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Table 5 Differentially expressed genes between untreated and 5-aza treated mycelia

From: A comprehensive resource of genomic, epigenomic and transcriptomic sequencing data for the black truffle Tuber melanosporum

Gene* Description RPKM No aza RPKM aza Fold Change adj. p value
Oxidation-reduction process
GSTUMT00004482001 Flavin-binding monooxygenase-like protein 8 258 33.80 3.51E-09
GSTUMT00009102001 Extracellular dioxygenase 18 196 10.71 1.33E-09
GSTUMT00002834001 Alpha-ketoglutarate-dependent taurine dioxygenase 47 414 8.84 4.30E-09
GSTUMT00006862001 Alcohol dehydrogenase 1 4355 34021 7.81 4.81E-08
GSTUMT00005793001 Bilirubin oxidase 1590 8041 5.06 2.28E-05
GSTUMT00000137001 Cytochrome P450 3 17 5.06 5.85E-04
GSTUMT00006911001 Multicopper oxidase 19 90 4.64 4.87E-03
GSTUMT00008228001 Zinc-binding oxidoreductase 34 147 4.35 3.20E-04
GSTUMT00002706001 Alpha-ketoglutarate-dependent sulfonate dioxygenase protein 4 14 3.61 3.51E-02
GSTUMT00000322001 Fatty acid oxygenase 137 48 0.35 4.81E-02
GSTUMT00000528001 Short-chain alcohol dehydrogenases 334 110 0.33 1.22E-02
GSTUMT00007846001 FAD binding domain-containing protein 172 56 0.33 1.54E-02
GSTUMT00002653001 Pyridoxal reductase 104 31 0.30 5.83E-03
GSTUMT00000530001 FAD binding domain-containing protein 61 18 0.30 8.39E-03
GSTUMT00012134001 Dopa -dioxygenase 4704 1368 0.29 3.10E-03
GSTUMT00000158001 Ferritin ribonucleotide reductase-like protein 54 15 0.28 4.52E-03
GSTUMT00002858001 3-oxoacyl-(acyl-carrier-protein) reductase 22 5 0.25 8.53E-03
GSTUMT00012200001 Malate synthase 71 15 0.21 2.41E-03
GSTUMT00001645001 Zinc-binding alcohol 219 34 0.16 1.06E-06
GSTUMT00006980001 Alcohol dehydrogenase 1022 146 0.14 1.36E-07
GSTUMT00007117001 D-isomer specific 2-hydroxyacid dehydrogenase 4 0.4 0.10 4.66E-02
Transmembrane transport
GSTUMT00001488001 Amino acid permease 163 737 4.53 9.07E-03
GSTUMT00003668001 Carboxylic acid transport protein 20 82 4.03 6.04E-03
GSTUMT00010777001 Mate efflux family protein 16 66 4.03 1.22E-02
GSTUMT00008972001 Lactose permease 16 64 4.02 7.12E-03
GSTUMT00001400001 MFS efflux transporter 86 295 3.44 5.58E-03
GSTUMT00000284001 Mg2+ transporter family-like protein 1082 366 0.34 2.56E-02
GSTUMT00008966001 MFS general substrate transporter 27 9 0.34 4.85E-02
GSTUMT00000070001 MFS multidrug transporter 119 30 0.25 1.20E-03
GSTUMT00004586001 ABC transporter 32 5 0.17 3.72E-02
GSTUMT00005001001 MFS drug efflux 663 84 0.13 4.47E-08
Transcription factors
GSTUMT00005836001 Fungal transcriptional regulatory protein 1 18 17.23 1.91E-09
GSTUMT00010369001 STE12-like transcription factor 1 7 12.50 1.93E-04
GSTUMT00004615001 Binuclear zinc transcription factor 2 10 6.40 1.95E-04
GSTUMT00004613001 GAL4 domain-containing protein 90 402 4.49 1.03E-02
GSTUMT00003504001 C2H2 finger domain 1522 467 0.31 4.98E-03
Metabolic process
GSTUMT00008986001 Glycoside hydrolase family 61 protein 0.2 5 25.60 1.10E-04
GSTUMT00001850001 Endo- -beta-glucanase eng1 94 1499 16.02 4.71E-13
GSTUMT00012011001 Glycoside hydrolase family 28 protein 7 57 7.73 3.97E-04
GSTUMT00005539001 Dynamin family protein 27 195 7.18 2.59E-05
GSTUMT00010778001 Agmatinase 1 230 1316 5.72 1.70E-05
GSTUMT00011981001 Acetyltransferase 298 1376 4.62 1.62E-04
GSTUMT00007852001 Alpha amylase 166 704 4.25 6.60E-04
GSTUMT00003032001 Polysaccharide deacetylase 1222 4444 3.64 3.18E-03
GSTUMT00001583001 Pirin 273 968 3.54 3.99E-03
GSTUMT00005439001 Glycerophosphoryl diester phosphodiesterase 214 758 3.54 1.08E-02
GSTUMT00001660001 Glycoside hydrolase family 16 protein 109 374 3.43 6.66E-03
GSTUMT00006417001 Fatty acid activator 417 1410 3.38 5.16E-03
GSTUMT00007213001 Tat pathway signal sequence 74 239 3.25 1.98E-02
GSTUMT00002512001 Gnat family N-acetyltransferase 99 311 3.14 2.83E-02
GSTUMT00000969001 Branched-chain amino acid aminotransferase 840 270 0.32 9.18E-03
Response to stimuli/mycelium development
GSTUMT00004040001 Regulator of G protein signaling domain protein 54 209 3.84 1.40E-03
GSTUMT00007138001 Osmolarity two-component sensor histidine kinase SLN1 401 1134 2.83 4.81E-02
GSTUMT00004012001 Annexin 72 23 0.33 1.38E-02
Others
GSTUMT00004681001 RNase P RPR2 RPP21 subunit domain-containing protein 52 339 6.53 9.70E-07
GSTUMT00002939001 Allergenic cerato-platanin ASP F13 361 1730 4.80 5.46E-05
GSTUMT00010365001 Putative endo-glucanase 8 39 4.66 1.93E-02
GSTUMT00006611001 Protoglobin protein 999 3827 3.83 3.11E-03
GSTUMT00006718001 Glutathione S-transferase 228 80 0.35 3.10E-02
GSTUMT00008071001 XAA-pro dipeptidase 1272 413 0.32 1.27E-02
GSTUMT00001676001 Arrestin (or S-antigen) N-terminal domain protein 96 31 0.32 1.22E-02
GSTUMT00006632001 P-loop containing nucleoside triphosphate hydrolase 3053 724 0.24 2.20E-04
  1. *One hundred fifteen genes undergo a significant change in expression levels (adjusted p value <0.05) upon 5-aza treatment. Functional annotation of the differentially expressed genes/sequences (either up- or down-regulated) was performed with the Blast2GO suite. Fifty-three genes code for hypothetical proteins. The remaining 62 genes were classified into distinct functional categories. “Oxidation-reduction process” and “transmembrane transport” appear as enriched GO terms (Fisher exact test p = 2.6E-4 and p = 7.9E-3, respectively) among differentially expressed genes.
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