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Table 1 S. goodei and S. saxicola ortholog pairs that were identified as positive selection

From: Gonadal transcriptomics elucidate patterns of adaptive evolution within marine rockfishes (Sebastes)

Annotation Ka Ks Ka/Ks Length S. goodei Hit ACC S. goodei E-value S. saxicola Hit ACC S. saxicola E-value
12 kda fk506-binding protein 0.058 0.011 5.262 327 P48375 4.55E-36 P48375 2.16E-38
40s ribosomal protein x isoform 0.014 0.004 3.209 594 Q642H9 7.20E-144 N/A N/A
60s ribosomal protein l17 0.232 0.162 1.434 153 P18621 9.36E-62 N/A N/A
60s ribosomal protein l9 0.019 0.011 1.735 300 Q90YW0 2.53E-92 Q90YW0 6.04E-44
atp synthase mitochondrial f1 complex assembly factor 1 flags: precusor 0.032 0.02 1.583 210 Q1L987 2.27E-33 Q1L987 3.14E-81
bone morphogenetic protein 7 flags: precursor 0.011 0.01 1.124 276 P23359 1.60E-30 P23359 4.32E-45
chitobiosyldiphosphodolichol beta-mannosyltransferase 0.021 0.019 1.104 249 Q9BT22 1.46E-52 Q9BT22 5.16E-29
choline transporter-like protein 4 solute carrier family 44 member 0.029 0.021 1.368 372 Q7T2B0 3.20E-60 Q7T2B0 8.71E-80
cytochrome c oxidase subunit mitochondrial flags: precursor 0.01 0.009 1.07 423 P00426 3.68E-55 B0VYX4 5.39E-56
cytochrome p450 26a1 0.117 0.059 1.979 168 P79739 8.97E-18 P79739 9.14E-29
disintegrin and metalloproteinase domain-containing protein 9 flags: precursor 0.095 0.057 1.666 378 Q61072 2.15E-18 Q61072 1.42E-08
dna ligase 3 0.04 0.027 1.48 345 P49916 1.25E-39 N/A N/A
dna mismatch repair protein mlh1 0.018 0.017 1.052 291 P40692 1.03E-79 P40692 3.94E-35
dna primase large subunit 0.126 0.048 2.651 354 O89044 1.47E-57 O89044 8.29E-25
double-strand-break repair protein rad21 homolog 0.13 0.087 1.493 249 O93310 4.30E-13 N/A N/A
eukaryotic translation initiation factor 2 subunit 3 0.098 0.095 1.031 429 Q2KHU8 1.72E-110 Q2KHU8 1.35E-59
f-box only protein 11 0.081 0.067 1.204 288 Q86XK2 1.97E-49 Q86XK2 2.69E-23
f-box only protein 43 endogenous meiotic inhibitor 2 0.031 0.022 1.426 753 Q4G163 1.06E-23 Q8AXF4 2.07E-08
glioma tumor suppressor candidate region gene 2 protein 0.017 0.008 2.081 351 Q9NZM5 8.21E-33 Q9NZM5 6.12E-28
growth factor receptor-bound protein 10 0.113 0.104 1.085 216 Q13322 2.80E-47 N/A N/A
gtpase mitochondrial 0.13 0.125 1.037 297 B5X2B8 2.46E-27 B5X2B8 1.21E-07
guanine nucleotide-binding protein g subunit alpha-2 0.09 0.06 1.491 333 P04897 3.39E-82 P04897 2.16E-43
h-2 class i histocompatibility q10 alpha chain flags: precursor 0.104 0.039 2.681 522 P01898 8.97E-44 P15979 2.66E-32
histidine triad nucleotide-binding protein 3 0.094 0.088 1.069 414 Q28BZ2 1.82E-39 Q28BZ2 7.95E-34
homolog subfamily a member 4 flags: precursor 0.037 0.029 1.289 231 Q8WW22 2.56E-49 Q8WW22 2.16E-25
importin subunit alpha-1 0.114 0.091 1.254 789 P52170 1.64E-93 P52170 2.67E-72
inositol-3-phosphate synthase 1-a 0.053 0.046 1.152 465 Q7ZXY0 3.82E-41 Q7ZXY0 5.38E-37
kelch domain-containing protein 1 0.022 0.011 2.034 318 Q8N7A1 3.47E-34 Q8N7A1 1.02E-18
lag1 longevity assurance homolog 2 0.022 0.014 1.623 258 Q96G23 2.83E-59 Q3ZBF8 6.32E-42
lamina-associated polypeptide isoform beta 0.027 0.015 1.803 432 Q62733 4.90E-10 Q62733 9.94E-09
lipid phosphate phosphohydrolase 3 0.09 0.043 2.096 201 Q3SZE3 3.77E-25 Q3SZE3 1.14E-50
map3k12-binding inhibitory protein 1 0.009 0.008 1.081 450 Q99LQ1 1.89E-38 N/A N/A
mif4g domain-containing protein a 0.036 0.034 1.034 174 B0UXU6 2.02E-28 B0UXU6 3.33E-18
