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Table 2 Selection of genes differentially expressed during ripening.

From: Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening

Probe ID 2007 34vs32 2007 35vs32 2007 36vs32 2008 35vs32 2008 36vs32 Unique gene 12× ID Annotation
CARBOHYDRATE AND AMINO ACID METABOLISMS
VVTU1012_at . . 1.77 . 1.61 GSVIVT01033747001 Pyruvate kinase, cytosolic isozyme
VVTU1135_at 3.64 3.82 5.69 2.07 2.77 GSVIVT01012723001 Soluble starch synthase 3, chloroplast precursor
VVTU12019_s_at . 4.57 5.37 2.3 4.07 GSVIVT01022356001 Aldehyde dehydrogenase
VVTU12208_at . -4 -9.68 -2.33 -8.28 GSVIVT01011979001 Phosphoenolpyruvate carboxylase
VVTU12879_at . 2.73 2.19 2.78 2.37 GSVIVT01024263001 RCP1 (ROOT CAP 1)
VVTU16699_s_at . -7.79 -20.35 -2.1 -12.01 GSVIVT01024174001 Fructose-bisphosphate aldolase, chloroplast precursor
VVTU16744_s_at -1.62 -1.72 -1.82 . -2.66 GSVIVT01015018001 Sucrose synthase
VVTU17960_s_at . . 1.59 . 1.72 GSVIVT01033791001 Fructose-bisphosphate aldolase cytoplasmic isozyme
VVTU1903_at . . -2.26 . -1.67 GSVIVT01016173001 Malate dehydrogenase [NADP], chloroplast precursor (NADP-MDH)
VVTU1967_s_at . 1.54 1.94 1.84 2.09 GSVIVT01014206001 Phosphoenolpyruvate carboxylase
VVTU2658_at . . 1.5 1.54 1.58 GSVIVT01011700001 Phosphoglucomutase, cytoplasmic
VVTU4210_at 4.86 12.95 23.65 7.73 14.17 GSVIVT01033062001 Alcohol dehydrogenase
VVTU4280_at 3.26 10 13.91 7.05 12.89 GSVIVT01037186001 Sucrose-phosphate synthase 1
VVTU5246_at . . 2.14 . 1.86 GSVIVT01006474001 Malate dehydrogenase glyoxysomal
VVTU5612_at . -1.85 -4.85 . -3.3 GSVIVT01013403001 Glyceraldehyde-3-phosphate dehydrogenase B, chloroplast precursor
VVTU7116_at . 1.82 2.38 1.81 2.19 GSVIVT01008714001 Alpha-amylase/1,4-alpha-D-glucan glucanohydrolase
VVTU8170_at . -2.21 -4.09 -1.76 -2.67 GSVIVT01032446001 Glycogen synthase kinase 3 beta
VVTU9506_at 1.54 2.57 1.65 2.66 . GSVIVT01004839001 Snf1-related protein kinase srk2f
VVTU11854_s_at . 1.79 1.82 1.51 2.08 GSVIVT01000391001 Glutamate decarboxylase 1 (GAD 1)
VVTU13950_s_at -1.61 -4.55 -28.07 -2.79 -25.73 GSVIVT01033402001 Glutamate dehydrogenase 1
VVTU14998_at . . 4.38 . 2.72 GSVIVT01034731001 Gamma-aminobutyric acid transporter
VVTU22880_s_at . 1.64 2.02 1.85 3.24 GSVIVT01016467001 Pyrroline-5-carboxylate synthetase
VVTU35297_s_at . . 1.55 . 1.7 GSVIVT01036689001 Isocitrate dehydrogenase, chloroplast precursor
VVTU35625_s_at . -2.57 -5.34 . -2.93 GSVIVT01036719001 Succinate-semialdehyde dehydrogenase (SSADH1)
