학술논문
Development of genome-wide simple sequence repeat markers in Codonopsis lanceolata using next-generation sequencing
Document Type
Article
Author
Source
Horticulture, Environment, and Biotechnology, 62(6), pp.985-994 Dec, 2021
Subject
Language
English
ISSN
2211-3460
2211-3452
2211-3452
Abstract
Codonopsis lanceolata is an herbaceous perennial plant predominantly cultivated in East Asia and used for medicinalpurposes. However, genetic information of C. lanceolata is lacking . Therefore, we sequenced genomic DNA using nextgenerationsequencing (NGS) and searched for simple sequence repeats (SSRs) to develop molecular markers in C. lanceolata. A total of 250,455 SSRs were identifi ed, and di-nucleotides and tri-nucleotides accounted for the majority of all theSSRs. Among these SSRs, we designed 26,334 primer sets from di- to octa-nucleotide motifs. We used an in silico approachto investigate 2626 SSRs (tri- to penta-nucleotide motifs) and found 573 SSRs showing polymorphism. Of the 573 SSRsshowing polymorphism in silico, we randomly selected 39 SSRs and verifi ed polymorphism in 16 C. lanceolata accessions. The number of alleles ranged from 2 to 13, and the mean polymorphic information content value was 0.54. Therefore, wesuccessfully designed 39 SSR markers for use in breeding and genetic studies of C. lanceolata .