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Table 4 Regulation of genes involved in monosaccharide transport and introduction into metabolic pathways

From: Genomic and transcriptomic analysis of carbohydrate utilization by Paenibacillus sp. JDR-2: systems for bioprocessing plant polysaccharides

LTa

Protein productb

Fold changec

Linear RPKM Valuesd

G/YE

X/YE

A/YE

G

X

A

YE

Monosaccharide metabolism

 0170

glucokinase

NS

NS

NS

119.2

140.7

131.2

128.5

 2502

arabinose isomerase

0.5

0.6

23.8

81.6

96.3

4117.9

173.0

 4209

ribulose kinase

0.6

NS

17.1

13.0

20.9

369.6

21.7

 5159

xylose isomerase

0.4

99.9

0.5

21.3

6046.1

30.9

60.5

 5158

xylulose kinase

0.4

62.9

19.0

16.9

2951.2

19.0

46.9

Monosaccharide transporters

 0472

BPD transport system IMP

18.3

6.4

16.8

22

7.7

20.2

1.2

 0473

BPD transport system IMP

18.9

6.0

13.9

28.2

9.0

20.8

1.5

 0474

extracellular SBP

9.6

3.1

5.6

92.8

30.4

54.2

9.7

 0661

extracellular SBP

0.4*

NS

1917.4

1.4

4.8

7460.5

3.9

 0662

NBD

NS

NS

1267.6

1.0

2.1

3374.4

2.7

 0663

BPD transport system IMP

0.2

0.6

1301.2

0.8

2.0

4343.5

3.3

 0977

extracellular SBP

16.8

190.6

8.3

154.2

1747.9

76.2

9.2

 0978

NBD

15.2

102.1

5.9

80.2

538.0

30.9

5.3

 0979

BPD transport system IMP

17.6

111.9

6.4

105.9

671.5

38.7

6.0

 1340

symporter

39.1

162.0

14.0

120.5

499.9

43.4

3.1

 2400

extracellular SBP

4.8

3.7

3.8

244.9

188.0

193.4

51.1

 2401

NBD

4.3

1.9

2.3

93.8

41.5

49.4

21.9

 2402

BPD transport system IMP

4.8

3.3

3.5

116.1

79.2

84.0

24.0

  1. aLT, locus tag annotated as Pjdr2_#### abbreviated to consist only of the numeric portion, ####
  2. bSBP, solute binding protein; IMP, inner membrane protein; BPD, binding protein dependent; NBD, nucleotide binding domain
  3. cTranscript levels of candidate genes that were expressed 2-fold greater (underlined) and those that were expressed 4-fold greater (bold) than the yeast extract without carbohydrate are indicated. The growth substrates are shown as follows: G, glucose; X, xylose; A, arabinose; YE, yeast extract. Significance of fold change data is judged by having a p-value no more than 0.01. Data with p-values between 0.01 and 0.05 are denoted with an asterisk, and those with p-values greater than 0.05 are designated as not significant (NS)
  4. dRPKM values are defined as Reads Per Kilobase per Million reads sequenced