Apr 1, 2020

Co-evolution between codon usage and Protein-Protein Interaction Networks in Bacterial genomes

BioRxiv : the Preprint Server for Biology
Longchao ZhangLixian Wang

Abstract

In this work, we study the correlation between codon usage and the network features of the PPI in bacteria genomes. We want to extend the information by Dilucca et al. (2015) about E.Coli's genome for a set of other 34 bacteria. We use PCA techniques in the space of codon bias indices (compAI, compAI_w, tAI, NC) and GC content to show that genes with similar patterns of codon usage feature have a significantly higher probability that their encoded proteins interact within the PPI. And vice-versa, we show that interacting in the PPI have a coherent codon usage. This work could allow for future investigations into the possible effects that codon bias signal can have on the topology of protein interaction network and, as such, to improve existing bioinformatics methods for predicting protein interactions.

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Mentioned in this Paper

Embryo
Genome-Wide Association Study
Quantitative Trait Loci
Genes
Transforming growth factor beta3
ELOVL1 gene
Menticirrhus americanus
NR6A1 gene
Nucleotides
Chromosomes

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