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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 tag

Old locus tag

Gene product

Gene name

Localization

RPKM values

AB1.13

AB1.13 CAD

AB1.13 #49B

CitB#99

1

ANI_1_1206064

An07g09530

Pyruvate dehydrogenase E1 component subunit alpha

 

Mito

319.96

296.42

259.17

203.01

1

ANI_1_622094

An11g04550

Pyruvate dehydrogenase E1 component subunit alpha

 

Mito

18.21

16.89

23.09

27.18

1

ANI_1_12014

An01g00100

Pyruvate dehydrogenase E1 component subunit beta

 

Mito

204.86

158.00

136.09

125.15

2

ANI_1_274064

An07g02180

Pyruvate dehydrogenase E2 component

 

Mito

232.08

210.10

209.07

225.04

3

ANI_1_440184

An04g02090

Pyruvate carboxylase

pycA

Cyto

306.10

262.83

309.14

395.41

4

ANI_1_876084

An09g06680

Citrate synthase

citA

Mito

284.82

269.02

255.71

238.09

4

ANI_1_1474074

An08g10920

Citrate synthase

citB

Cyto

3.05

3.10

2.87

10838.65

4

ANI_1_2950014

An01g09940

Citrate synthase

citC

Cyto

463.10

370.88

438.08

96.44

5

ANI_1_470084

An09g03870

Aconitate hydratase

 

Mito

56.65

37.15

45.12

50.78

5

ANI_1_3018024

An02g11040

Aconitate hydratase

 

Cyto

0.04

0.04

0.00

0.00

5

ANI_1_1410074

An08g10530

Aconitate hydratase

acoA

Mito

326.50

284.14

426.11

486.32

5

ANI_1_1808144

An16g05760

Aconitate hydratase

 

Cyto

1.30

1.13

1.03

2.02

5

ANI_1_578044

An05g02230

Aconitate hydratase

 

Cyto

2.91

7.34

6.20

11.04

5

ANI_1_1802134

An15g07730

Aconitate hydratase

 

Cyto

28.75

43.79

46.11

27.81

6

ANI_1_906164

An18g06760

Isocitrate dehydrogenase (NAD+) subunit 1

 

Mito

189.71

209.47

167.93

190.84

6

ANI_1_798074

An08g05580

Isocitrate dehydrogenase [NAD] subunit 2

 

Mito

165.29

175.80

165.81

151.75

6

ANI_1_3136024

An02g12430

Isocitrate dehydrogenase [NADP]

 

Per

53.93

50.46

43.22

64.47

7

ANI_1_826184

An04g04750

2-Oxoglutarate dehydrogenase

 

Mito

115.53

103.38

107.27

88.87

8

ANI_1_1482094

An11g11280

Dihydrolipoyllysine-residue succinyltransferase

 

Mito

168.01

172.17

158.22

198.85

9

ANI_1_230154

An17g01670

Succinyl-CoA ligase [GDP-forming] subunit alpha

 

Mito

264.96

249.57

263.12

194.37

9

ANI_1_58124

An14g00310

Succinyl-CoA ligase [GDP-forming] subunit beta

 

Mito

277.86

256.78

249.99

212.81

10

ANI_1_1750024

An02g12770

Succinate dehydrogenase [ubiquinone] flavoprotein subunit

 

Mito

245.43

193.93

185.80

107.81

10

ANI_1_2706024

An02g07600

Succinate dehydrogenase [ubiquinone] flavoprotein subunit

 

Mito

0.47

0.35

0.79

0.95

11

ANI_1_952104

An12g07850

Fumarate hydratase

 

Mito

121.25

107.39

124.39

128.67

12

ANI_1_12134

An15g00070

Malate dehydrogenase

mdhA

Cyto

402.08

426.49

462.06

636.37

12

ANI_1_268064

An07g02160

Malate dehydrogenase

 

Mito

500.20

510.92

572.33

565.47

12

ANI_1_2230094

An11g07190

Malate dehydrogenase

 

Cyto

0.14

0.15

0.00

0.15

13

ANI_1_1256014

An01g09270

Isocitrate lyase

acuD

Per

86.38

61.77

65.20

42.26

13

ANI_1_1336134

An15g02980

Isocitrate lyase/malate synthase

 

Per

33.76

34.75

25.03

22.66

13

ANI_1_1826104

An12g05180

Isocitrate lyase/malate synthase

 

Cyto

0.00

0.09

0.00

0.48

14

ANI_1_320134

An15g01860

Malate synthase

 

Per

112.41

98.34

72.33

34.38

15

ANI_1_2114184

An04g08220

l-Lactate dehydrogenase

 

Mito/Cyto

0.09

0.58

0.51

0.63

16

ANI_1_1536084

An09g06220

PrpD-like protein

 

Cyto

0.30

0.23

0.36

0.43

16

ANI_1_2952014

An01g09950

PrpD-like protein

 

Cyto

552.06

456.98

383.21

165.41

16

ANI_1_2948014

An01g09930

PrpD-like protein

 

Mito

308.68

261.08

288.92

145.66

16

ANI_1_3352024

An02g14730

PrpD-like protein

 

Cyto

5.97

7.29

5.81

10.08

17

ANI_1_1432064

An07g00760

Itaconyl-CoA transferase

ictA

Mito

13.07

108.35

170.34

375.89

18

ANI_1_2118064

An07g09220

Itaconyl-CoA hydratase

ichA

Mito

7.32

60.28

146.61

232.65

19

ANI_1_1156014

An01g08610

Citramalate-CoA lyase

cclA

Mito

10.17

12.59

21.43

19.54

20

ANI_1_92174

An10g00820

Oxaloacetate acetylhydrolase

oahA

Cyto

1803.48

1122.69

323.44

9.81

20

ANI_1_2054064

An07g08390

Oxaloacetate acetylhydrolase

 

Mito

10.41

7.31

7.55

11.70

21

ANI_1_1678104

An12g03440

Glucose oxidase

 

Secreted

0.66

0.84

0.21

0.23

21

ANI_1_748094

An11g05580

Glucose oxidase

 

Secreted

1.01

1.80

1.15

0.19

21

ANI_1_1398064

An07g00450

Glucose oxidase

 

Secreted

1.47

0.67

0.38

1.45

21

ANI_1_1992014

An01g14740

Glucose oxidase

goxC

Secreted

1.25

0.70

0.56

0.20

22

ANI_1_106174

An10g00900

Gluconolactonase

 

Cyto

1.37

2.05

1.64

3.30

22

ANI_1_254044

An05g02030

Gluconolactonase

 

Cyto/Nucleus

1.75

1.79

1.91

2.98

22

ANI_1_1902144

An16g06620

Gluconolactonase

 

Secreted

0.00

0.00

0.00

0.00

23

ANI_1_928084

An09g00170

2-Isopropylmalate synthase

cimA

Cyto

362.80

298.38

108.92

23.52

24

ANI_1_440024

An02g03250

Isopropylmalate isomerase

 

Cyto

135.20

57.70

45.96

96.62

  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