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Table 1 Frequency, effect on cleavage and expected MSAP profile of ten different methylated forms of CCGG site

From: How to interpret Methylation Sensitive Amplified Polymorphism (MSAP) profiles?

Site C C G G 3CmC G G CmC G G CmC G G CmC G G mC C G G mC C G G mC C G G mCmC G G mCmC G G
  G G C C G G C C G GmC C G GmCmC G G CmC G G C C G G CmC G GmCmC G G C C G GmCmC
1Frequency Low Low High High 9Xlow Xlow Xlow Xlow Xlow High
MspI 4+ + + - - -,n - - -,n -
HpaII + 6-,8n - - - -,8N - - -,n -
2MH pattern 5(+,+) (+, -) (+, -) 7(-, -) (-, -) (-, -) (-, -) (-, -) (-, -) (-, -)
  1. 1Frequency of theoretical methylated forms is estimated for plant genomes [16, 37].
  2. 2MSAP profile pattern of a fragment with the site after digestion with MspI (M) and HpaII (H).
  3. 3(mC) represents 5-methylcytosine residue.
  4. 4(+) sequence is cut.
  5. 5(+) a band is present.
  6. 6(-) sequence is not cut.
  7. 7(-) a band is absent.
  8. 8n and N denote negligible and slow nicking of non-methylated strand, respectively.
  9. 9Xlow denotes extremely low.
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