Gene Name / Gene Number / Fold change* / p-value**
Large XX offspring
transcription elongation factor 1 homolog / A_05_P420137 / 1.458 / 1.55E-02
mannose-6-phosphate isomerase / A_05_P377622 / 1.658 / 1.71E-02
phosphatidylinositol 3-kinase regulatory subunit alpha-like / A_05_P336747 / 1.517 / 7.61E-02
Transketolase / A_05_P414317 / 1.443 / 2.06E-02
small ubiquitin-related modifier 3 precursor / A_05_P418747 / 1.244 / 4.85E-02
phosphoglucose isomerise / A_05_P384047 / 1.672 / 2.11E-02
vacuolar protein sorting 52 / A_05_P292107 / 1.661 / 5.11E-03
adpatptranslocase 2 / A_05_P276614 / 3.817 / 2.10E-03
retinol binding protein cellular / A_05_P486737 / 2.183 / 2.41E-02
pyruvate kinase / A_05_P253514 / 2.160 / 2.00E-03
pyruvate kinase / A_05_P390772 / 1.912 / 2.87E-03
fructose- -bisphosphataseisozyme 2 / A_05_P276579 / 1.779 / 2.01E-02
probable c- / A_05_P368612 / 1.686 / 5.44E-03
utp--glucose-1-phosphate uridylyltransferase / A_05_P273479 / 1.458 / 1.55E-02
member ras oncogene family / A_05_P443382 / 1.385 / 3.58-E02
adenylosuccinate synthase like 1 / A_05_P265444 / 1.285 / 3.39E-02
beta-enolase-like isoform 1 / A_05_P482637 / 2.037 / 9.50E-03
lactate dehydrogenase-a / A_05_P469692 / 1.916 / 2.88E-03
glycogen liver form / A_05_P364782 / 1.898 / 6.85E-03
phosphoglycerate kinase 1 / A_05_P414452 / 1.718 / 1.60E-02
Thioredoxin / A_05_P465152 / 1.669 / 2.65E-02
enolase 3-2 / A_05_P473402 / 1.605 / 2.04E-02
glycogen muscle form / A_05_P376422 / 1.529 / 3.12E-02
Calmodulin / A_05_P365267 / 1.504 / 3.25E-02
enolase 3-2 / A_05_P433992 / 1.475 / 1.21E-02
phosphoglycerate kinase 1 / A_05_P410402 / 1.289 / 4.08E-02
Small XX offspring
atpase mitochondrial precursor / A_05_P253269 / 1.207 / 2.12E-02
gtp-binding protein rit1 / A_05_P480222 / 1.219 / 2.89-02
tubulin beta-2a chain / A_05_P462727 / 1.274 / 3.74E-02
nucleoside diphosphate kinase a / A_05_P364787 / 1.253 / 3.63E-02
pre-mRNA-splicing factor 18 / A_05_P425282 / 1.205 / 4.13E-02
cyclin b1 / A_05_P317227 / 1.214 / 2.27E-02
ubiquitin carboxyl-terminal hydrolase cyld-like / A_05_P318952 / 1.245 / 2.29E-02
eukaryotic translation initiation factor 1b / A_05_P365642 / 1.236 / 3.58E-02
ribosomal protein l3-like / A_05_P276644 / 1.234 / 4.29E-02
insulin-like growth factor i receptor / A_05_P249834 / 1.261 / 4.50E-02
calcium calmodulin-dependent protein kinase iv / A_05_P455732 / 1.207 / 1.90E-02
inhibitor of nuclear factor kappa-b kinase subunit beta / A_05_P305697 / 1.211 / 2.08E-02
palmitoyl-protein thioesterase 1 precursor / A_05_P454832 / 1.204 / 3.28E-02
6-phosphofructo-2-kinase fructose- -biphosphatase 4 / A_05_P303182 / 1.236 / 2.04E-02
DNAj homolog subfamily a member 2 / A_05_P477482 / 1.224 / 3.76E-02
cold shock domain-containing protein e1 / A_05_P277802 / 1.211 / 2.08E-02
transcription factor e2f4 / A_05_P360582 / 1.216 / 4.43E-02
transcription factor 15-like / A_05_P334712 / 1.225 / 3.20E-02
activated RNA polymerase ii transcriptional coactivator p15 / A_05_P384577 / 1.227 / 3.25E-02
histone deacetylase 1 / A_05_P266519 / 1.236 / 4.77E-02
activated RNA polymerase ii transcriptional coactivator p15 / A_05_P256854 / 1.260 / 6.77E-03
paired box protein pax-1 / A_05_P358502 / 1.269 / 2.34E-02
sumo-activating enzyme subunit 2 / A_05_P407572 / 1.237 / 4.82E-02
phenylalanyl-tRNAsynthetase alpha chain / A_05_P368367 / 1.241 / 4.83E-02
cleavage stimulation factor subunit 3 / A_05_P291172 / 1.248 / 3.93E-02
RNA-binding protein 39 / A_05_P423972 / 1.261 / 3.27E-02
