between iron and heme regulatory networks in Corynebacterium glutamicum
ARC Citation
Krüger, A., Frunzke, J., & Weber, U. (2025). Genome-wide analysis of DtxR and HrrA regulons reveals novel targets and a high level of interconnectivity between iron and heme regulatory networks in Corynebacterium glutamicum. DataPLANT.
Table of Contents
- Abstract
- Studies
- Assays
- Graphical Overview
- MibiNet
1. Abstract
The trace element iron is essential for life, but elevated levels can rapidly cause cellular damage through oxidative stress. Bacteria, like Corynebacterium glutamicum, tightly regulate iron and heme homeostasis via the global regulators DtxR and HrrA. This study provides the first analysis of the genome-wide binding patterns of these two regulators demonstrating significant differences in binding dependent on the tested iron regimes.
Overall, we identified 25 new DtxR targets and 210 previously unknown HrrA targets, including genes with crucial roles in central metabolism and DNA repair. Notably, DtxR was shown to link iron metabolism to methionine synthesis, which might be important to protect the cell from oxidative stress. Our findings highlight the interconnected nature of DtxR and HrrA networks and underscore the value of condition-specific analysis to deepen the understanding of how bacteria adapt to environmental changes.
2. Studies
This ARC contains three different studies, each detailing specific aspects of sample preparation.
1_TagIntegration: Information on plasmid generation sequences used for tag integration.
2_ChAP-Seq: Details on cultivation and pucification conditions for chAP-Seq samples.
3_ReporterStrainGeneration: Cloning procedure and strain generation for reporter strains.
4_InVitroBindingOfDtxR: DNA preparation and protein purification for Electron Mobility Shift Assay.
Detailed metadata description can be found in the corresponding isa.study files.
3. Assays
The Assays folder contains results from individual experiments. Raw and processed data are stored in the dataset folder of each assay, while the corresponding protocols are in the protocol folder.
1-1_GrowthMonitoring-taggedVariants: Growth monitoring data collected via BioLector.
1-2_qPCR-taggedVariants: qPCR experiment data and protocols.
2-1_Sequencing and Analysis: Sequencing data.
2-2_ChAP-analysis: Data analysis results form sequences generated in Assay 2-1 .
3_ReporterAssays: BioLector data of the reporter strains.
4_ElectronMobilityShiftAssays_DtxR: Gel pictures of assay.
Detailed metadata description can be found in the corresponding isa.assay files.
4. Graphical overview
An overview about all processes are displayed in this graph:
5. SFB 1535 MibiNet- Microbial networking – from organelles to cross-kingdom communities
This ARC is part of the MibiNet project B01