Table 4

Gene ontology based classification of differentially expressed genes
GO CATEGORY TOTAL GENES CHANGED GENES
up-regulated
GO:0042221_response_to_chemical_stimulus 1271 123
GO:0050896_response_to_stimulus 2445 191
GO:0009266_response_to_temperature_stimulus 288 46
GO:0009408_response_to_heat 114 28
GO:0009628_response_to_abiotic_stimulus 974 94
GO:0006950_response_to_stress 1398 119
GO:0009644_response_to_high_light_intensity 42 16
GO:0009642_response_to_light_intensity 63 18
GO:0000302_response_to_reactive_oxygen_species 55 16
GO:0006979_response_to_oxidative_stress 178 29
GO:0042542_response_to_hydrogen_peroxide 36 13
GO:0009725_response_to_hormone_stimulus 551 55
GO:0010033_response_to_organic_substance 752 68
GO:0009415_response_to_water 149 24
GO:0009719_response_to_endogenous_stimulus 593 56
GO:0009737_response_to_abscisic_acid_stimulus 254 32
GO:0009414_response_to_water_deprivation 144 22
GO:0010035_response_to_inorganic_substance 360 38
GO:0006970_response_to_osmotic_stress 289 31
GO:0009651_response_to_salt_stress 269 28
Down-regulated
GO:0009698_phenylpropanoid_metabolic_process 111 39
GO:0009699_phenylpropanoid_biosynthetic_process 83 32
GO:0019748_secondary_metabolic_process 230 57
GO:0007167_enzyme_linked_receptor_protein_signaling 94 31
GO:0007169_transmembrane_receptor_protein_tyrosine_kinase_signaling_pathway 94 31
GO:0007166_cell_surface_receptor_linked_signaling 113 32
GO:0009813_flavonoid_biosynthetic_process 44 19
GO:0019438_aromatic_compound_biosynthetic_process 151 37
GO:0006725_cellular_aromatic_compound_metabolic_proces 227 48
GO:0009812_flavonoid_metabolic_process 53 20
GO:0006629_lipid_metabolic_process 484 80
GO:0071555_cell_wall_organization 81 24
GO:0009653_anatomical_structure_morphogenesis 398 66
GO:0071554_cell_wall_organization_or_biogenesis 138 32
GO:0009664_plant-type_cell_wall_organization 38 15
GO:0042545_cell_wall_modification 60 19
GO:0008610_lipid_biosynthetic_process 259 47
GO:0007047_cellular_cell_wall_organization 41 15
GO:0071669_plant-type_cell_wall_organization_or_biogenesis 75 21
GO:0009827_plant-type_cell_wall_modification 19 10
GO:0070882_cellular_cell_wall_organization_or_biogenesis 89 23
GO:0048869_cellular_developmental_process 323 54
GO:0009808_lignin_metabolic_process 35 13

Gene ontology categories of up-regulated and down-regulated genes under water stress conditions (S1) among the most significantly differentiated transcripts. Total genes is the number of genes in a category, changed genes are the number of gene showed differential expression and FDR (<0.0001) is the one-sided Fisher’s exact p value corrected for multiple comparisons.

Thumma et al.

Thumma et al. BMC Genomics 2012 13:364   doi:10.1186/1471-2164-13-364

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