nop2 sun domain member 5 / A_05_P440947 / 1.207 / 2.56E-02
short-chain dehydrogenase reductase sdr / A_05_P348717 / 1.242 / 3.28E-02
guanidinoacetate n-methyltransferase / A_05_P326907 / 1.271 / 4.40E-02
probable glutamyl-tRNA mitochondrial-like / A_05_P308582 / 1.200 / 2.14E-02
inositol-trisphosphate 3-kinase a / A_05_P347047 / 1.272 / 2.82E-02
*Fold change is the average difference in expression as measured by the microarray
** Measures the significance of the difference in expression between the small and large fish
Supplementary Table 20B: Genes up-regulated in white muscle in the small XX/XY offspring within the GO ‘cellular metabolic process’ categoryGene Name / Gene Number / Fold change* / p-value**
Small XX/XY offspring
ubiquitin-like protein fubi / A_05_P251364 / 1.257 / 3.78E-02
26s protease regulatory subunit 8 / A_05_P252159 / 1.260 / 3.39E-02
high mobility group protein b2 / A_05_P253324 / 1.325 / 1.27E-02
DNA-directed RNA polymerases and iii subunit rpabc1 / A_05_P257684 / 1.279 / 4.57E-02
guanine nucleotide-binding protein g gg subunit gamma-13-like / A_05_P262499 / 1.316 / 3.68E-02
mitochondrial ribosomal protein l28 / A_05_P265014 / 1.238 / 3.48E-02
39s ribosomal protein mitochondrial / A_05_P265274 / 1.274 / 3.79E-02
platelet glycoprotein 4 / A_05_P270029 / 1.442 / 2.62E-02
carnitine o-acetyltransferase / A_05_P272599 / 1.288 / 4.03E-02
selenoprotein s / A_05_P276549 / 1.270 / 4.49E-02
ribosomal protein l3-like / A_05_P276644 / 1.557 / 1.81E-03
diphthamide biosynthesis protein 2 / A_05_P293207 / 1.300 / 2.35E-02
thrombospondin 4 / A_05_P300817 / 1.362 / 2.32E-02
eukaryotic translation initiation factor 4e type 2 / A_05_P303322 / 1.325 / 2.27E-02
calcium calmodulin-dependent protein kinase (kinase) ii delta 2 / A_05_P304402 / 1.819 / 3.67E-02
wd repeat-containing protein 55 / A_05_P308367 / 1.271 / 3.54E-02
electron-transferring-flavoprotein dehydrogenase / A_05_P308382 / 1.433 / 4.30E-03
septin 9 / A_05_P324627 / 1.605 / 1.32E-02
ubiquinone biosynthesis protein coq7 homolog / A_05_P344462 / 1.323 / 2.01E-02
iq motif and wd repeats 1 / A_05_P345082 / 1.410 / 9.06E-03
cdc-like kinase 4 / A_05_P346932 / 1.330 / 1.38E-02
cleavage and polyadenylation specificity factor subunit 1 / A_05_P347667 / 1.258 / 3.57E-02
tRNA (uracil-5-)-methyltransferase homolog / A_05_P347722 / 1.319 / 2.82E-02
80 kda mcm3-associated protein / A_05_P351672 / 1.667 / 2.15E-02
transcription initiation factor tfiid subunit 11 / A_05_P362287 / 1.287 / 3.93E-02
eukaryotic translation initiation factor 3 subunit d like / A_05_P364432 / 1.272 / 2.85E-02
serpine1 mRNA binding protein 1 / A_05_P368687 / 1.275 / 2.01E-02
adenylate kinase 1 / A_05_P375922 / 1.298 / 2.36E-02
Calmodulin / A_05_P377098 / 1.301 / 3.56E-02
death-associated protein kinase 2 / A_05_P378897 / 1.224 / 4.99E-02
smc3 protein / A_05_P385862 / 1.396 / 3.59E-03
RNA-binding protein 4b / A_05_P388452 / 1.270 / 1.67E-02
ras-related protein rab-2a / A_05_P391272 / 1.409 / 1.50E-02
proteasome ( macropain) 26s 6 / A_05_P406557 / 1.279 / 4.02E-02
Enolase / A_05_P407587 / 1.280 / 3.33E-02
aminoacyltRNA synthase complex-interacting multifunctional protein 1 / A_05_P407602 / 1.410 / 3.00E-02
n-terminal acetyltransferase complex ard1 subunit homolog a / A_05_P408157 / 1.428 / 3.87E-02
nucleolargtp-binding protein 1 / A_05_P408677 / 1.440 / 2.46E-02
atp synthase subunit mitochondrial precursor / A_05_P409472 / 1.335 / 5.83E-03
proteasome subunit alpha type-5 / A_05_P409612 / 1.430 / 7.45E-03