VVTU37879_s_at . -2.09 . . . GSVIVT01038714001 GLT1 (NADH-dependent glutamate synthase 1 gene)
VVTU5646_at . 3.17 3.09 2.18 3.15 GSVIVT01016390001 Proline transporter 1 (ProT1)
VVTU7588_at . -2.81 . -1.73 -1.85 GSVIVT01036483001 Proline oxidase
VVTU977_at . . 1.68 . 1.68 GSVIVT01033607001 Cystathionine beta-lyase
STRESS RESPONSE
VVTU12535_s_at . . 5.35 . 4.41 GSVIVT01027990001 Glutathione-conjugate transporter (MRP10)
VVTU14104_s_at . . 1.73 . 2.13 GSVIVT01033815001 Monodehydroascorbate reductase
VVTU15985_at . . 1.59 . . GSVIVT01025104001 L-ascorbate peroxidase 1, cytosolic (APX1)
VVTU16784_s_at . 2.43 3.15 2.94 4.68 GSVIVT01019766001 Phospholipid hydroperoxide glutathione peroxidase
VVTU1974_s_at . 52.07 88.22 11.76 189.67 GSVIVT01035256001 Glutathione S-transferase 26 GSTF12
VVTU23718_at . 2.05 . 1.74 2.42 GSVIVT01037479001 L-ascorbate oxidase
VVTU27380_s_at . -1.71 -2.42 . -2.27 GSVIVT01021793001 GDP-mannose 3,5-epimerase 1
VVTU35602_s_at -1.74 . -4 . -1.69 GSVIVT01025551001 L-ascorbate peroxidase 1, cytosolic (APX1)
VVTU38305_s_at . 3.59 1.63 2.34 2.53 GSVIVT01003998001 Latex cyanogenic beta glucosidase
VVTU40144_at . . . 1.62 . . Dehydroascorbate reductase
VVTU40443_s_at 1.94 1.63 1.97 1.83 2.12 GSVIVT01026951001 Beta-cyanoalanine synthase
VVTU4641_at . -2.92 -15.77 -1.58 -8.94 GSVIVT01009079001 L-ascorbate peroxidase, chloroplast
VVTU4643_at . . . -2.03 -2.51 GSVIVT01010646001 L-idonate dehydrogenase
VVTU4990_at . 2.11 1.97 3.08 2.44 GSVIVT01019757001 Gamma-glutamylcysteine synthetase
VVTU5671_s_at -2.05 -2.59 -2.86 . . GSVIVT01005966001 Dehydroascorbate reductase
VVTU6270_at . 1.55 2.08 . 1.85 GSVIVT01011626001 Myrosinase precursor
VVTU687_at . 145.08 240.58 71.81 373.26 GSVIVT01022752001 Anthraniloyal-CoA: methanol anthraniloyal transferase
VVTU7379_at . 2 1.6 3.1 2.47 GSVIVT01029079001 Glutathione reductase
VVTU8069_at . . -3.45 . -2.58 GSVIVT01033574001 L-Galactono-1,4-lactone dehydrogenase
SECONDARY METABOLISM
VVTU13083_at . -15.92 -10.95 -7.51 -7.09 GSVIVT01006396001 Anthocyanidin reductase
VVTU13266_s_at -3.1 -5.11 -3.57 -4.5 -2.72 GSVIVT01009731001 Isoflavone reductase protein 4
VVTU13618_x_at 3.48 2.48 . 2.75 . GSVIVT01028812001 UDP-glucose: anthocyanidin 5,3-O-glucosyltransferase
VVTU13951_at . . 3.24 . 1.79 GSVIVT01022411001 Isoflavone reductase
VVTU17578_s_at . 12.13 14.82 5.19 29.13 GSVIVT01024419001 UDP-glucose:flavonoid 3-O-glucosyltransferase
VVTU20756_at -3.14 -3.56 -4.09 -2.73 -3.17 GSVIVT01023841001 Dihydroflavonol-4-reductase
VVTU22627_at . . . . 2.1 GSVIVT01000191001 CYP81E1 Isoflavone 2'-hydroxylase
