Analyses of Codon Usage Bias in the Genomic Codon of Streptomyces lavendulae BP39
Streptomyces lavendulae BP39 is a biocontrol bacterium with broad-spectrum bactericidal properties.In or-der to investigate the bias of genomic codon usage patterns of S.lavendulae BP39,based on 6356 coding sequences,soft ware of CodonW was employed to calculate the GC content,effective codon number ( ENC),and relative frequen-cy of synonymous codons ( RSCU) .The results showed that S.lavendulae BP39 possessed a stronger codon prefer-ence.PR2-plot analysis,ENC-plot curve analysis,and Neutral-plot drawing analysis revealed that the codon usage patterns were determined by multiple factors,such as selection pressure and mutation pressure,led by natural selec-tion pressure.From 64 codons,20 optimal codons were identified,all of which ended with C or G,among them ended with C accounted for 75％.Reciprocity analysis revealed that the base composition affected codon bias,and the base composition of the third position of synonymous codons directly affected the bias of optimal codon usage,and the high gene expression of the optimal codon was closely related to the third position C of the codon.The result of this study provided a theoretical reference for genetic engineering transformation and foreign gene expression of S.lavendulae BP39.
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