thymidine phosphorylase / A_05_P411652 / 1.246 / 3.92E-02
aspartyl-tRNAsynthetase / A_05_P413257 / 1.502 / 3.35E-02
Prohibitin / A_05_P414182 / 1.293 / 1.67E-02
mapkmakmrk overlapping kinase / A_05_P416647 / 1.294 / 4.95E-02
DNA-directed RNA polymerase ii subunit rpb2 / A_05_P418202 / 1.270 / 4.73E-02
ubiquitin c / A_05_P418397 / 1.320 / 3.25E-02
small ubiquitin-related modifier 3 precursor / A_05_P418747 / 1.265 / 2.91E-02
malate mitochondrial precursor / A_05_P418827 / 1.362 / 3.33E-02
glyceraldehyde-3-phosphate dehydrogenase / A_05_P419277 / 3.542 / 1.31E-04
cytochrome c / A_05_P419817 / 1.449 / 2.00E-02
ubiquitin-conjugating enzyme e2 k / A_05_P420187 / 1.260 / 4.44E-02
eukaryotic translation initiation factor 5b / A_05_P420767 / 1.608 / 4.86E-02
splicing factor 3b subunit 1 / A_05_P421097 / 1.241 / 4.91E-02
eukaryotic translation initiation factor 2 subunit 3 / A_05_P422947 / 1.264 / 1.99E-02
tho complex subunit 5 homolog / A_05_P423802 / 1.216 / 4.69E-02
heterogeneous nuclear ribonucleoprotein g / A_05_P432852 / 1.621 / 6.06E-03
guanine nucleotide-binding protein subunit beta-2-like 1 / A_05_P434467 / 1.257 / 3.70E-02
proteasome subunit alpha type-6 / A_05_P436627 / 1.435 / 2.36E-02
serine threonine-protein kinase mst4 / A_05_P437777 / 1.222 / 4.70E-02
eukaryotic translation initiation factor 3 subunit e / A_05_P439237 / 1.451 / 2.73E-03
60s ribosomal protein l11 / A_05_P440812 / 1.330 / 4.52E-02
negative elongation factor e / A_05_P440907 / 1.349 / 2.93E-02
mitochondrial ribosomal protein s16 / A_05_P443957 / 1.319 / 3.38E-02
splicing factor 3b subunit 3 / A_05_P447182 / 1.334 / 2.84E-02
alpha actin / A_05_P449267 / 2.550 / 9.65E-04
splicing arginine serine-rich 11 / A_05_P450082 / 1.340 / 4.65E-02
polyadenylate-binding protein 4 isoform 3 / A_05_P450567 / 1.380 / 3.48E-02
DNA damage-binding protein 1 / A_05_P453112 / 1.247 / 4.30E-02
alpha 8 like 2 / A_05_P453422 / 1.477 / 1.98E-02
methionine aminopeptidase 2 / A_05_P453492 / 1.259 / 3.03E-02
calcium calmodulin-dependent protein kinase iv / A_05_P455732 / 1.318 / 2.40E-02
adenylate kinase isoenzyme 6-like / A_05_P455812 / 1.348 / 1.83E-02
RNA-binding protein 5 / A_05_P458607 / 1.247 / 3.49E-02
glyceraldehyde-3-phosphate dehydrogenase / A_05_P463477 / 1.384 / 4.49E-03
peptidyl-prolylcis-trans isomerasenima interacting 4 / A_05_P465787 / 1.404 / 2.50E-02
6- muscle type / A_05_P467772 / 1.532 / 2.06E-02
myh9 partial / A_05_P472392 / 1.376 / 4.18E-02
histone h2a-like / A_05_P474392 / 1.445 / 1.97E-02
member ras oncogene family / A_05_P475987 / 1.358 / 3.73E-02
inosine-5 -monophosphate dehydrogenase 2 / A_05_P482917 / 1.366 / 3.24E-02
26s proteasome non-ATPase regulatory subunit 3 / A_05_P488577 / 1.321 / 4.31E-02
GTP-binding protein 1 / A_05_P488657 / 1.247 / 2.91E-02
dtw domain-containing protein 2-like / A_05_P491457 / 1.248 / 3.37E-02
ataxin 2-binding protein 1-like / A_05_P492062 / 1.246 / 4.73E-02
*Fold change is the average difference in expression as measured by the microarray
** Measures the significance of the difference in expression between the small and large fish
Article title: Comparison of growth-related traits and gene expression between the offspring of a sex-reversed and a genotypically male rainbow trout
Journal title: Marine Biotechnology
Author names: AL Kocmarek1, MM Ferguson, and RG Danzmann
Affiliation and email of corresponding author: 1 Department of Integrative Biology, University of Guelph