VVTU39787_s_at . -2.43 . -2.3 4.3 GSVIVT01018781001 Flavonone- 3-hydroxylase
VVTU9453_at . . 7.92 1.87 4.75 GSVIVT01019691001 Quercetin 3-O-methyltransferase 1
VVTU9714_at 3.43 4.02 5.02 2.81 3.82 GSVIVT01021355001 Flavonol synthase
VVTU11849_s_at . 2.15 3.41 1.5 2.64 GSVIVT01026510001 Alcohol dehydrogenase 6
VVTU13316_s_at . . . -2.21 . GSVIVT01036331001 (-)-Germacrene D synthase
VVTU21725_at . 5.59 7.3 7.18 9.32 GSVIVT01026829001 (+)-Neomenthol dehydrogenase
VVTU2626_at 2.55 35.87 19.1 18.1 15.87 GSVIVT01008069001 Isopiperitenol dehydrogenase
VVTU27826_x_at . 2.5 2.18 1.55 2.01 GSVIVT01003150001 Cinnamyl alcohol dehydrogenase
VVTU33502_at 2.75 . -2.96 . -3.52 GSVIVT01032178001 Cinnamyl alcohol dehydrogenase
VVTU37595_s_at . 2.08 . 1.86 . GSVIVT01030474001 Hydroperoxide lyase (HPL1)
VVTU4754_at -1.64 -4.03 -6.42 -4.25 -7.87 GSVIVT01008854001 Caffeic acid methyltransferase
VVTU8254_at . 4.4 7.29 2.5 2.95 GSVIVT01036862001 9-cis-epoxycarotenoid dioxygenase
METABOLISM AND SIGNALING OF GROWTH REGULATORS
VVTU1335_at 1.65 -6.21 -7.81 -3.38 -6.13 GSVIVT01000176001 Indole-3-acetic acid-amido synthetase GH3.2
VVTU16083_at . . -2.96 . -2.18 GSVIVT01030905001 Auxin efflux carrier family
VVTU16124_at . . -2.05 -1.82 -2.87 GSVIVT01031663001 PIN1
VVTU1813_at -3.17 -12.35 -48.38 -4.69 -33.36 GSVIVT01017046001 IAA9
VVTU18738_s_at . 14.93 37.41 22.78 87.35 GSVIVT01038622001 Auxin-responsive SAUR29
VVTU2445_s_at -2.2 -13.15 -17.4 -6.43 -9.33 GSVIVT01015350001 Auxin-responsive protein IAA27
VVTU2614_s_at . 2.08 1.68 1.5 1.79 GSVIVT01033011001 Transport inhibitor response 1 protein
VVTU3361_at 3.34 9.44 9.88 6.46 9.06 GSVIVT01017158001 IAA19
VVTU35572_s_at 2.81 2.25 4.41 3.04 8.58 GSVIVT01020159001 IAA-amino acid hydrolase 1 (ILR1)
VVTU3560_at -1.83 . 2.93 . 3.86 GSVIVT01037892001 Indole-3-acetic acid-amido synthetase GH3.8
VVTU35909_s_at . -2.42 . -2.25 -1.69 GSVIVT01026429001 Auxin Efflux Carrier
VVTU38338_x_at -1.59 -11.61 -14.02 -9.85 -22.64 GSVIVT01024135001 Auxin-responsive SAUR31
VVTU7869_at -5.63 -6.03 -10.54 -6.2 -4.14 GSVIVT01010995001 Transport inhibitor response 1
VVTU12042_at 1.76 . . . . GSVIVT01005455001 1-Aminocyclopropane-1-carboxylate synthase
VVTU12870_s_at . . 1.83 . 2.14 GSVIVT01025105001 MAPK (MPK3)
VVTU13344_at . -1.68 -2.66 . -4.88 GSVIVT01006065001 1-Aminocyclopropane-1-carboxylate oxidase 1
VVTU1588_at . . 1.62 . 1.99 GSVIVT01038085001 Ethylene receptor 1 (ETR1)
VVTU18607_s_at 3.66 29.17 28.93 14.04 40.01 GSVIVT01035911001 Ethylene-responsive transcription factor ERF003
