Transcriptome changes of tomato internode elongation induced by far-red light 3 71 In-WL In-FR Pith-WL Pith-FR phosphatase activity DNA-directed 5'-3' RNA polymerase activity methylenetetrahydrofolate dehydrogenase (NADP+) activity chitin catabolic process cell wall macromolecule catabolic process chitinase activity kinase activity nucleotide transport ATP:ADP antiporter activity serine-type peptidase activity transcription- DNA-templated cellulose biosynthetic process cellulose synthase (UDP-forming) activity enzyme inhibitor activity cysteine-type peptidase activity mRNA splicing via spliceosome Golgi stack oligosaccharide biosynthetic process alpha-1 6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity vitamin B6 biosynthetic process pyridoxal phosphate biosynthetic process glutaminase activity nucleic acid binding primary metabolic process carbohydrate metabolic process DNA-binding transcription factor activity calmodulin binding single-stranded DNA binding indole-3-glycerol-phosphate synthase activity chlorophyll catabolic process chlorophyllase activity selenium binding nucleus histone acetyltransferase activity proteolysis nuclease activity racemase activityacting on amino acids and derivatives thiamine biosynthetic process cell adhesion aldehyde-lyase activity hexosyltransferase activity folic acid binding transferase activity mature ribosome assembly extracellular matrix sulfate transport sulfate transmembrane transporter activity Ino80 complex 3-dehydroquinate dehydratase activity sequence-specific DNA binding photosynthesis oxidoreductase activity chlorophyllide a oxygenase [overall] activity photosystem II photosystem I reaction center fructose-bisphosphate aldolase activity glycolytic process photosystem II oxygen evolving complex channel activity photosystem I transmembrane transport polysaccharide catabolic process beta-amylase activity tetrahydrobiopterin biosynthetic process 4-alpha-hydroxytetrahydrobiopterin dehydratase activity ATP synthesis coupled proton transport iron-sulfur cluster binding sodium ion transport transporter activity cysteine biosynthetic process from serine serine O-acetyltransferase activity triose-phosphate isomerase activity L-phenylalanine biosynthetic process prephenate dehydratase activity inositol biosynthetic process inositol-3-phosphate synthase activity extrinsic component of membrane proton transmembrane transporter activity proton-transporting ATP synthase complex-coupling factor F(o) regulation of cyclin-dependent protein serine/threonine kinase activity protein kinase binding membrane catalytic activity proton-transporting ATP synthase activity rotational mechanism phosphoenolpyruvate carboxylase activity lipid biosynthetic process carbon fixation cytochrome b6f complex intracellular membrane-bounded organelle plasma membrane CST complex protein catabolic process tricarboxylic acid cycle aromatic amino acid family biosynthetic process phospholipid biosynthetic process cytidine deamination cytidine deaminase activity oxidoreductase activity acting on the CH-OH group of donorsNAD or NADP as acceptor response to wounding alkylbase DNA N-glycosylase activity FMN adenylyltransferase activity nitrite reductase [NAD(P)H] activity phosphate ion transport inorganic phosphate transmembrane transporter activity trehalose metabolic process alpha alpha-trehalase activity glycine catabolic process glycine dehydrogenase (decarboxylating) activity oxidoreductase activity acting on the aldehyde or oxo group of donorsNAD or NADP as acceptor pyruvate kinase activity potassium ion binding thylakoid membrane lipid metabolic process biosynthetic process peroxidase activity cyclin-dependent protein serine/threonine kinase inhibitor activity squalene monooxygenase activity 2 iron 2 sulfur cluster binding metalloendopeptidase activity aerobic respiration cellular amino acid metabolic process ubiquitin protein ligase activity oxidoreductase activity acting on NAD(P)Hquinone or similar compound as acceptor cytochrome-c oxidase activity metal ion transport carbonate dehydratase activity DNA-templated transcriptioninitiation positive regulation of stomatal complex development spermine biosynthetic process spermidine biosynthetic process adenosylmethionine decarboxylase activity calcium ion binding starch binding mitochondrial membrane unfolded protein binding regulation of transcription DNA-templated Tissue and treatment -log(q value) 0 2 4 6 Figure 3.11 Gene ontology enrichment analysis of DEGs in pith or whole internode comparing morning timepoints to afternoon timepoints. Heatmap of the -log of adjusted p-values (q-value) for each enriched GO category. Blue color scheme for down regulated DEGs.
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