Analysis of codon bias of Toxoplasma gondii thioredoxin
Lu Di
Zheng Ruohan
Chen Huiqin
Gao Xinli
Yu Chunlin
Cheng Ziwen
Yang Baoling
Wang Dawei
Abstract：The purpose of this study was to analyze and compare the codon bias of thioredoxin(Trx)codons from Toxoplasma gondii with some acrophyllum and model organisms.Trx base sequences of Toxoplasma gondii,Plasmodium,Neospora caninum,coccidia,mouse,rat,Danio rerio,Drosophilidae and human were obtained.CodonW software,Hemi software and MEGA software were used to compare and analyze the base composition,preference index,relative use of synonymous codon(RSCU),influencing factors and phylogenetic evolutionary tree of Trx codon.The results showed that the contents of G3,C3,and GC3 in the Trx codon base of Toxoplasma gondii were 46.03%,53.7%,and 77.18%,respectively.The contents of GC1 and GC2 were at average level.The codon adaptation index(CAI),codon preference index(CBI),best codon frequency(FOP),effective codon number(ENC)and RSCU are all at high levels,which proves that the Trx codon of Toxoplasma gondii has obvious preference during use.The results of correlation analysis show that natural selection is the main cause of codon preference.It has been shown that codon base composition,CAI,CBI,ENC,RSCU and other factors are the main reasons for the bias of Trx codon production in Toxoplasma gondii.
Keywords：Toxoplasma gondiiThioredoxinCodon preferenceRelative usage of synonymous codonNumber of valid codons
Publication Date：2024-12-15
Online Publishing Date：2025-08-15(First online date of this platform, not the publication date of the document)
Pages：7( 1-7 )