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Table 2 ICEclc core gene transcript abundance in P. knackmussii B13 cultures grown with 3-chlorobenzoate as a function of growth phase as quantified by macroblot hybridization.

From: Transcriptome analysis of the mobile genome ICEclc in Pseudomonas knackmussii B13

  

expo

e-stat

12 h

24 h

36 h

48 h

72 h

Probes

Probe number

mRNAa

Std Devb

mRNA

td Dev

mRNA

Std Dev

mRNA

Std Dev

mRNA

Std Dev

mRNA

Std Dev

mRNA

Std Dev

   

(%)

 

(%)

 

(%)

 

(%)

 

(%)

 

(%)

 

(%)

intB13

1

4.5

11.2

4.3

12.9

4.6

15.6

5.1

28.5

3.2

5.3

3.4

0.9

3.5

14.6

ORF52710

2

21.3

46.5

29.6

8.7

17.8

3.4

9.3

39.9

7.8

53.8

12.6

18.6

6.4

41.8

ORF53587

3

4.2

30.2

2.9

25.9

2.6

27.1

1.7

37.3

3.4

11.9

3.1

20.4

1.4

12.2

ORF59888

4

18.6

33

20

7.5

14.7

18.9

8.4

32.3

16.8

23.9

22.4

9.3

14.6

43.4

ORF65513

5

17.3

19.4

17.1

0.8

16.7

10.3

13.4

9.9

11.8

9.5

13.5

2.4

12.4

10.7

ORF67800

6

16.6

2.7

12.4

26.1

10.1

11.6

8

12.9

14.6

4.3

12.6

10.7

8.5

16.6

ORF68987c

7

2.1

4.3

1.7

8.2

1.2

30.1

0.8

12.9

1.7

6.5

1.5

4.3

1

22.3

ORF73029

8

2.5

20.8

1.4

15

2.1

18.5

2.6

15

2

14.6

2.2

2.3

1.5

10.4

ORF75419

9

7.5

18.1

4.5

7.6

8.7

0.4

11.1

32

14

27.1

20.5

9.4

28

31.6

ORF81655

10

10.2

30.1

6.4

35.8

104

4.8

168

24.5

113

24.3

191

14.5

177

10.9

ORF83350

11

3.3

18.9

1.7

7

0.9

17.8

0.9

26.1

0.9

3.5

0.9

5

0.9

5.6

ORF84835

12

0.4

14.4

0.3

38.3

7.4

53.2

9.5

7.7

20.6

28.9

28.1

29.5

29.8

22.8

ORF87986

13

5

1

4.6

39.3

41.1

16.1

64.5

7.2

41.3

12.9

54.9

22.1

100

11.5

ORF89746

14

12.9

34.1

12.9

10.4

4.9

12

2.2

41.2

1.3

44.9

3.4

28.9

3.2

19.8

ORF91884

15

3.3

11.7

2.1

25.6

2.4

14.7

3

32.4

3.1

14

3.2

11.3

4.1

5.2

inrR

16

8.3

11.9

6.4

10.5

7.4

13.1

4.5

11.6

5.1

18.8

7.2

0.6

5.9

12

ORF96323

17

3

13

1.7

13.3

1.1

5.5

1

2.8

1.3

12.8

1.1

14.4

1.2

13.2

ORF98147

18

1.1

10.7

0.5

14.2

0.4

4.6

0.5

5.9

0.5

8.3

0.4

2.4

0.4

0.9

ORF100033

19

30.6

4

23

4.3

26

8.7

12.3

16.7

19.6

14.3

20.4

22.4

21.5

16.3

ORF100952

20

1.4

13.2

3.7

31.2

2.8

4.9

1.8

3.1

1.7

58.5

3.5

30.8

6.7

13.4

ORF101284

21

3.7

18.9

4.5

10.1

2.1

5.8

1

23.1

1.9

9.7

1.5

11

1.3

11.5

  1. a) mRNA is the average calculated amount of mRNA copies × 108 per μg of total RNA from triplicate determinations. This value corresponds approximately to the calculated number of mRNA of this transcript per cell. Expo, exponential phase; e-stat, early stationary phase (6 h).
  2. b) standard deviation from the average mRNA, expressed in percentage.
  3. c) ORFs surrounded by a common border are on the same transcript.