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Table 2 Enrichment of GO terms in differentially expressed sequences in Phlebia sp. MG-60

From: Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq

GO_name GO_id Number of sequences Log Fold Change Z score P-value FDR
MF ATP binding GO:0005524 799 0.2985 6.1830 6.29E-10 1.4E-07
MF nucleic acid binding GO:0003676 233 0.4418 4.6111 4.01E-06 0.0004
MF phosphogluconate dehydrogenase (decarboxylating) activity GO:0004616 11 −2.2802 −4.2490 2.15E-05 0.0010
BP pentose-phosphate shunt GO:0006098 11 −2.2802 −4.2490 2.15E-05 0.0010
MF transferase activity GO:0016740 13 1.9417 4.2346 2.29E-05 0.0010
BP fatty acid biosynthetic process GO:0006633 11 2.0965 4.1939 2.74E-05 0.0010
MF copper ion binding GO:0005507 27 1.2629 4.0514 5.09E-05 0.0016
BP tRNA aminoacylation for protein translation GO:0006418 38 0.9948 3.8449 0.0001 0.0032
MF aminoacyl-tRNA ligase activity GO:0004812 41 0.9504 3.8284 0.0001 0.0032
MF acyl-CoA dehydrogenase activity GO:0003995 16 −1.7053 −3.7871 0.0002 0.0034
MF oxidoreductase activity, acting on the CH-CH group of donors GO:0016627 25 −1.3711 −3.7618 0.0002 0.0034
CC integral component of membrane GO:0016021 492 0.2125 3.7428 0.0002 0.0034
BP intracellular protein transport GO:0006886 81 0.6338 3.7239 0.0002 0.0034
BP rRNA processing GO:0006364 17 1.4230 3.5985 0.0003 0.0051
MF nucleotide binding GO:0000166 69 0.6564 3.5460 0.0004 0.0058
MF nitronate monooxygenase activity GO:0018580 16 −1.5292 −3.3773 0.0007 0.0102
MF coenzyme binding GO:0050662 76 0.5828 3.3485 0.0008 0.0106
BP biosynthetic process GO:0009058 73 0.5771 3.2533 0.0011 0.0141
MF protein binding GO:0005515 816 0.1157 3.2119 0.0013 0.0154
MF DNA-directed RNA polymerase activity GO:0003899 48 0.6911 3.0976 0.0020 0.0217
CC membrane coat GO:0030117 15 1.2752 3.0474 0.0023 0.0243
MF methyltransferase activity GO:0008168 77 0.5169 3.0342 0.0024 0.0243
MF RNA binding GO:0003723 107 0.4216 3.0033 0.0027 0.0256
CC cytoplasm GO:0005737 103 0.4287 2.9886 0.0028 0.0256
MF structural molecule activity GO:0005198 11 1.4658 2.9773 0.0029 0.0256
MF DNA binding GO:0003677 275 0.2301 2.9679 0.0030 0.0256
BP ribosome biogenesis GO:0042254 12 1.3692 2.9151 0.0036 0.0282
CC membrane GO:0016020 319 0.2020 2.9042 0.0037 0.0282
MF magnesium ion binding GO:0000287 27 0.8832 2.9037 0.0037 0.0282
MF catalytic activity GO:0003824 327 0.1926 2.8416 0.0045 0.0332
MF oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor GO:0016620 10 1.4184 2.7516 0.0059 0.0425
CC small-subunit processome GO:0032040 13 1.2130 2.7064 0.0068 0.0472
  1. GO gene ontology, PAGE parametric analysis of gene set enrichment, BP biological process, MF molecular function, CC cellular component, FDR False discovery rate, Log Fold Change values between fermenting and non-fermenting conditions were used to calculate Z scores. Log Fold change values of each GO terms upregulated in fermenting condition is represented by positive numbers and downregulated is represented by negative numbers