Table 1. The ∆RSCU between highly (high) and lowly (low) expressed genes in A. aegypti.
| Amino acid | Codon | RSCU (High) | RSCU (Low) | ∆RSCU | P value | Correspondence analysis |
|---|---|---|---|---|---|---|
| Ala | GCT | 0.9704 | 0.9909 | −0.020 | ||
| Ala | GCC | 1.8235 | 1.2438 | +0.579 | ** | GCC |
| Ala | GCA | 0.6085 | 0.9658 | −0.357 | ** | |
| Ala | GCG | 0.5976 | 0.7994 | −0.201 | ** | |
| Arg | CGT | 1.4934 | 1.0031 | +0.490 | ** | |
| Arg | CGC | 1.6334 | 0.9633 | +0.670 | ** | CGC |
| Arg | CGA | 0.9562 | 1.3965 | −0.440 | ** | |
| Arg | CGG | 0.9879 | 1.1382 | −0.150 | * | |
| Arg | AGA | 0.5099 | 0.8639 | −0.354 | ** | |
| Arg | AGG | 0.3541 | 0.6256 | −0.271 | ** | |
| Asn | AAT | 0.6486 | 0.9013 | −0.252 | ** | |
| Asn | AAC | 1.3266 | 1.0987 | +0.227 | ** | AAC |
| Asp | GAT | 1.0194 | 1.1458 | −0.126 | ** | |
| Asp | GAC | 0.9433 | 0.8542 | +0.089 | ** | GAC |
| Cys | TGT | 0.5477 | 0.9489 | −0.401 | ** | |
| Cys | TGC | 1.1112 | 1.0227 | +0.088 | * | TGC |
| Gln | CAA | 0.6219 | 0.9189 | −0.297 | ** | |
| Gln | CAG | 1.3192 | 1.0811 | +0.238 | ** | CAG |
| Glu | GAA | 1.0727 | 1.1491 | −0.076 | ** | |
| Glu | GAG | 0.9118 | 0.8509 | +0.060 | ** | GAG |
| Gly | GGT | 1.095 | 1.0235 | +0.071 | * | |
| Gly | GGC | 1.1659 | 0.8714 | +0.294 | ** | GGC |
| Gly | GGA | 1.4366 | 1.5836 | −0.147 | ** | |
| Gly | GGG | 0.2838 | 0.5214 | −0.237 | ** | |
| His | CAT | 0.7198 | 0.9272 | −0.207 | ** | |
| His | CAC | 1.1469 | 1.0602 | +0.086 | * | CAC |
| Ile | ATT | 0.9168 | 1.076 | −0.159 | ** | |
| Ile | ATC | 1.8039 | 1.3602 | +0.443 | ** | ATC |
| Ile | ATA | 0.2421 | 0.5638 | −0.321 | ** | |
| Leu | TTA | 0.2848 | 0.4383 | −0.153 | ** | |
| Leu | TTG | 1.1941 | 1.4717 | −0.277 | ** | |
| Leu | CTT | 0.5594 | 0.7806 | −0.221 | ** | |
| Leu | CTC | 0.8132 | 0.7709 | +0.042 | ||
| Leu | CTA | 0.4033 | 0.6167 | −0.213 | ** | |
| Leu | CTG | 2.708 | 1.922 | +0.786 | ** | CTG |
| Lys | AAA | 0.6329 | 0.9424 | −0.309 | ** | |
| Lys | AAG | 1.3515 | 1.0419 | +0.309 | ** | AAG |
| Phe | TTT | 0.4731 | 0.7328 | −0.259 | ** | |
| Phe | TTC | 1.499 | 1.2673 | +0.231 | ** | TTC |
| Pro | CCT | 0.461 | 0.7075 | −0.246 | ** | |
| Pro | CCC | 0.9911 | 0.6824 | +0.308 | ** | CCC or CCG |
| Pro | CCA | 1.0912 | 1.1852 | −0.094 | * | |
| Pro | CCG | 1.4071 | 1.4248 | −0.017 | ||
| Ser | TCT | 0.5852 | 0.6641 | −0.078 | * | |
| Ser | TCC | 1.6615 | 1.0864 | +0.575 | ** | TCC or TCG |
| Ser | TCA | 0.4453 | 0.7651 | −0.319 | ** | |
| Ser | TCG | 1.5813 | 1.3423 | +0.238 | ** | |
| Ser | AGT | 0.6007 | 1.0136 | −0.412 | ** | |
| Ser | AGC | 1.098 | 1.1286 | −0.030 | ||
| Thr | ACT | 0.6453 | 0.8135 | −0.168 | ** | |
| Thr | ACC | 1.8154 | 1.2705 | +0.544 | ** | ACC |
| Thr | ACA | 0.5641 | 0.7742 | −0.210 | ** | |
| Thr | ACG | 0.9379 | 1.1417 | −0.203 | ** | |
| Tyr | TAT | 0.5447 | 0.7627 | −0.217 | ** | |
| Tyr | TAC | 1.3839 | 1.2342 | +0.149 | ** | TAC |
| Val | GTT | 0.995 | 1.08 | −0.085 | * | |
| Val | GTC | 1.2726 | 0.8775 | +0.395 | ** | GTC |
| Val | GTA | 0.4135 | 0.634 | −0.220 | ** | |
| Val | GTG | 1.2939 | 1.4084 | −0.114 | * |
Gene expression was measured using embryos. Putative optimal codons are in bold and underlined. The primary optimal codon per amino acid predicted by correspondence analysis is also shown. A total of 18 primary optimal codons were identified. * P < 0.05, ** P < 0.001 using t-tests. ∆RSCU, change in relative synonymous codon usage (rounded down to the nearest 1/1000); RSCU, relative synonymous codon usage (mean values); note that standard errors ranged between 0.010 and 0.050 and are not shown for presentation purposes.