Inferring Adaptive Codon Preference to Understand Sources of Selection Shaping Codon Usage Bias.

ABSTRACT: Alternative synonymous codons are often used at unequal frequencies. Classically, studies of such codon usage bias (CUB) attempted to separate the impact of neutral from selective forces by assuming that deviations from a predicted neutral equilibrium capture selection. However, GC-biased gene conversion (gBGC) can also cause deviation from a neutral null. Alternatively, selection has been inferred from CUB in highly expressed genes, but the accuracy of this approach has not been extensively tested, and gBGC can interfere with such extrapolations (e.g., if expression and gene conversion rates covary). It is therefore critical to examine deviations from a mutational null in a species with no gBGC. To achieve this goal, we implement such an analysis in the highly AT rich genome of Dictyostel

SUBMITTER: de Oliveira JL 

PROVIDER: S-EPMC8321536 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature