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. 2014 Feb 21;9(2):e89495. doi: 10.1371/journal.pone.0089495

Table 2. KOG enrichment analysis of the defoliation-responsive DEGs compared with the reference transcriptome.

KOG functional cluster Transcriptome frequency of use DEGs frequency of use p-value q-value
Chromatin structure and dynamics 636 of 32382 (1.96%) 144 of 1605 (8.97%) 9.95E-56 2.49E-54
Carbohydrate transport and metabolism 1897 of 32382 (5.86%) 156 of 1605 (9.72%) 1.53E-10 1.92E-09
Cytoskeleton 1020 of 32382 (3.15%) 73 of 1605 (4.55%) 0.0007 0.0045
Translation, ribosomal structure and biogenesis 1819 of 32382 (5.62%) 126 of 1605 (7.85%) 5.97E-05 0.0005
Inorganic ion transport and metabolism 942 of 32382 (2.91%) 59 of 1605 (3.68%) 0.03 0.14
Secondary metabolites biosynthesis, transport and catabolism 1511 of 32382 (4.67%) 87 of 1605 (5.42%) 0.06 0.27
Cell wall/membrane/envelope biogenesis 424 of 32382 (1.31%) 27 of 1605 (1.68%) 0.07 0.27
Defense mechanisms 333 of 32382 (1.03%) 21 of 1605 (1.31%) 0.11 0.29
Nucleotide transport and metabolism 398 of 32382 (1.23%) 25 of 1605 (1.56%) 0.09 0.29
Extracellular structures 15 of 32382 (0.05%) 1 of 1605 (0.06%) 0.17 0.42
Energy production and conversion 1062 of 32382 (3.28%) 58 of 1605 (3.61%) 0.19 0.45
Transcription 1520 of 32382 (4.69%) 77 of 1605 (4.80%) 0.39 0.78
Nuclear structure 142 of 32382 (0.44%) 7 of 1605 (0.44%) 0.41 0.78
Lipid transport and metabolism 1228 of 32382 (3.79%) 61 of 1605 (3.80%) 0.46 0.82
Cell motility 16 of 32382 (0.05%) 0 0.56 0.93
Posttranslational modification, protein turnover, chaperones 3144 of 32382 (9.71%) 152 of 1605 (9.47%) 0.61 0.95
Amino acid transport and metabolism 1385 of 32382 (4.28%) 56 of 1605 (3.49%) 0.94 1
Coenzyme transport and metabolism 322 of 32382 (0.99%) 12 of 1605 (0.75%) 0.81 1
Replication, recombination and repair 821 of 32382 (2.54%) 23 of 1605 (1.43%) 1 1
Intracellular trafficking, secretion, and vesicular transport 1589 of 32382 (4.91%) 50 of 1605 (3.11%) 1 1
Signal transduction mechanisms 5114 of 32382 (15.79%) 159 of 1605 (9.91%) 1 1
Cell cycle control, cell division, chromosome partitioning 683 of 32382 (2.11%) 18 of 1605 (1.12%) 1 1
General function prediction only 3292 of 32382 (10.17%) 120 of 1605 (7.48%) 1 1
Function unknown 1685 of 32382 (5.20%) 49 of 1605 (3.05%) 1 1
RNA processing and modification 1384 of 32382 (4.27%) 44 of 1605 (2.74%) 1 1