  Corynebacterium glutamicum is a Gram-positive bacterium found in soil where
the condition changes demand plasticity of the regulatory machinery. The study
of such machinery at the global scale has been challenged by the lack of data
integration. Here, we report three regulatory network models for C. glutamicum:
strong (3040 interactions) constructed solely with regulations previously
supported by directed experiments; all evidence (4665 interactions) containing
the strong network, regulations previously supported by non-directed
experiments, and protein-protein interactions with a direct effect on gene
transcription; and sRNA (5222 interactions) containing the all evidence network
and sRNA-mediated regulations. Compared to the previous version (2018), the
strong and all evidence networks increased by 75 and 1225 interactions,
respectively. We analyzed the system-level components of the three networks to
identify how they differ and compared their structures against those for the
networks of more than 40 species. The inclusion of the sRNAs regulations
changed the proportions of the system-level components and increased the number
of modules but decreased their size. The C. glutamicum regulatory structure
contrasted with other bacterial regulatory networks. Finally, we used the
strong networks of three model organisms to provide insights and future
directions of the C. glutamicum regulatory network characterization.
