Development of 11 microsatellite markers in Pinus parviflora by the dual-suppression technique and next-generation sequencing

Published Date
August 2016, Volume 21, Issue 4, pp 193–196

Short Communication

First Online: 

09 June 2016

DOI: 10.1007/s10310-016-0528-3

Cite this article as: 

Bekku, Y.S., Kurokochi, H., Matsuki, Y. et al. J For Res (2016) 21: 193. doi:10.1007/s10310-016-0528-3

Author

• iko Sakata BekkuEmail author
• Hiroyuki Kurokochi
• Yu Matsuki
• Engkong Tan
• Shuichi Asakawa
• Satoshi Imura
• Chunlan Lian

Abstract

Pinus parviflora Sieb. et Zucc. var. parviflora is a coniferous tree species distributed in mountainous areas of temperate zones from southern Tohoku to the Kyushu area in Japan. Some P. parviflora populations have become small and endangered due to massive death resulting from pine wilt disease, scab canker, and presumably climate change. We developed 11 microsatellite markers for P. parviflora by the dual-suppression technique and next-generation sequencing using 32 individuals of P. parviflora collected from Aokigahara at the foot of Mt. Fuji. The number of alleles for each locus ranged from two to 10. The averages of observed and expected heterozygosities were 0.61 and 0.59, respectively. These markers will become powerful tools for assessing genetic diversity, genetic connectivity, and genetic structure in P. parviflora populations, which will facilitate our understanding and conservation of P. parviflora.

References

1. Boys J, Cherry M, Dayanandan S (2005) Microsatellite analysis reveals genetically distinct populations of red pine (Pinus resinosa, Pinaceae). Am J Bot 92:833–841CrossRefPubMedGoogle Scholar
2. Excoffier L, Laval G, Schneider S (2005) Arlequin ver. 3.0: An integrated software package for population genetics data analysis. Evolut Bioinform Online 1:47–50Google Scholar
3. Islam MS, Lian C, Kameyama N, Wu B (2004) Development of microsatellite markers in Rhizophora stylosa using a dual-suppression-polymerase chain reaction technique. Mol Ecol Notes 4:110–112CrossRefGoogle Scholar
4. Iwasaki T, Sase T, Takeda S, Ohsawa AT, Ozaki K, Tani N, Ikeda H, Suzuki M, Endo R, Tohei K, Watano Y (2013) Extensive selfing in an endangered population of Pinus parviflora var. parviflora (Pinaceae) in the Boso Hills, Japan. Tree Genet Genomes 9:693–705. doi:10.1007/s11295-012-0585-5CrossRefGoogle Scholar
5. Kawano KM (2003) Isolation of polymorphic microsatellite markers in the great tit (Parus major minor). Mol Ecol Notes 3:314–315CrossRefGoogle Scholar
6. Kurokochi H, Tan E, Asakawa S, Sukartiningsih Saito Y, Ide Y (2014) Development of 16 microsatellite markers in Eusideroxylon zwageri by next-generation sequencing. Conserv Genet Resour 6:593–595. doi:10.1007/s12686-014-0148-1CrossRefGoogle Scholar
7. Kurokochi H, Tan E, Asakawa S, Lian C (2015) Development of 18 microsatellite markers in Pieris japonica, a poisonous tree insulated from the browsing pressure of herbivores, using a next-generation sequencer. J For Res 20:244–247. doi:10.1007/s10310-014-0456-zCrossRefGoogle Scholar
8. Lian C, Hogetsu T (2002) Development of microsatellite markers in black locust (Robinia pseudoacacia) using a dual-suppression-PCR technique. Mol Ecol Notes 2:211–213Google Scholar
9. Lian C, Hogetsu T (2004) A protocol for efficient development of microsatellite markers. J Jpn For Soc 86:191–198 (in Japanese with English summary)
10. Nagai S, Lian C, Hamaguchi M, Matsuyama Y, Itakura S, Hogetsu T (2004) Development of microsatellite markers in the toxic dinoflagellate Alexandrium tamarense (Dinophyceae). Mol Ecol Notes 4:83–85CrossRefGoogle Scholar
11. Ohwi J (1978) Flora of Japan. Tokyo, Shibundo (in Japanese)Google Scholar
12. Sato M, Kurokochi H, Tan E, Asakawa S, Honda K, Bolisay KO, Nakamura Y, Lian C, Fortes MD, Nakaoka M (2014) Fifteen novel microsatellite markers for two Amphiprion species (Amphiprion frenatus and Amphiprion perideraion) and cross-species amplification. Conserv Genet Res 6:685–688CrossRefGoogle Scholar
13. Tani N, Mayuyama K, Tomaru N, Uchida K, Araki M, Tumura Y, Yoshimaru H, Ohba K (2003) Genetic diversity of nuclear and mitochondrial genomes in Pinus parviflora Sieb. & Zucc. (Pinaceae) populations. Heredity 91:510–518CrossRefPubMedGoogle Scholar
14. Wu B, Lian C, Hogetsu T (2002) Development of microsatellite markers in white birch (Betula platyphylla var. japonica). Mol Ecol Notes 2:413–415CrossRefGoogle Scholar
15. Yagashira K (1964) Dendrology-Coniferae Illustrated. Asakura Shoten, Tokyo (in Japanese)Google Scholar
16. Zhou Z, Miwa M, Hogetsu T (1999) Analysis of genetic structure of Suillus grevilleipopulation in a Larix kaempferi stand by polymorphism of inter-simple sequence repeat (ISSR). New Phytol 144:55–63CrossRefGoogle Scholar

For further details log on website :
http://link.springer.com/article/10.1007/s10310-016-0528-3