Plant Cell Reports

, Volume 23, Issue 3, pp 144–147

Amplification of plant genomic DNA by Phi29 DNA polymerase for use in physical mapping of the hypermethylated genomic region

Genetics and Genomics

DOI: 10.1007/s00299-004-0806-y

Cite this article as:
Adachi, E., Shimamura, K., Wakamatsu, S. et al. Plant Cell Rep (2004) 23: 144. doi:10.1007/s00299-004-0806-y


Plant genomes contain a heavily methylated region in which cytosines are methylated in both the symmetrical and asymmetrical sequences. The physical mapping of such a hypermethylated region is difficult because many restriction enzymes are sensitive to methylated cytosine residues in their recognition sites. The Phi29 DNA polymerase provides an efficient and representative amplification of the genomic DNA that is methylation-free. Using this amplified genomic DNA, we were able to show that a heavily methylated genomic DNA region becomes amenable to physical mapping with any restriction enzymes. This protocol will be especially useful for analysis of the heavily methylated region of plant genomes.


DNA methylationPhi29 DNA polymerasePhysical mappingRolling circle amplificationTransgene-induced gene silencing



Linoleic acid


α-Linolenic acid


Cauliflower mosaic virus


Post-transcriptional gene silencing


Rolling circle amplification


Transcriptional gene silencing


Wild type


Refers to the position of the double bond from the methyl end of a fatty acid

Copyright information

© Springer-Verlag 2004

Authors and Affiliations

  • E. Adachi
    • 1
  • K. Shimamura
    • 1
  • S. Wakamatsu
    • 2
  • H. Kodama
    • 1
  1. 1.Department of Bioproduction Science, Faculty of HorticultureChiba UniversityChibaJapan
  2. 2.Department of Biology, Faculty of ScienceKyushu UniversityFukuokaJapan