Analysis of Codon Bias in Chloroplast Genome of Castanopsis carlesii
Codon bias of chloroplast genome in Castanopsis carlesii was analyzed by CodonW 1.4.2 and online software CUSP,and 50 chloroplast genome genes were screened and divided into 7 classes.The results showed that the average GC content of the third codon in the chloroplast genome of C.carlesii was 29.03％,and 31 codon RSCU values were greater than 1,of which 29 codon ended in A or U,indicating that this species preferred to end in A or U.The ENC range was 38.42 to 56.53,the mean value was 48.05,and the CAI mean value was 0.168,indicating a low codon usage bias.Neutral plot analysis,ENC-plot analysis and PR2-plot bias analysis all showed that selection pressure was the main factor affecting codon preference.Twelve optimal codons were select-ed,nine of which ended in U or A.The phylogenetic tree constructed by CDS sequence and the cluster tree con-structed by RSCU value have some similarities,indicating that codon preference is related to the evolutionary rela-tionship of species.
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万方数据
