Development of novel EST‐SSR markers for Ephedra sinica (Ephedraceae) by transcriptome database mining

Premise of the Study Ephedra sinica (Ephedraceae) is a gymnosperm shrub with a wide distribution across Central and Eastern Asia. It is widely cultivated as a medicinal plant, but its wild populations are monitored to determine whether protection is needed. Methods and Results Thirty‐six microsatell...

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Bibliographic Details
Published in:Applications in plant sciences 2019-01, Vol.7 (1), p.e01212-n/a
Main Authors: Jiao, Si‐Qian, Sun, Yan‐Qiang, Zhang, Dong‐Xu, Gao, Qiong, Jin, Yuqing, Liu, Hui, Ma, Yongpeng, Yang, Yong, Porth, Ilga, Mao, Jian‐Feng
Format: Article
Language:English
Subjects:
Deoxyribonucleic acid
DNA
Endangered & extinct species
Ephedra sinica
Ephedraceae
expressed sequence tag–simple sequence repeat (EST‐SSR) marker
Gene expression
genetic diversity
Genetic markers
gymnosperm
Heterozygosity
medicinal plant
Medicinal plants
Microsatellites
Plant protection
Plant sciences
Population
Population genetics
Primer Note
Primer Notes
Ribonucleic acid
RNA
Simple sequence repeats
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Summary:Premise of the Study Ephedra sinica (Ephedraceae) is a gymnosperm shrub with a wide distribution across Central and Eastern Asia. It is widely cultivated as a medicinal plant, but its wild populations are monitored to determine whether protection is needed. Methods and Results Thirty‐six microsatellite markers, including 11 polymorphic markers, were developed from E. distachya RNA‐Seq data deposited in the National Center for Biotechology Information dbEST database. Among 100 genotyped E. sinica individuals originating from five different population groups, the allele number ranged from three to 22 per locus. Levels of observed and expected heterozygosity ranged from 0 to 0.866 (average 0.176) and 0 to 0.876 (average 0.491), respectively. Allelic polymorphism information content ranged from 0.000 to 0.847 (average 0.333). Cross‐species amplifications were successfully conducted with two related Ephedra species for all 11 di‐ or trinucleotide simple sequence repeats. Conclusions This study provides the first set of microsatellite markers for genetic monitoring and surveying of this medicinal plant.
ISSN:2168-0450
2168-0450
DOI:10.1002/aps3.1212