Co-evolution between codon usage and protein-protein interaction in bacteria

Dilucca, Maddalena; Cimini, Giulio; Forcelloni, Sergio; Giansanti, Andrea

doi:10.1016/j.gene.2021.145475

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Co-evolution between codon usage and protein-protein interaction in bacteria

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Forcelloni, Sergio
Nedialkova, Danny / Mechanisms of Protein Biogenesis, Max Planck Institute of Biochemistry, Max Planck Society;

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Zitation

Dilucca, M., Cimini, G., Forcelloni, S., & Giansanti, A. (2021). Co-evolution between codon usage and protein-protein interaction in bacteria. Gene, 778: 145475. doi:10.1016/j.gene.2021.145475.

Zitierlink: https://hdl.handle.net/21.11116/0000-0008-A76C-3

Zusammenfassung

We study the correlation between the codon usage bias of genetic sequences and the network features of protein protein interaction (PPI) in bacterial species. We use PCA techniques in the space of codon bias indices to show that genes with similar patterns of codon usage have a significantly higher probability that their encoded proteins are functionally connected and interacting. Importantly, this signal emerges when multiple aspects of codon bias are taken into account at the same time. The present study extends our previous observations on E. coli over a wide set of 34 bacteria. These findings could allow for future investigations on the possible effects of codon bias on the topology of the PPI network, with the aim of improving existing bioinformatics methods for predicting protein interactions.