Development and characterization of 15 polymorphic microsatellite loci in Sonneratia alba (Lythraceae) using next-genera
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TECHNICAL NOTE
Development and characterization of 15 polymorphic microsatellite loci in Sonneratia alba (Lythraceae) using next-generation sequencing Yoshimi Shinmura • Alison K. S. Wee • Koji Takayama • Takeshi Asakawa • Orlex Baylen Yllano • Severino G. Salmo III • Erwin Riyanto Ardli • Nguyen Xuan Tung • Norhaslinda Binti Malekal • Onrizal • Sankararamasubramanian Halasya Meenakshisundaram • Sarawood Sungkaew M. Nazre Saleh • Bayu Adjie • Khin Khin Soe • Emiko Oguri • Noriaki Murakami • Yasuyuki Watano • Shigeyuki Baba • Edward L. Webb • Tadashi Kajita
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Received: 31 March 2012 / Accepted: 3 April 2012 / Published online: 4 May 2012 Ó Springer Science+Business Media B.V. 2012
Abstract A set of 15 new microsatellite loci was developed and characterized for the widespread mangrove tree species Sonneratia alba (Lythraceae) by using next-generation sequencing. Forty-eight S. alba samples from seven populations in the Indo-West Pacific region were genotyped; all loci were polymorphic, with the number of alleles ranging from three to eight. The mean observed heterozygosity per locus was 0.21 for a population from Sabah, Malaysia. No null allele or significant linkage disequilibrium was detected, indicating the robustness of the markers. Only one locus (SA103) showed deviation from
Hardy–Weinberg equilibrium. As characterization of these microsatellite loci was done with samples covering most of the species’ distribution range, the markers can be applied to genetic diversity studies over the broad geographical range of the species.
Y. Shinmura T. Asakawa Y. Watano T. Kajita (&) Department of Biology, Graduate School of Science, Chiba University, 1-33 Yayoi-cho, Inage-ku, Chiba 263-8522, Japan e-mail: [email protected]
N. X. Tung Mangrove Ecosystem Research Centre, Hanoi National University of Education, Hanoi, Vietnam
A. K. S. Wee E. L. Webb Department of Biological Sciences, National University of Singapore, Singapore, Singapore K. Takayama Department of Systematic and Evolutionary Botany, University of Vienna, Vienna, Austria O. B. Yllano Biology Department, College of Sciences and Technology, Adventist University of the Philippines, Cavite, Philippines S. G. Salmo III Department of Environmental Science, School of Science and Engineering, Ateneo de Manila University, Quezon City, Philippines E. R. Ardli Faculty of Biology, Jenderal Soedirman University, Purwokerto, Indonesia
Keywords Conservation Diversity Mangrove Pyrosequencing SSR
N. B. Malekal Institute for Tropical Biology and Conservation, Universiti Malaysia, Kota Kinabalu, Malaysia Onrizal Forestry Sciences Department, Universitas Sumatera Utara, Medan, Indonesia S. H. Meenakshisundaram Biotechnology Programme, M.S. Swaminathan Research Foundation, Chennnai, India S. Sungkaew Forest Biology Department, Faculty of Forestry, Kasetsart University, Bangkok, Thailand M. N. Saleh Department of Forest Production, Faculty of Forestry, Universiti Putra Malaysia, Serdang, Malaysia
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Conservation Genet Resour (2012) 4:811–814
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