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Molecules 2016, 21(1), 67; doi:10.3390/molecules21010067

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

1
Taiwan Endemic Species Research Institute, Nantou 552, Taiwan
2
Graduate Institute of Bioresources, Pingtung University of Science and Technology, Pingtung 912, Taiwan
3
Department of Life Sciences, National Cheng-Kung University, Tainan 701, Taiwan
4
Department of Biological Sciences, National Sun Yat-sen University, Kaohsiung 804, Taiwan
5
Department of Forestry, Pingtung University of Science and Technology, Pingtung 912, Taiwan
6
South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China
7
Kinmen National Park, Kinmen 892, Taiwan
These authors contributed equally to this work.
*
Author to whom correspondence should be addressed.
Academic Editor: Derek J. McPhee
Received: 24 November 2015 / Revised: 30 December 2015 / Accepted: 31 December 2015 / Published: 7 January 2016
(This article belongs to the Section Molecular Diversity)
View Full-Text   |   Download PDF [1688 KB, uploaded 7 January 2016]   |  

Abstract

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. View Full-Text
Keywords: Amentotaxus; endangered species; EST-SSR markers; genetic diversity; transcriptome Amentotaxus; endangered species; EST-SSR markers; genetic diversity; transcriptome
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MDPI and ACS Style

Li, C.-Y.; Chiang, T.-Y.; Chiang, Y.-C.; Hsu, H.-M.; Ge, X.-J.; Huang, C.-C.; Chen, C.-T.; Hung, K.-H. Cross-Species, Amplifiable EST-SSR Markers for Amentotaxus Species Obtained by Next-Generation Sequencing. Molecules 2016, 21, 67.

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