Table 3

GO terms identified to be over-represented among the transcripts of significantly up- or down-regulated in the different stress conditions

Condition

Change in expression

Category

Function

GO ID

Hyper

Down

Nucleic acid binding

RNA binding (mRNA, rRNA, snoRNA)

[GO:0003723]; [GO:0003729]; [GO:0019843]; [GO:0030515]

Nucleic acid binding

Translation factor activity (elongation and initiation)

[GO:0008135]; [GO:0003746]; [GO:0003743]

Lyase

UDP-glucuronate decarboxylase activity

[GO:0048040]

Ligase

CTP synthase activity

[GO:0003883]

Isomerase activity

Intramolecular oxidoreductase activity

[GO:0016860]

Up

Hydrolase

Agmatinase activity

[GO:0008783]

Hydrolase

Arginase activity

[GO:0004053]

Hyper Hypo

Down

Ligase

Aminoacyl-tRNA ligase activity (inlcuding Pro, Ser, Ile, Glu)

[GO:0004812]; [GO:0016876]; [GO:0004828]; [GO:0004829]; [GO:0004822]

Hypo

Down

Oxidoreductase (S, peroxide)

Antioxidant activity (glutathione-disulfide reductase and catalase, cytochrome-c peroxidase)

[GO:0016209]; [GO:0004362]; [GO:0004096]; [GO:0004130]

Nucleic acid binding

Structure-specific DNA binding

[GO:0000404]; [GO:0032134]; [GO:0000403]; [GO:0032137]; [GO:0032138]; [GO:0032139]

Tetrapyrrole binding

Chlorophyll binding

[GO:0016168]

Lyase

Carbon-oxygen lyase activity

[GO:0016835]

Transferase (N)

Transaminase activity (including TYR, ASP, histidinol-P, aromatic amino acids)

[GO:0008483]; [GO:0004838]; [GO:0004400]; [GO:0008793]; [GO:0004069]

Transferase (C1)

Aspartate carbamoyltransferase activity

[GO:0004070]

Transferase (glycosyl)

Transferase activity, transferring pentosyl groups

[GO:0016763]

Oxidoreductase CH-CH

Biliverdin reductase activity

[GO:0004074]

Oxidoreductase (CH-NH2)

Glutamate synthase activity

[GO:0015930]

Isomerase

Isomerase activity

[GO:0016853]

Transporter

NAD(P)+ transhydrogenase (B-specific) activity

[GO:0003957]

Hypo

Down

Oxidoreductase

Oxidoreductase activity

[GO:0016491]

Oxi

Oxidoreductase activity, acting on NADH or NADPH

[GO:0016651]; [GO:0016652]

Oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor (including L-iditol 2-dehydrogenase activity)

[GO:0016616]; [GO:0016614]; [GO:0003939]

Oxi

Down

Lyase

3-Isopropylmalate dehydratase activity

[GO:0003861]

Transferase (P)

Amino acid kinase activity

[GO:0019202]

Transporter

Nitrate transmembrane transporter activity

[GO:0015112]

Transferase (C1)

S-adenosylmethionine-dependent methyltransferase activity (including nicotinate phosphoribosyltransferase)

[GO:0008757]

Oxidoreductase (steroids)

Steroid dehydrogenase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

[GO:0033764]

Transferase (glycosyl)

Transferase activity, transferring pentosyl groups

[GO:0016763]; [GO:0004853]

Transferase (glycosyl)

Uracil phosphoribosyltransferase activity

[GO:0004845]

Transferase (P)

Phosphoribulokinase activity

[GO:0008974]

Up

Motor activity

Microtubule motor activity

[GO:0003777]

The table shows only pathways that were labeled significant at an FDR <10% in both sets of significant genes (5% FDR and 10% FDR).

Dittami et al. Genome Biology 2009 10:R66   doi:10.1186/gb-2009-10-6-r66