VVTU19389_s_at . . 1.73 . 2.05 GSVIVT01036213001 Ethylene receptor (EIN4)
VVTU2683_s_at . -1.8 . -2.23 . GSVIVT01035856001 EIN3-binding F-box protein 2
VVTU35437_at . -1.58 -5.17 2.26 2.62 . Ethylene-responsive transcription factor ERF105
VVTU5165_at . -2.11 -1.79 . -1.57 GSVIVT01008900001 1-Aminocyclopropane-1-carboxylate synthase
VVTU5909_at . 1.9 1.59 1.87 1.62 GSVIVT01011670001 1-Aminocyclopropane-1-carboxylate oxidase
VVTU8172_at . . 2.31 2.76 12.06 GSVIVT01004798001 Ethylene responsive element binding factor 1
VVTU8555_at . -3.58 -4.58 -2.09 -5.28 GSVIVT01037473001 Ethylene-insensitive 3 (EIN3)
VVTU11913_at -2.04 -5.96 -11.68 -3.88 -16.02 GSVIVT01018733001 Jasmonate O-methyltransferase
VVTU16057_at . 9.26 10.63 5.74 7.16 GSVIVT01009616001 Allene oxide synthase
VVTU1657_s_at -2.04 . -2.45 -2.41 -2.7 GSVIVT01005061001 Methyl jasmonate esterase
VVTU16654_at 1.58 2.35 1.62 1.89 1.77 GSVIVT01031706001 IMP dehydrogenase
VVTU17030_s_at . -11.17 -8.28 . -4.33 GSVIVT01025923001 12-Oxophytodienoate reductase 2
VVTU23697_at . 1.6 2.16 1.99 2.72 GSVIVT01016368001 Coronatine-insensitive protein 1
VVTU3032_at . . . . 1.67 GSVIVT01027057001 JAR1-like protein
VVTU34392_at 2.43 . . . . GSVIVT01013156001 MYC jasmonic acid 3
VVTU35149_at . -1.72 . -1.55 . GSVIVT01024198001 Enhanced disease susceptibility 5 EDS5
VVTU39811_s_at . 2.76 50.75 . 38.44 GSVIVT01021514001 Jasmonate ZIM domain-containing protein 8
VVTU4273_s_at -1.53 . -1.58 . -1.98 GSVIVT01008453001 Jasmonate ZIM domain-containing protein 3
VVTU7003_at -2.47 -12.82 -13.47 -6.21 -13.03 GSVIVT01036445001 Allene oxide cyclase
VVTU7560_at . . 2.04 1.65 2.99 GSVIVT01015181001 Regulatory protein NPR1 (Nonexpresser of PR genes 1)
VVTU1269_s_at . 1.52 . 1.56 . GSVIVT01020222001 Spermidine synthase
VVTU12839_at . 1.64 2.39 3.44 4.27 GSVIVT01024167001 Arginine decarboxylase (Fragment)
VVTU12964_s_at 1.88 . 1.81 1.8 2.66 . S-Adenosylmethionine decarboxylase proenzyme
VVTU37047_at . . 1.87 . 3.11 GSVIVT01007669001 Copper amine oxidase
VVTU5224_at . . 2.17 . 1.51 GSVIVT01028700001 Spermine synthase
VVTU5226_at . 2.19 1.76 1.69 2.42 GSVIVT01020812001 Amine oxidase
VVTU6472_at -2.27 2.07 . 1.86 2.07 GSVIVT01004079001 Copper amine oxidase
VVTU8738_s_at . 2.3 2.17 . . GSVIVT01033651001 S-Adenosylmethionine synthetase
VVTU12347_s_at . . . 2.03 . GSVIVT01009074001 SnRK2-8
VVTU19049_s_at . . 2.01 . 1.95 GSVIVT01037491001 UBP1 interacting protein 2a (UBA2a)
VVTU22232_at . -1.91 -2.11 . . GSVIVT01003554001 Snf1 protein kinase 2-3 akip ost1
