Characterization of EST–SSRs from Cryptomeria japonica
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Simple sequence repeat (SSR) markers were developed for Cryptomeria japonica from 55,530 expressed sequence tags (ESTs). Of the 219 designed primer pairs, 176 showed clear PCR amplification products and 27 of these revealed polymorphisms in six individuals sampled at sites across Japan. When these 27 loci were examined in 48 individuals from a single population, the number of alleles and the Polymorphism Information Content (PIC) ranged from 2 to 17 and 0.09 to 0.86, respectively. The average PIC value obtained from EST–SSR markers (0.40) was lower than that from genomic SSR markers (0.67 and 0.62). We observed a significant departure from Hardy–Weinberg equilibrium in five of the 27 loci. These EST–SSR markers will be useful for the evaluation of genetic variation in C. japonica and for genetic mapping.
KeywordsCryptomeria japonica EST–SSR
- Eillis JR, Burke JM (2007) EST-SSRs as a resource for population genetic analyses. Heredity 99:125–132Google Scholar
- Goudet J (1995) Fstat version 1.2: a computer program to calculate F-statistics. J Hered 86:485–486. http://www2.unil.ch/popgen/softwares/fstat.htm
- Tani N, Takahashi T, Iwata H, Mukai Y, Ujino-Ihara T, Matsumoto A, Yoshimura K, Yoshimaru H, Murai M, Nagasaka K, Tsumura Y (2003) A consensus linkage map for Sugi (Cryptomeria japonica) from two pedigrees, based on microsatellites and expressed sequence tags. Genetics 165:1551–1568PubMedGoogle Scholar