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Table 2 Summary of EST, RACE, MPSS, and microarray expression analyses of NBS-LRR-encoding and related genes

From: Global expression analysis of nucleotide binding site-leucine rich repeat-encoding and related genes in Arabidopsis

Predicted Protein Domains a

Code

# based on prior annotation

# based on full manual annotation

ESTs (# expressed/# studied) 2002

ESTs (# expressed/#studied) 2006

RACE (# expressed/# studied)b

MPSS (# expressed/# studied)

Microarray (#P or M/# studied)c

# detected by both MPSS and microarray

CC-NBS-LRR

CNL

48

51

28/49

36/51

26/35

46/49

32/47

31

NBSCC-LRR

NL

2

4

2/4

3/4

1/1

3/4

2/3

2

TIR-NBS-LRR

TNL

82

83

46/83

56/83

38/50

79/83

50/80

50

NBSTIR-LRR

NL

2

2

0/2

0/2

0/1

1/2

0/2

0

TIR-NBS-LRR-X

TNLX

5

5

3/5

4/5

4/5

5/5

3/5

3

TIR-NBS-TIR-NBS-LRR

TNTNL

2

2

2/2

2/2

2/2

2/2

1/2

1

TIR-TIR-NBS-LRR

TTNL

0

2

2/2

2/2

2/2

2/2

2/2

2

Total with LRRs

 

141

149

      

TIR-NBS

TN

14

21

9/15

10/15

5/9

13/15

10/15

10

TIR-X

TX

23

30

      

X-TIR-NBS-X

XTNX

0

2

2/2

2/2

 

2/2

1/2

1

CC-NBS

CN

4

4

3/4

3/4

2/2

4/4

1/2

1

CC-NBS-X

CNX

1

1

1/1

1/1

1/1

1/1

1/1

1

CC (related to CNL)

C

0

1

      

NBSCC

N

1

1

0/1

1/1

0/1

1/1

1/1

1

Total without LRRs

 

43

58

      

Total

  

207

98/170

120/172

81/109

159/170

104/162

103

  1. a "CC" and "TIR" subscript indicates motifs predictive of a CC or TIR domain N-terminal to the NBS. The first four columns are from [7].
  2. b NBS-LRR-encoding and related genes for which RACE-PCR products were detected for either 5' or 3'end, or both.
  3. c Number called as present (P) or marginal (M) in one of the three control Col-0 samples collected 4 hours post treatment with 0.02% silwet (experiment described in [79]; additional file 1). ATH1 array was used for transcript profiling.
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BMC Plant Biology

ISSN: 1471-2229

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