De Novo Transcriptome Assembly and EST-SSR Marker Development and Application in

Overview

Journal Genes (Basel)

Publisher MDPI

Date 2023 Feb 25

PMID 36833206

Authors

Niyan Xiang

Bojie Lu

Tao Yuan

Tiange Yang

Jiani Guo

Zhihua Wu

Hong Liu

Xing Liu

Rui Qin

Affiliations

Soon will be listed here.

Abstract

Oliv., belonging to the family Saxifragaceae, is a traditional and unique Chinese herbal medicine. However, the lack of adequate molecular markers has hampered the progress regarding population genetics and evolution within this species. In this research, we used the DNBSEQ-T7 Sequencer (MGI) sequencing assay to analyze the transcriptome profiles of . SSR markers were developed on the basis of transcriptomic sequences and further validated on and other species. The genetic diversity and structure of the 12 populations were analyzed by using polymorphic expressed sequence tag simple sequence repeat (EST-SSR) markers. A potential pool of 3127 non-redundant EST-SSR markers were identified for in this study. The developed EST-SSR markers had high amplification rates and cross-species transferability in . Our results also showed that the natural populations of had a high level of genetic diversity. Genetic distance, principal component analysis, and popular structure analysis revealed that all 60 samples clustered into two major groups that were consistent with their geographical origins. This study provided a batch of highly polymorphic EST-SSR molecular markers that were developed via transcriptome sequencing. These markers will be of great significance for the study of the genetic diversity and evolutionary history of and other species.

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