Comprehensive Analysis of Codon Usage in Quercus Chloroplast Genome and Focus on psbA Gene.

ABSTRACT: Quercus (oak) is an important economic and ecological tree species in the world, and it is the necessary feed for oak silkworm feeding. Chloroplasts play an important role in green plants but the codon usage of oak chloroplast genomes is not fully studied. We examined the codon usage of the oak chloroplast genomes in detail to facilitate the understanding of their biology and evolution. We downloaded all the protein coding genes of 26 non-redundant chloroplast reference genomes, removed short ones and those containing internal stop codons, and finally retained 50 genes shared by all genomes for comparative analyses. The base composition, codon bias, and codon preference are not significantly different between genomes but are significantly different among genes within these genomes.

SUBMITTER: Shi SL 

PROVIDER: S-EPMC9690922 | biostudies-literature | 2022 Nov

REPOSITORIES: biostudies-literature