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Table 2 Differentially expressed genes (DEGs) between E115 and E1 identified through RNA-seq analysis. Genes belonging to the ascorbate and phenylpropanoids biosynthetic pathways that were differentially expressed in at least two ripening stages are reported, including their fold change, EC numbers and gene function in the KEGG database

From: New insights in the control of antioxidants accumulation in tomato by transcriptomic analyses of genotypes exhibiting contrasting levels of fruit metabolites

Gene Identifier (Solyc ID) Log2 fold change E115 vs E1 EC number Gene Function
MG BR MR
Ascorbic Acid pathway
Solyc02g084210 2.25 2.30 4.2.1.47 GDP-mannose-4,6-dehydratase
Solyc02g030230 1.91 1.20 4.1.1.35 UDP-glucose 4-epimerase
Solyc04g082140 −3.00 −2.53 −2.39 1.10.3.3 Laccase-22/L-ascorbate oxidase
Solyc07g052230 − 2.94 −1.90 − 2.39 1.10.3.3 Laccase-22/L-ascorbate oxidase
Solyc05g054760 1.94 2.77 1.8.5.1 Dehydroascorbate reductase
Solyc03g083730 −4.16 −3.50 −3.92 3.1.1.11 Pectin methylesterase
Solyc09g091730 4.87 7.10 3.1.1.11 Pectin methylesterase
Solyc07g042390 3.69 8.07 3.1.1.11 Pectin methylesterase
Solyc07g064170 2.44 3.20 3.1.1.11 Pectin methylesterase
Solyc10g080210 9.98 3.26 6.04 3.2.1.15 Polygalacturonase A
Solyc06g071330 −1.53 3.37 1.92 N.D. Nuclease ascorbate transporter
Phenylpropanoid pathway
Solyc09g091510 6.28 9.24 9.98 2.3.1.74 Chalcone synthase 1
Solyc05g053550 6.42 10.40 9.79 2.3.1.74 Chalcone synthase 2
Solyc05g010320 −3.38 1.86 1.85 5.5.1.6 Chalcone-flavonone isomerase
Solyc05g052240 3.90 7.33 6.19 5.5.1.6 Chalcone-flavonone isomerase
Solyc02g083860 2.71 6.46 7.31 1.14.11.9 Flavanone-3-hydroxylase
Solyc02g089770 2.65 6.61 4.12 1.1.1.195 Dihydroflavonol-4-reductase
Solyc05g051020 −2.60 6.20 5.13 1.1.1.219 Dihydroflavonol-4-reductase
Solyc05g051010 −2.70 2.97 4.41 1.1.1.219 Dihydroflavonol-4-reductase
Solyc11g013110 1.81 5.77 5.36 1.14.11.23 Anthocyanidin synthase
Solyc03g078720 3.82 2.03 2.4.1.215 Glucosyltransferase-2
Solyc04g008330 −5.57 4.01 2.94 2.4.1.215 Glucosyltransferase
Solyc05g052870 −2.63 −2.97 2.4.1.215 UDP-glucosyltransferase
Solyc10g083440 3.37 3.71 2.4.1.115 UDP flavonoid 3-O-glucosyltransferase
Solyc11g007390 5.19 −2.11 −1.81 2.4.1.177 UDP-glucosyltransferase
Solyc10g050160 −3.13 −2.13 −2.20 2.1.1.104 Caffeoyl-CoA 3-O-methyltransferase
Solyc08g076790 3.19 2.83 3.81 1.1.1.219 Cinnamoyl-CoA reductase
Solyc08g076780 6.04 10.53 4.21 1.2.1.44 Cinnamoyl-CoA reductase
Solyc04g080550 2.18 1.74 3.20 1.3.1.45 Phenylcoumaran benzylic ether reductase