2021/01/08 by Juan M. Escorcia-Rodríguez, Escorcia-Rodríguez, Juan M., Andreas Tauch +3
Biochemistry, Genetics and Molecular Biology · #Bacterial Genetics and Biotechnology #FOS: Biological sciences #Microbial Metabolic Engineering and Bioproduction #Molecular Networks (q-bio.MN) #Viral Infectious Diseases and Gene Expression in Insects
paper · pdf · doi:10.48550/arxiv.2101.02865
openalex publication_date 2021/01/08 · openalex created_date 2022/07/25 · openalex updated_date 2026/07/28
Corynebacterium glutamicum is a Gram-positive bacterium found in soil where\nthe condition changes demand plasticity of the regulatory machinery. The study\nof such machinery at the global scale has been challenged by the lack of data\nintegration. Here, we report three regulatory network models for C. glutamicum:\nstrong (3040 interactions) constructed solely with regulations previously\nsupported by directed experiments; all evidence (4665 interactions) containing\nthe strong network, regulations previously supported by non-directed\nexperiments, and protein-protein interactions with a direct effect on gene\ntranscription; and sRNA (5222 interactions) containing the all evidence network\nand sRNA-mediated regulations. Compared to the previous version (2018), the\nstrong and all evidence networks increased by 75 and 1225 interactions,\nrespectively. We analyzed the system-level components of the three networks to\nidentify how they differ and compared their structures against those for the\nnetworks of more than 40 species. The inclusion of the sRNAs regulations\nchanged the proportions of the system-level components and increased the number\nof modules but decreased their size. The C. glutamicum regulatory structure\ncontrasted with other bacterial regulatory networks. Finally, we used the\nstrong networks of three model organisms to provide insights and future\ndirections of the C. glutamicum regulatory network characterization.\n