title: Cross-Species, Amplifiable EST-SSR Markers for Amentotaxus Species Obtained by Next-Generation Sequencing.
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.
authors.affiliation: Taiwan Endemic Species Research Institute, Nantou 552, Taiwan. snoopy60@gmail.com.|Graduate Institute of Bioresources, Pingtung University of Science and Technology, Pingtung 912, Taiwan. snoopy60@gmail.com.
authors.forename: Chiuan-Yu
authors.initials: CY
authors.lastname: Li
authors.affiliation: Department of Life Sciences, National Cheng-Kung University, Tainan 701, Taiwan. tychiang@ncku.edu.tw.
authors.forename: Tzen-Yuh
authors.initials: TY
authors.lastname: Chiang
authors.affiliation: Department of Biological Sciences, National Sun Yat-sen University, Kaohsiung 804, Taiwan. yuchung@mail.nsysu.edu.tw.
authors.forename: Yu-Chung
authors.initials: YC
authors.lastname: Chiang
authors.affiliation: Department of Forestry, Pingtung University of Science and Technology, Pingtung 912, Taiwan. xinmeixu52@gmail.com.
authors.forename: Hsin-Mei
authors.initials: HM
authors.lastname: Hsu
authors.affiliation: South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China. xjge@scbg.ac.cn.
authors.forename: Xue-Jun
authors.initials: XJ
authors.lastname: Ge
authors.affiliation: Kinmen National Park, Kinmen 892, Taiwan. hcc2889602@gmail.com.
authors.forename: Chi-Chun
authors.initials: CC
authors.lastname: Huang
authors.affiliation: Department of Forestry, Pingtung University of Science and Technology, Pingtung 912, Taiwan. cct@mail.npust.edu.tw.
authors.forename: Chaur-Tzuhn
authors.initials: CT
authors.lastname: Chen
authors.affiliation: Graduate Institute of Bioresources, Pingtung University of Science and Technology, Pingtung 912, Taiwan. khhung424@npust.edu.tw.
authors.forename: Kuo-Hsiang
authors.initials: KH
authors.lastname: Hung
mesh_terms: D000483:Alleles; D018744:DNA, Plant / Q000235:genetics*; D056727:Endangered Species; D020224:Expressed Sequence Tags; D005819:Genetic Markers; D018745:Genome, Plant; D006579:Heterozygote; D059014:High-Throughput Nucleotide Sequencing; D018895:Microsatellite Repeats; D010802:Phylogeny; D011110:Polymorphism, Genetic; D032490:Taxaceae / Q000145:classification / Q000235:genetics*; D059467:Transcriptome
chemical_list: D018744:DNA, Plant; D005819:Genetic Markers
keywords: Amentotaxus; EST-SSR markers; endangered species; genetic diversity; transcriptome