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Table 2 Transcriptome data of genes involved in the biosynthesis of industrially relevant organic acids

From: Identification of novel citramalate biosynthesis pathways in Aspergillus niger

 New locus tagOld locus tagGene productGene nameLocalizationRPKM values
AB1.13AB1.13 CADAB1.13 #49BCitB#99
1ANI_1_1206064An07g09530Pyruvate dehydrogenase E1 component subunit alpha Mito319.96296.42259.17203.01
1ANI_1_622094An11g04550Pyruvate dehydrogenase E1 component subunit alpha Mito18.2116.8923.0927.18
1ANI_1_12014An01g00100Pyruvate dehydrogenase E1 component subunit beta Mito204.86158.00136.09125.15
2ANI_1_274064An07g02180Pyruvate dehydrogenase E2 component Mito232.08210.10209.07225.04
3ANI_1_440184An04g02090Pyruvate carboxylasepycACyto306.10262.83309.14395.41
4ANI_1_876084An09g06680Citrate synthasecitAMito284.82269.02255.71238.09
4ANI_1_1474074An08g10920Citrate synthasecitBCyto3.053.102.8710838.65
4ANI_1_2950014An01g09940Citrate synthasecitCCyto463.10370.88438.0896.44
5ANI_1_470084An09g03870Aconitate hydratase Mito56.6537.1545.1250.78
5ANI_1_3018024An02g11040Aconitate hydratase Cyto0.040.040.000.00
5ANI_1_1410074An08g10530Aconitate hydrataseacoAMito326.50284.14426.11486.32
5ANI_1_1808144An16g05760Aconitate hydratase Cyto1.301.131.032.02
5ANI_1_578044An05g02230Aconitate hydratase Cyto2.917.346.2011.04
5ANI_1_1802134An15g07730Aconitate hydratase Cyto28.7543.7946.1127.81
6ANI_1_906164An18g06760Isocitrate dehydrogenase (NAD+) subunit 1 Mito189.71209.47167.93190.84
6ANI_1_798074An08g05580Isocitrate dehydrogenase [NAD] subunit 2 Mito165.29175.80165.81151.75
6ANI_1_3136024An02g12430Isocitrate dehydrogenase [NADP] Per53.9350.4643.2264.47
7ANI_1_826184An04g047502-Oxoglutarate dehydrogenase Mito115.53103.38107.2788.87
8ANI_1_1482094An11g11280Dihydrolipoyllysine-residue succinyltransferase Mito168.01172.17158.22198.85
9ANI_1_230154An17g01670Succinyl-CoA ligase [GDP-forming] subunit alpha Mito264.96249.57263.12194.37
9ANI_1_58124An14g00310Succinyl-CoA ligase [GDP-forming] subunit beta Mito277.86256.78249.99212.81
10ANI_1_1750024An02g12770Succinate dehydrogenase [ubiquinone] flavoprotein subunit Mito245.43193.93185.80107.81
10ANI_1_2706024An02g07600Succinate dehydrogenase [ubiquinone] flavoprotein subunit Mito0.470.350.790.95
11ANI_1_952104An12g07850Fumarate hydratase Mito121.25107.39124.39128.67
12ANI_1_12134An15g00070Malate dehydrogenasemdhACyto402.08426.49462.06636.37
12ANI_1_268064An07g02160Malate dehydrogenase Mito500.20510.92572.33565.47
12ANI_1_2230094An11g07190Malate dehydrogenase Cyto0.140.150.000.15
13ANI_1_1256014An01g09270Isocitrate lyaseacuDPer86.3861.7765.2042.26
13ANI_1_1336134An15g02980Isocitrate lyase/malate synthase Per33.7634.7525.0322.66
13ANI_1_1826104An12g05180Isocitrate lyase/malate synthase Cyto0.000.090.000.48
14ANI_1_320134An15g01860Malate synthase Per112.4198.3472.3334.38
15ANI_1_2114184An04g08220l-Lactate dehydrogenase Mito/Cyto0.090.580.510.63
16ANI_1_1536084An09g06220PrpD-like protein Cyto0.300.230.360.43
16ANI_1_2952014An01g09950PrpD-like protein Cyto552.06456.98383.21165.41
16ANI_1_2948014An01g09930PrpD-like protein Mito308.68261.08288.92145.66
16ANI_1_3352024An02g14730PrpD-like protein Cyto5.977.295.8110.08
17ANI_1_1432064An07g00760Itaconyl-CoA transferaseictAMito13.07108.35170.34375.89
18ANI_1_2118064An07g09220Itaconyl-CoA hydrataseichAMito7.3260.28146.61232.65
19ANI_1_1156014An01g08610Citramalate-CoA lyasecclAMito10.1712.5921.4319.54
20ANI_1_92174An10g00820Oxaloacetate acetylhydrolaseoahACyto1803.481122.69323.449.81
20ANI_1_2054064An07g08390Oxaloacetate acetylhydrolase Mito10.417.317.5511.70
21ANI_1_1678104An12g03440Glucose oxidase Secreted0.660.840.210.23
21ANI_1_748094An11g05580Glucose oxidase Secreted1.011.801.150.19
21ANI_1_1398064An07g00450Glucose oxidase Secreted1.470.670.381.45
21ANI_1_1992014An01g14740Glucose oxidasegoxCSecreted1.250.700.560.20
22ANI_1_106174An10g00900Gluconolactonase Cyto1.372.051.643.30
22ANI_1_254044An05g02030Gluconolactonase Cyto/Nucleus1.751.791.912.98
22ANI_1_1902144An16g06620Gluconolactonase Secreted0.000.000.000.00
23ANI_1_928084An09g001702-Isopropylmalate synthasecimACyto362.80298.38108.9223.52
24ANI_1_440024An02g03250Isopropylmalate isomerase Cyto135.2057.7045.9696.62
  1. RPKM values, taken from Hossain et al. [10] were calculated according to the method presented by Mortazavi et al. [28] in order to normalize data for gene length. Protein localization was predicted using the WoLF PSORT algorithm (https://wolfpsort.hgc.jp/). For those cases where the gene listed has been studied in more detail the corresponding gene name was indicated