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Development of 14 EST-SSRs for Betula maximowicziana and their applicability to related species

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Abstract

Simple sequence repeats (SSRs) markers were developed for Betula maximowicziana using 2698 expressed sequence tags (ESTs) from the NCBI database. Out of 112 designed primer pairs, 54 showed clear PCR amplification and 14 of these revealed polymorphism in eight individuals sampled across the species’ range. The number of alleles detected and the expected heterozygosity ranged from 1 to 3 and 0.000 to 0.570, respectively, when these 14 loci were examined in 49 individuals from a single population. In the cross species transferability test, eight of the 14 loci were also polymorphic in all four of the diploid, tetraploid and hexaploid Betula species examined. These results showed high transferability of the developed EST-SSRs and that these markers are likely to be useful in studies of the population genetics of species in the genus Betula.

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References

  • Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410

    PubMed  CAS  Google Scholar 

  • Bouck A, Vision T (2007) The molecular ecologist’s guide to expressed sequence tags. Mol Ecol 16:907–924

    Article  PubMed  CAS  Google Scholar 

  • Ellis JR, Burke JM (2007) EST-SSRs as resource for population genetic analysis. Heredity 99:125–132

    Article  PubMed  CAS  Google Scholar 

  • Fukuoka H, Nunome T, Minamiyama Y, Kono I, Namiki N, Kojima A (2005) Read2Marker: a data processing tool for microsatellite marker development from a large data set. Biotechniques 39:472, 474, 476

    Google Scholar 

  • Goudet J (2001) FSTAT; a program to estimate and test gene diversities and fixation indices version 2.9.3. http://www.unil.ch/izea/softwares/fstat.html

  • Iseli C, Jongeneel CV, Bucher P (1999) ESTScan: a program for detecting, evaluating, and reconstructing potential coding regions in EST sequences. Proc Int Conf Intell Syst Mol Biol: 138–148

  • Kondo H, Tahira T, Hayashi H, Oshima K, Hayashi K (2000) Microsatellite genotyping of post-PCR fluorescently labeled markers. Biotechniques 29:868–872

    PubMed  CAS  Google Scholar 

  • Lottaz C, Iseli C, Jongeneel CV, Bucher P (2003) Modeling sequencing errors by combining Hidden Markov models. Bioinformatics 19:ii103–ii112

    Article  PubMed  Google Scholar 

  • Watanabe S (1989) Silvical characteristics of Betula maximowicziana. For Tree Breeding Hokkaido 32:15–18 (in Japanese)

    Google Scholar 

Download references

Acknowledgements

We are grateful to Associate Professor Susumu Goto at The University of Tokyo, who provided plant materials of B. pendula and B. papyrifera collected from the arboretum garden of the University forest in Hokkaido, The University of Tokyo. This research was supported by a grant for Research on Genetic Guideline for Restoration Programs using Genetic Diversity Information from the Ministry of Environment, Japan.

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Authors and Affiliations

  1. Tree Genetics Laboratory, Department of Forest Genetics, Forestry and Forest Products Research Institute (FFPRI), 1 Matsunosato, Tsukuba, Ibaraki, 305-8687, Japan

    Yoshiaki Tsuda, Saneyoshi Ueno & Yoshihiko Tsumura

  2. Laboratory of Forest Ecosystem Studies, Department of Ecosystem Studies, Graduate School of Agriculture and Life sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo, Tokyo, 113-8657, Japan

    Yuji Ide

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  1. Yoshiaki Tsuda
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  2. Saneyoshi Ueno
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  3. Yuji Ide
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  4. Yoshihiko Tsumura
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Correspondence to Yoshiaki Tsuda.

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Tsuda, Y., Ueno, S., Ide, Y. et al. Development of 14 EST-SSRs for Betula maximowicziana and their applicability to related species. Conserv Genet 10, 661–664 (2009). https://doi.org/10.1007/s10592-008-9608-z

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  • DOI: https://doi.org/10.1007/s10592-008-9608-z

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