Table 3 Examples of genes that exhibit the top 5% expression levels in the ovaries and top 5% expression levels in the testes (but are not in the top 5% of any other tissue type, Top5One-tissue) in G. bimaculatus that have elevated use of a non-optimal codon with high tRNAs counts (Nonopt-codon↑tRNAs status; elevated use in this table indicates the RSCU in a gene is ≥1.5). The codons include GTG for Val, GGC for Gly, and CTG for Leu (RSCU values ≥1.5). Genes are listed that have an identified putative D. melanogaster (Dmel) ortholog (best match BLASTX e < 10−3 [73] and a known gene name at FlyBase [97]
From: Adaptation of codon and amino acid use for translational functions in highly expressed cricket genes
GB ID | Dmel ID | Gene Name |
|---|---|---|
Ovaries- GTG for Val (RSCU ≥ 1.5) | ||
 GBI_17906-RA | FBgn0039889 | ADP ribosylation factor-like 4 (Arl4) |
 GBI_01735-RA | FBgn0261788 | Ankyrin 2 (Ank2) |
 GBI_16610-RA | FBgn0024227 | aurora B (aurB) |
 GBI_20301-RA | FBgn0000182 | Bicaudal C (BicC) |
 GBI_10942-RA | FBgn0024491 | Bicoid interacting protein 1 (Bin1) |
 GBI_05907-RA | FBgn0000337 | cinnabar (cn) |
 GBI_11302-RA | FBgn0030608 | Lipid storage droplet-2 (Lsd-2) |
 GBI_09650-RA | FBgn0031145 | Nuclear transport factor-2 (Ntf-2) |
 GBI_06633-RB | FBgn0031530 | Polypeptide GalNAc transferase 2 (Pgant2) |
 GBI_13292-RA | FBgn0039214 | puffyeye (puf) |
 GBI_11680-RC | FBgn0004855 | RNA polymerase II 15kD subunit (RpII15) |
 GBI_13051-RB | FBgn0025697 | scavenger receptor acting in neural tissue and majority of rhodopsin is absent (santa-maria) |
 GBI_03901-RD | FBgn0003312 | shadow (sad) |
 GBI_03557-RA | FBgn0037802 | Sirtuin 6 (Sirt6) |
 GBI_00841-RB | FBgn0003714 | technical knockout (tko) |
Testes- GTG for Val (RSCU ≥ 1.5) | ||
 GBI_00920-RA | FBgn0038984 | Adiponectin receptor (AdipoR) |
 GBI_00615-RA | FBgn0263231 | belle (bel) |
 GBI_03558-RA | FBgn0032820 | fructose-1,6-bisphosphatase (fbp) |
 GBI_04579-RA | FBgn0030268 | Kinesin-like protein at 10A (Klp10A) |
 GBI_09377-RA | FBgn0015754 | Lissencephaly-1 (Lis-1) |
 GBI_12141-RA | FBgn0038167 | Lkb1 kinase (Lkb1) |
 GBI_02406-RA | FBgn0263510 | No child left behind (nclb) |
 GBI_09426-RA | FBgn0261588 | pou domain motif 3 (pdm3) |
 GBI_08602-RA | FBgn0036257 | Rho GTPase activating protein at 68F (RhoGAP68F) |
  GBI_05329-RA | FBgn0032723 | short spindle 3 (ssp3) |
Ovaries- GGC for Gly (RSCU ≥ 1.5) | ||
 GBI_17906-RA | FBgn0039889 | ADP ribosylation factor-like 4(Arl4) |
 GBI_06216-RA | FBgn0031392 | Apoptosis inducing factor (AIF) |
 GBI_20301-RA | FBgn0000182 | Bicaudal C (BicC) |
 GBI_11302-RA | FBgn0030608 | Lipid storage droplet-2 (Lsd-2) |
 GBI_05398-RA | FBgn0029687 | VAMP-associated protein of 33 kDa ortholog A(Vap-33A) |
 GBI_09822-RD | FBgn0261458 | capulet (capt) |
 GBI_01828-RA | FBgn0011296 | lethal (2) essential for life (l(2)efl) |
 GBI_10179-RA | FBgn0024841 | pterin-4a-carbinolamine dehydratase (pcd) |
 GBI_13051-RB | FBgn0025697 | santa-maria |
Testes- GGC for Gly (RSCU ≥ 1.5) | ||
 GBI_15155-RA | FBgn0016930 | Dual-specificity tyrosine phosphorylation-regulated kinase 2 (Dyrk2) |
 GBI_09377-RA | FBgn0015754 | Lissencephaly-1(Lis-1) |
 GBI_00388-RA | FBgn0010288 | Ubiquitin carboxy-terminal hydrolase (Uch) |
 GBI_09426-RA | FBgn0261588 | Pou domain motif 3 (pdm3) |
 GBI_05329-RA | FBgn0032723 | short spindle 3 (ssp3) |
Ovaries- CTG for Leu (RSCU ≥ 1.5) | ||
 GBI_17906-RA | FBgn0039889 | ADP ribosylation factor-like 4 (Arl4) |
 GBI_01735-RA | FBgn0261788 | Ankyrin 2 (Ank2) |
 GBI_06216-RA | FBgn0031392 | Apoptosis inducing factor (AIF) |
 GBI_07513-RA | FBgn0005666 | bent (bt) |
 GBI_20301-RA | FBgn0000182 | Bicaudal C (BicC) |
 GBI_05907-RA | FBgn0000337 | cinnabar (cn) |
 GBI_11302-RA | FBgn0030608 | Lipid storage droplet-2 (Lsd-2) |
 GBI_16524-RA | FBgn0027786 | Mitochondrial carrier homolog 1 (Mtch) |
 GBI_09650-RA | FBgn0031145 | Nuclear transport factor-2 (Ntf-2) |
 GBI_05851-RA | FBgn0003074 | Phosphoglucose isomerase (Pgi) |
 GBI_06633-RB | FBgn0031530 | Polypeptide GalNAc transferase 2 (pgant2) |
 GBI_09582-RA | FBgn0036187 | RIO kinase 1 (RIOK1) |
 GBI_13051-RB | FBgn0025697 | santa-maria |
 GBI_03901-RD | FBgn0003312 | shadow (sad) |
Testes- CTG for Leu (RSCU ≥ 1.5) | ||
 GBI_00369-RA | FBgn0003884 | Alpha-Tubulin at 84B (alphaTub84B) |
 GBI_15155-RA | FBgn0016930 | Dyrk2 |
 GBI_03558-RA | FBgn0032820 | fructose-1,6-bisphosphatase (fbp) |
 GBI_10438-RA | FBgn0038923 | mitochondrial ribosomal protein L35 (mRpL35) |
 GBI_09426-RA | FBgn0261588 | Pou domain motif 3 (pdm3) |
 GBI_08602-RA | FBgn0036257 | Rho GTPase activating protein at 68F (RhoGAP68F) |
 GBI_05329-RA | FBgn0032723 | short spindle 3 (ssp3) |
 GBI_00450-RA | FBgn0024289 | Sorbitol dehydrogenase 1 (Sodh-1) |
 GBI_14282-RA | FBgn0029763 | Ubiquitin specific protease 16/45 (Usp16–45) |