Abstract
Angelica dahurica is a widely grown plant species with multiple uses, especially in the medical field. However, the frequent introduction of A. dahurica to new areas has made it difficult to distinguish between varieties. Simple sequence repeats (SSRs) detected based on transcriptome analyses are very useful for constructing genetic maps and analyzing genetic diversity. They are also relevant for the molecular marker-assisted breeding of A. dahurica. We identified 33,724 genic SSR loci based on transcriptome sequencing data. A total of 114 primer pairs were designed for the SSR loci and were tested for their specificity and diversity. Ten SSR loci in untranslated regions were ultimately selected. Subsequently, 56 A. dahurica ecotypes collected from different regions were analyzed. The SSR loci comprised 2–8 alleles, with a mean of 5.2 alleles per locus. The polymorphic information content value and Shannon’s information index were 0.6274–0.2702 (average of 0.4091) and 1.3040–0.5618 (average of 0.8475), respectively. Thus, the 10 novel SSRs identified in this study were almost in accordance with Harvey-Weinberg equilibrium and will be useful for analyzing A. dahurica genetic relationships. The results of this study confirm the potential value of transcriptome databases for the development of new SSR markers.
Highlights
Angelica dahurica [1, 2], which is known as ‘Baizhi’ in China, is a perennial dicotyledonous herb of the family Apiaceae
The quality of the extracted total RNA was appropriate for transcriptome sequencing
After a stringent quality assessment and data filtering step, 49,580,458.67 raw reads were selected for further analyses and deposited in the NCBI SRA database
Summary
Angelica dahurica [1, 2], which is known as ‘Baizhi’ in China, is a perennial dicotyledonous herb of the family Apiaceae. It originated in Taiwan and is widely grown in Korea, China, Japan, and Russia [3]. A. dahurica has been used in traditional Chinese medicine [4] because of its anti-proliferative [5], anti-inflammatory [6], anti-depressive [7], anti-oxidative [8], and anti-microbial [9] effects. Angelica dahurica root extracts contain furanocoumarin compounds [13], phenolic compounds, and volatile oils, all of which account for the multiple pharmacological effects of this.
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