Cross-Species, Amplifiable EST-SSR Markers for Amentotaxus Species Obtained by Next-Generation Sequencing

Molecules

Chiuan-Yu Li²  Tzen-Yuh Chiang¹  Yu-Chung Chiang⁵  Hsin-Mei Hsu⁷  Xue-Jun Ge⁶  Chi-Chun Huang⁴  Chaur-Tzuhn Chen⁷  Kuo-Hsiang Hung³ 

[1] Department of Life Sciences, National Cheng-Kung University, Tainan 701, Taiwan;Taiwan Endemic Species Research Institute, Nantou 552, Taiwan;;Graduate Institute of Bioresources, Pingtung University of Science and Technology, Pingtung 912, TaiwanKinmen National Park, Kinmen 892, Taiwan;Department of Biological Sciences, National Sun Yat-sen University, Kaohsiung 804, Taiwan;South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China;Department of Forestry, Pingtung University of Science and Technology, Pingtung 912, Taiwan;

关键词: Amentotaxus;    endangered species;    EST-SSR markers;    genetic diversity;    transcriptome;   

DOI  :  10.3390/molecules21010067

来源: mdpi

【 摘 要 】

Amentotaxus, a genus of Taxaceae, is an ancient lineage with six relic and endangered species. Four Amentotaxus species, namely A. argotaenia, A. formosana, A. yunnanensis, and A. poilanei, are considered a species complex because of their morphological similarities. Small populations of these species are allopatrically distributed in Asian forests. However, only a few codominant markers have been developed and applied to study population genetic structure of these endangered species. In this study, we developed and characterized polymorphic expressed sequence tag-simple sequence repeats (EST-SSRs) from the transcriptome of A. formosana. We identified 4955 putative EST-SSRs from 68,281 unigenes as potential molecular markers. Twenty-six EST-SSRs were selected for estimating polymorphism and transferability among Amentotaxus species, of which 23 EST-SSRs were polymorphic within Amentotaxus species. Among these, the number of alleles ranged from 1–4, the polymorphism information content ranged from 0.000–0.692, and the observed and expected heterozygosity were 0.000–1.000 and 0.080–0.740, respectively. Population genetic structure analyses confirmed that A. argotaenia and A. formosana were separate species and A. yunnanensis and A. poilanei were the same species. These novel EST-SSRs can facilitate further population genetic structure research of Amentotaxus species.

【 授权许可】

CC BY   
© 2016 by the authors; licensee MDPI, Basel, Switzerland.