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Table 2 CNG methylation changes within transposable elements

From: Chromatin and siRNA pathways cooperate to maintain DNA methylation of small transposable elements in Arabidopsis

Mutant

Total targets

Transposon targets*

p value

Random-PCR array

   

All loci

597

12

 

cmt3

5

2

0.01

kyp

4

3

<0.0001

ago4

1

0

1

drm1/2

2

0

1

drm1/2 cmt3

7

3

0.001

Gene-oligo array

   

All unambiguous loci

6,950

907 (13%)

 

cmt3 targets

164

104 (63%)

<0.0001

kyp targets

38

26 (68%)

<0.0001

ago4 targets

0

0

-

drm1/2 targets

6

4 (67%)

0.005

drm1/2 cmt3 targets

103

67 (65%)

<0.0001

  1. *Total number of possible transposable element hits among the 597 loci on the random-PCR array or among the 26,090 loci on the gene-oligo array. Using Fisher's exact test. All numbers represent only those loci for which the MspI cut site responsible for differential fractionation could be unambiguously determined.