VVTU28731_s_at 2.01 4.9 4.9 4.67 3.13 GSVIVT01015308001 ABI1 (ABA insensitive 1)
VVTU14956_at 2.22 1.89 1.75 1.8 1.55 GSVIVT01008164001 BIM1 (BES1-interacting Myc-like protein 1)
VVTU24849_at . -1.92 -1.91 -3.07 -4.02 GSVIVT01017237001 CYP734A7 castasterone 26-hydroxylase
VVTU4905_s_at . . -2.3 -2.41 -2.1 . Brassinosteroid-responsive ring-H2 (BRH1)
VVTU647_at . -12.51 -17.26 -3.26 -21.67 GSVIVT01036558001 Brassinosteroid-6-oxidase
VVTU20270_s_at -1.93 . 3.68 . 7.79 GSVIVT01033610001 ARR3 typeA
VVTU28950_s_at . -4.38 -11.11 -1.85 -3.95 GSVIVT01004944001 Cytokinin-repressed protein CR9
VVTU31519_s_at 3.4 . . 1.6 . GSVIVT01027443001 Pseudo-response regulator 9 (APRR9)
VVTU9094_s_at . -5.82 -7.62 -5.17 -14.3 GSVIVT01035468001 Cytokinin dehydrogenase 7
VVTU9297_at -2.85 -8.33 -6.37 -3.83 -3.2 GSVIVT01007835001 ARR6 typeA
VVTU9337_at 2.81 2.61 4.69 1.92 6.66 GSVIVT01035051001 ARR1 typeB
VVTU13918_at . 10.7 40.6 27.15 38.26 GSVIVT01031830001 Gibberellin 20 oxidase 2
VVTU15195_at . -1.59 4.64 . 2.89 GSVIVT01022014001 Gibberellin receptor GID1L1
VVTU1752_at 3.79 12.25 12.84 4.95 4.98 GSVIVT01011037001 Gibberellin receptor GID1L2
VVTU7332_at -2.92 -6.26 -6.69 -4.5 -7.87 GSVIVT01009099001 Gibberellin 20 oxidase 2
VVTU8591_at . -4.73 -4.46 -4.09 -5.78 GSVIVT01034945001 Gibberellin 2-oxidase
SIGNAL TRANSDUCTION
VVTU11835_at . 1.55 . 1.76 1.62 GSVIVT01018839001 MADS box transcription factor TM6 (TM6) APETALA3
VVTU17564_s_at . 8.95 11.56 4.78 18.34 GSVIVT01022664001 Myb VvMYBA3 [Vitis vinifera]
VVTU18199_s_at . . 1.62 1.76 1.85 GSVIVT01033067001 SEPALLATA3
VVTU2522_at . 1.56 2.63 . 3.24 GSVIVT01016175001 NAC domain-containing protein 78
VVTU27392_s_at . 3.53 4.76 2.16 3.94 . Scarecrow-like transcription factor 8 (SCL8)
VVTU3046_s_at . -6.64 -5.33 -2.63 -3.25 GSVIVT01027182001 MYBPA1 protein [Vitis vinifera]
VVTU3183_at . 2.05 . 1.54 . GSVIVT01024921001 Zinc finger (C3HC4-type RING finger)
VVTU3258_at -1.75 -126.42 -210.41 -28.95 -221.25 GSVIVT01037819001 LIM domain protein WLIM1
VVTU37071_at . . . . 2.06 GSVIVT01034155001 Scarecrow-like transcription factor 9 (SCL9)
VVTU40803_s_at 2.35 4.93 9.8 1.54 6.18 GSVIVT01034968001 WRKY DNA-binding protein 48
VVTU9543_at . 2.12 8.24 1.77 8.89 GSVIVT01022269001 Myb TKI1 (TSL-KINASE INTERACTING PROTEIN 1)
VVTU11578_at 1.6 12.25 4.66 2.82 1.77 GSVIVT01008070001 Receptor protein kinase
VVTU11917_at 2.55 1.53 . 2.18 . GSVIVT01019481001 BZip transcription factor G-BOX BINDING FACTOR 3
VVTU13369_at . 1.85 . 1.97 . GSVIVT01017690001 CBL-interacting protein kinase 1 (CIPK1)
