Dataset Information

Development of SSR markers for Astragalus lehmannianus, a vulnerable species from northwestern China.

ABSTRACT: Premise:Astragalus lehmannianus (Fabaceae) is a vulnerable species found in the cold deserts of northwestern China. We aimed to characterize polymorphic microsatellite loci for A. lehmannianus to support future studies of population genetic dynamics and conservation management of the species. Methods and Results:We used next-generation sequencing to detect polymorphic microsatellites. Twenty-five potential microsatellite loci were identified, 12 of which were polymorphic and present in the three study populations of A. lehmannianus. Levels of observed and expected heterozygosities were 0.000-1.000 and 0.000-0.827, respectively. Furthermore, two and five of the 12 developed primers were successfully amplified in two congeneric species, A. arpilobus and A. oxyglottis, respectively. Conclusions:These newly developed microsatellite markers can be used to determine population diversity and to develop conservation strategies in A. lehmannianus.

SUBMITTER: Wu M

PROVIDER: S-EPMC6814180 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

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Development of SSR markers for <i>Astragalus lehmannianus</i>, a vulnerable species from northwestern China.

Wu Mingying M Shi Xiaojun X Tan Dunyan D

Applications in plant sciences 20191024 10

<h4>Premise</h4><i>Astragalus lehmannianus</i> (Fabaceae) is a vulnerable species found in the cold deserts of northwestern China. We aimed to characterize polymorphic microsatellite loci for <i>A. lehmannianus</i> to support future studies of population genetic dynamics and conservation management of the species.<h4>Methods and results</h4>We used next-generation sequencing to detect polymorphic microsatellites. Twenty-five potential microsatellite loci were identified, 12 of which were polymor ...[more]

PMID: 31667025

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Project description:Opisthopappus Shih is an endemic and endangered genus restricted to the Taihang Mountains that has important ornamental and economic value. According to the Flora Reipublicae Popularis Sinicae (FRPS, Chinese version), this genus contains two species (Opisthopappus longilobus and Opisthopappus taihangensis), whereas in the Flora of China (English version) only one species O. taihangensis is present. The interspecific phylogenetic relationship remains unclear and undefined, which might primarily be due to the lack of specific molecular markers for phylogenetic analysis. For this study, 2644 expressed sequence tag-simple sequence repeats (EST-SSRs) from 33,974 unigenes using a de novo transcript assembly of Opisthopappus were identified with a distribution frequency of 7.78% total unigenes. Thereinto, mononucleotides (1200, 45.39%) were the dominant repeat motif, followed by trinucleotides (992, 37.52%), and dinucleotides (410, 15.51%). The most dominant trinucleotide repeat motif was ACC/GGT (207, 20.87%). Based on the identified EST-SSRs, 245 among 1444 designed EST-SSR primers were selected for the development of potential molecular markers. Among these markers, 63 pairs of primers (25.71%) generated clear and reproducible bands with expected sizes. Eventually, 11 primer pairs successfully amplified all individuals from the studied populations. Through the EST-SSR markers, a high level of genetic diversity was detected between Opisthopappus populations. A significant genetic differentiation between the O. longilobus and O. taihangensis populations was found. All studied populations were divided into two clusters by UPGMA, NJ, STRUCTURE, and PCoA. These results fully supported the view of the FRPS, namely, that O. longilobus and O. taihangensis should be regarded as two distinct species. Our study demonstrated that transcriptome sequences, as a valuable tool for the quick and cost-effective development of molecular markers, was helpful toward obtaining comprehensive EST-SSR markers that could contribute to an in-depth assessment of the genetic and phylogenetic relationships between Opisthopappus species.

Dataset Information

Development of SSR markers for Astragalus lehmannianus, a vulnerable species from northwestern China.

Publications

Development of SSR markers for <i>Astragalus lehmannianus</i>, a vulnerable species from northwestern China.

Similar Datasets

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