n-acetylneuraminate lyase 0.045 0.038 1.184 477 Q5RDY1 3.28E-54 Q6NYR8 8.41E-72
nad-dependent deacetylase sirtuin-5 flags: precursor 0.029 0.027 1.111 354 Q8K2C6 4.35E-65 Q3ZBQ0 2.41E-32
nuclear pore complex protein nup54 0.075 0.044 1.714 492 P70582 3.74E-33 N/A N/A
p43 5s rna-binding protein 0.056 0.038 1.485 249 P25066 9.42E-14 P25066 4.10E-08
pentatricopeptide repeat-containing protein 2 0.012 0.011 1.073 585 Q566X6 1.63E-44 Q566X6 7.01E-97
peptidyl-prolyl cis-trans isomerase-like 2 0.018 0.008 2.303 471 Q13356 4.11E-74 Q13356 2.29E-71
poly-specific ribonuclease parn 0.019 0.016 1.2 375 O95453 4.25E-71 O95453 1.25E-61
pq-loop repeat-containing protein 2 0.029 0.018 1.605 402 Q8C4N4 2.03E-42 Q8C4N4 4.36E-41
proteasome subunit alpha type-2 0.045 0.013 3.55 423 O73672 8.15E-122 O73672 1.73E-64
protection of telomeres protein 1 0.022 0.007 3.335 528 Q9NUX5 4.88E-20 Q9NUX5 1.89E-19
protein b4 0.027 0.027 1.001 492 P15308 2.41E-12 P15308 1.47E-13
protein cwc15 homolog 0.012 0.01 1.193 516 Q6IQU4 2.95E-27 Q6IQU4 1.63E-18
protein lin-9 homolog 0.031 0.018 1.706 372 Q5RHQ8 1.12E-79 Q5RHQ8 2.81E-36
protein lsm14 homolog b 0.029 0.014 2.063 501 Q566L7 1.29E-46 Q566L7 3.57E-34
protein serac1 0.05 0.035 1.403 411 Q5SNQ7 4.94E-60 Q5SNQ7 1.60E-44
ras-related protein rab-11a flags: precursor 0.106 0.028 3.786 246 Q5ZJN2 1.06E-65 Q5ZJN2 5.37E-25
selenoprotein t1a flags: precursor 0.033 0.016 2.056 288 Q802F2 1.95E-80 Q802F2 1.06E-35
synaptotagmin-like protein 2 exophilin-4 0.064 0.046 1.374 246 Q99N50 5.69E-34 Q99N50 1.06E-19
tfiia-alpha and beta-like factor 0.034 0.023 1.444 339 Q9UNN4 1.80E-32 Q9UNN4 2.87E-23
tho complex subunit 1 0.033 0.027 1.21 291 Q96FV9 2.55E-68 Q96FV9 1.49E-42
torsin-1b 0.09 0.011 8.023 258 O14657 4.26E-38 O14657 7.91E-07
transcription initiation factor tfiid subunit 12 0.013 0.01 1.259 501 Q3T174 3.39E-61 Q3T174 1.90E-29
translin 0.008 0.008 1.068 486 Q62348 2.08E-78 Q62348 9.20E-58
transmembrane protein 106b 0.019 0.011 1.817 360 Q1LWC2 1.23E-18 Q1LWC2 1.28E-25
transmembrane protein 50a 0.053 0.035 1.518 279 O95807 1.58E-65 O95807 3.27E-37
trna guanosine-2 -o-methyltransferase trm11 homolog 0.036 0.021 1.704 285 Q05B63 2.25E-57 Q7TNK6 7.43E-34
tumor necrosis factor ligand superfamily member 10 0.151 0.127 1.186 309 P50591 2.46E-15 P50591 1.43E-08
tumor necrosis factor receptor superfamily member 0.12 0.105 1.14 309 Q92956 2.24E-28 Q92956 6.81E-13
ubiquilin-4 0.042 0.034 1.234 384 Q99NB8 8.99E-31 Q5R684 3.98E-27
ubiquitin fusion degradation protein 1 homolog 0.011 0.01 1.05 378 Q9ES53 2.56E-98 Q9ES53 3.51E-78
ubiquitin-conjugating enzyme e2 n 0.182 0.136 1.342 171 Q9EQX9 8.30E-36 Q9EQX9 3.51E-07
ubiquitin-like modifier-activating enzyme atg7 0.031 0.013 2.269 276 O95352 4.22E-63 Q5ZKY2 6.44E-33
upf0420 protein c16orf58 0.034 0.029 1.188 435 Q96GQ5 3.11E-40 Q499P8 5.73E-29
vacuolar protein sorting-associated protein 16 homolog 0.016 0.012 1.312 477 Q5E9L7 2.96E-110 Q5E9L7 1.89E-91
wd repeat-containing protein 5 0.121 0.08 1.513 288 Q2KIG2 2.23E-27 Q2KIG2 3.23E-45
zinc finger cchc domain-containing protein 4 0.044 0.02 2.155 450 Q66IH9 2.42E-67 Q6DCD7 1.19E-33
zinc finger hit domain-containing protein 3 0.01 0.009 1.194 408 Q9CQK1 4.83E-24 Q15649 8.10E-24
zona pellucida sperm-binding protein 4 flags: precursor 0.048 0.042 1.136 402 Q12836 1.35E-22 Q12836 1.78E-18
  1. Bold face indicates a significant Fisher’s exact test (p-value < 0.05)