In Frontiers in microbiology
Fitness and mutability are the primary traits of living organisms for adaptation and evolution. However, their quantitative linkage remained largely deficient. Whether there is any general relationship between the two features and how genetic and environmental variables influence them remained unclear and were addressed here. The mutation and growth rates of an assortment of Escherichia coli strain collections, including the wild-type strains and the genetically disturbed strains of either reduced genomes or deletion of the genes involved in the DNA replication fidelity, were evaluated in various media. The contribution of media to the mutation and growth rates was differentiated depending on the types of genetic disturbance. Nevertheless, the negative correlation between the mutation and growth rates was observed across the genotypes and was common in all media. It indicated the comprehensive association of the correlated mutation and growth rates with the genetic and medium variation. Multiple linear regression and support vector machine successfully predicted the mutation and growth rates and the categories of genotypes and media, respectively. Taken together, the study provided a quantitative dataset linking the mutation and growth rates, genotype, and medium and presented a simple and successful example of predicting bacterial growth and mutability by data-driven approaches.
Lao Zehui, Matsui Yuichiro, Ijichi Shinya, Ying Bei-Wen
genome reduction, growth rate, machine learning, multiple linear regression, mutation rate, mutator, support vector machine