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Table 4 Top 10 up-regulated genes differentially expressed between the bark and needles at T0 (before treatment) for each plant part. The table also shows the ID of the genes assigned in this study for ease of identification in the tables, Scion transcripts code, predicted gene name and function

From: Analysis of the transcriptome of the needles and bark of Pinus radiata induced by bark stripping and methyl jasmonate

Part ID Scion transcript code Predicted gene name Predicted gene function
Bark B1 NZPradTrx054097_C01 Homeobox transcription factor KN3 Central regulators of meristem cell identity (Guillet-Claude et al. 2004)
B2 NZPradTrx073079_C03 Transporter, putative Sugar transport (Weig et al. 1994)
B3 NZPradTrx087709_C01 Homeobox transcription factor KN1 Central regulators of meristem cell identity (Namroud et al. 2010)
B4 NZPradTrx055579_C01 Mini zinc finger 1 Regulates several development aspects, including photomorphogenesis, apical dominance, longevity, flower morphology and fertility, as well as root and stem elongation (https://www.uniprot.org/uniprot/Q9CA51)
B5 NZPradTrx048496_C01 Plastid phosphate translocator Involved in the exchange of metabolites and inorganic phosphate between stroma and cytosol (Bockwoldt et al. 2019)
B6 NZPradTrx101882_C01 Auxin-induced protein 5NG4, putative Transmembrane transporter activity especially during root formation (Busov et al. 2004)
B7 NZPradTrx103825_C01 NZPradTrx103825_C04 PREDICTED: GDSL esterase/lipase At5g03610-like Lipid catabolic process (https://www.uniprot.org/uniprot/Q9LZS7)
B8 NZPradTrx184572_C01 G1-like protein Polymerizes the backbones of non-cellulosic polysaccharides (hemicelluloses) of plant cell wall
https://www.uniprot.org/uniprot/Q570S7
B9 NZPradTrx055645_C01 PREDICTED: squalene monooxygenase-like Converts squalene into oxidosqualene, the precursor of all known angiosperm cyclic triterpenoids (Rasbery et al. 2007)
NZPradTrx096935_C03
B10 NZPradTrx093053_C01 Ribulose 1,5-bisphosphate carboxylase/oxygenase small subunit Catalyses carboxylation of RuBP in the first step of the Calvin cycle of photosynthesis (Tabita 1999)
Needles N1 NZPradTrx115678_C04 Anthocyanidin reductase Involved in the biosynthesis of proanthocyanidins (Zhu et al. 2015)
NZPradTrx115678_C05
N2 NZPradTrx090889_C01 Cytochrome P450 CYPA2 Oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen https://www.uniprot.org/uniprot/A9F9S4
N3 NZPradTrx114954_C01 Glucosyltransferase Transfer of glucose (Chen et al. 2016)
NZPradTrx086877_C02
N4 NZPradTrx088783_C01 Glucose-1-phosphate adenylyltransferase, putative Involved in the pathway starch biosynthesis (https://www.uniprot.org/uniprot/Q688T8)
N5 NZPradTrx086324_C01 PREDICTED: LOB domain-containing protein 1-like Involved in the repression of the homeobox gene BP
https://www.uniprot.org/uniprot/Q9FKZ3-1
N6 NZPradTrx065580_C01 Catalase Crucial antioxidant enzymes that mitigates oxidative stress to a considerable extent by destroying cellular hydrogen peroxide to produce water and oxygen (Nandi et al. 2019)
N7 NZPradTrx049683_C01 Photosystem II core complex proteins psbY2C chloroplast precursor Multi-component pigment-protein complex responsible for water splitting, oxygen evolution, and plastoquinone reduction (Lu 2016)
N8 NZPradTrx097448_C02 ribonucleoprotein, chloroplast, putative Involved in chloroplast RNA processing (Tillich et al. 2009)
N9 NZPradTrx119685_C01 SOUL heme-binding protein Plays an active role in primary plant metabolic pathways as well as in stress signalling (Shanmugabalaji et al. 2020)
N10 NZPradTrx184701_C01 chloroplast ribosomal protein S1 Involvement in translation initiation via positioning of initiation mRNA–protein complexes (mRNPs), and the potential involvement of these unique domains in the processivity of chloroplast translation (Manuell et al. 2007)