VVTU2538_at . 1.68 . 1.83 1.5 GSVIVT01033306001 CALCIUM-DEPENDENT PROTEIN KINASE 32 CPK32
VVTU26057_at . 5.13 12.44 8.86 17.28 GSVIVT01016073001 STE20/SPS1 proline-alanine-rich protein kinase
VVTU27362_at 1.53 1.74 2.13 2.55 5.29 GSVIVT01034540001 bZIP transcription factor
VVTU3691_at . 3.73 . 1.6 . GSVIVT01010053001 Dof zinc finger protein DOF3.5
VVTU38545_at . 1.76 3.18 . 3.59 GSVIVT01008327001 Wall-associated kinase 4
VVTU5563_at . 2.6 3.52 2.09 2.53 GSVIVT01034897001 VirE2-interacting protein (VIP1)
VVTU8084_at . . 2.1 . 2.62 GSVIVT01036465001 Receptor protein kinase PERK1
VVTU9535_at . 2.78 4.54 3.85 4.3 GSVIVT01002864001 Receptor protein kinase PERK1
VVTU9861_at . 1.92 2.09 1.85 2.19 . Wall-associated kinase
LIGHT SIGNALING, CIRCADIAN CLOCK, EPIGENETIC FACTORS AND TRANSPOSONS
VVTU22197_at . . 1.95 1.52 1.79 GSVIVT01007965001 Timing of CAB expression 1 protein
VVTU2284_at . 1.76 4.05 . 3.36 GSVIVT01035337001 Early flowering 3
VVTU2454_s_at 2.4 . 1.77 3.04 2.15 GSVIVT01001405001 Gigantea protein
VVTU3515_s_at -1.65 -1.58 -1.74 -1.89 -2.32 GSVIVT01027456001 Myb CCA1 (Circadian Clock Associated 1)
VVTU40867_x_at . 2.19 . 2.47 2.44 GSVIVT01018044001 ELIP1 (Early Light-Inducible Protein)
VVTU5883_at . -1.59 . 2.17 2.7 GSVIVT01030081001 Phytochrome defective C (PHYC)
VVTU10989_at -2.75 1.77 . -2.1 1.55 GSVIVT01033746001 Retrotransposon protein, Ty1-copia subclass
VVTU11309_at . -1.72 -2.05 . . GSVIVT01032746001 Chromatin remodeling 42
VVTU12696_at . 2.96 2.08 2.38 1.99 GSVIVT01033971001 Transposon protein, CACTA, En/Spm sub-class
VVTU15783_at . . 2.05 . 2.48 . Retrotransposon protein, unclassified
VVTU2258_at 2.29 7.14 2.59 1.77 2.61 GSVIVT01010060001 DNA-3-methyladenine glycosidase I
VVTU32711_at . . . 2.38 . GSVIVT01017791001 Chromatin-remodeling protein 11
VVTU3690_at 1.53 2.15 3.56 2.05 3.61 GSVIVT01007671001 Histone deacetylase HDA6
VVTU38460_at . . . 2.68 2.01 GSVIVT01026952001 ATBRM/CHR2 (Arabidopsis thaliana brahma)
VVTU5491_at . . 2.27 . 2.08 . Transposase
VVTU5815_at . . 1.64 . 1.68 GSVIVT01020136001 Histone deacetylase complex, SIN3 component
VVTU6149_s_at . 2.09 -1.85 1.54 . GSVIVT01033869001 Transposon protein, Mutator sub-class
VVTU8524_at -1.64 -1.75 -2.04 . -1.57 . Cytosine methyltransferase (DRM2)
VVTU8618_at . . 2.12 . 2.34 GSVIVT01007544001 Histone acetyltransferase ELP3
VVTU87_at . . -2.41 . -1.74 GSVIVT01007870001 Histone deacetylase HDA05
  1. The selection considered a fold change ≥ 1.5 and FDR < 0.05 or fold change ≤ -.1.5 and FDR < 0.05).