Previously,
Panax ginseng var. Mimaki C.A. Meyer had been shown to accumulate genetic mutations during long-term propagation of a callus culture over a period of 20 yr. In this study, we analyzed the mutation types and frequency in a 2-yr-old
P.
ginseng callus culture and compared it with the 20-yr-old callus culture, and leaves of cultivated plants. We analyzed the sequence variability between the
Actin genes, which are a family of housekeeping genes;
phenylalanine ammonia-
lyase (
PAL) and
dammarenediol synthase (
DDS), which actively participate in the biosynthesis of ginsenosides; and the
somatic embryogenesis receptor kinases (
SERK), which control plant development. The frequency of point mutations in the
Actin,
PAL,
DDS, and
SERK genes in the 2-yr-old
P.
ginseng callus culture was markedly higher than in cultivated plants, but lower than in the 20-yr-old callus culture. Most of the mutations in the 2-yr-old
P.
ginseng calli were A?G and T?C transitions, as in the 20-yr-old calli and intact
P.
ginseng plants. The number of nonsynonymous mutations was higher in the 2- and 20-yr-old callus cultures than the number of nonsynonymous mutations in cultivated
P.
ginseng. Interestingly, the total number of N→G or N→C substitutions in the analyzed genes was 1.6 times higher than the total number of N→A or N→T substitutions. Using a methylation-sensitive DNA fragmentation assay, we showed the level of methylcytosine to be higher in the DNA of the 20-yr-old
P.
ginseng calli that than in the DNA of the 2-yr-old cultures.
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