Skip to main content
Figure 2 | BMC Genomics

Figure 2

From: Codon usage and codon context bias in Xanthophyllomyces dendrorhous

Figure 2

Codon usage in X. dendrorhous ORFs classified according to their expression level. The ORFs were classified according to the RPKM values, considering the expression levels of these genes in Each Condition (EC grouping), the Highest RPKM Value registered among the four conditions (HV grouping) and the Average RPKM Value for the four conditions (AV grouping). The ribosomal ORFs (R) were grouped independently. The RPKM values ranged from 1–30, 31–70, 71–100, 101–999 and ≥ 1,000. G18 and S18 represent 18 h of culture using glucose or succinate as the sole carbon source, whereas G72 and S72 correspond to 72 h of culture using glucose or succinate as the sole carbon source, respectively. A: Codon usage for each amino acid. The continuous color scale indicates the most common, intermediate and less frequent codons in red, green and black, respectively. B: Codon usage comparison between ORFs under different classification criteria against the ribosomal codon usage. The figure illustrates the RSCU ratios of each codon among the different classification criteria and the ones from the ribosomal ORFs. Ratios between 0.9 and 1.1, indicating similar RSCU values, are represented in blue, whereas ratios outside this range are represented in black.

Back to article page