Development of microsatellite markers in Betula costata (Betulaceae) by next-generation sequencing and cross-species transferability test

• Published in: Molecular biology reports Vol. 47; no. 8; pp. 6407 - 6415
• Main Authors: Lee, Min-Woo, Lee, Jei-Wan, Kim, Sang-Chul, Ahn, Ji-Young
• Format: Journal Article
• Language: English
• Published: Dordrecht Springer Netherlands 01.08.2020; Springer Nature B.V
• Subjects: Animal Anatomy; Animal Biochemistry; Betula - genetics; Betula costata; Biomedical and Life Sciences; Climate change; DNA, Plant - genetics; Enzymes; Gene Frequency; Genetic markers; Genome, Plant; Heterozygosity; Heterozygote; High-Throughput Nucleotide Sequencing; Histology; Life Sciences; Linkage disequilibrium; Microsatellite Repeats; Microsatellites; Molecular biology; Morphology; Next-generation sequencing; Polymorphism; Polymorphism, Genetic; Population; Population genetics; Reagents; Satellites; Short Communication; Species; Microsatellite marker; NGS; Primer development; Betulaceae; Betula costata
• ISSN: 0301-4851; 1573-4978
• DOI: 10.1007/s11033-020-05616-y

This study was conducted to develop the first species-specific microsatellite markers in Betula costata . A total of 178 primers were designed from 95,755 contigs and screened in two B. costata populations sampled from Mt. Hwaaksan and Mt. Gyebangsan. A total of 16 polymorphic microsatellite loci were selected and used for population genetic characterization. The average values of observed heterozygosity ( H O ) and expected heterozygosity ( H E ) of the Mt. Hwaaksan population were 0.488 and 0.493, respectively. The average values of H O and H E in the Mt. Gyebangsan population were 0.492 and 0.481, respectively. The null allele frequency was less than 0.2 in all loci. No significant linkage disequilibrium was detected in all combinations of loci. In addition, 26 polymorphic markers were selected by cross-species transferability test to B. costata using the microsatellite markers developed in four other Betula species. The cross-species transferability of the microsatellite markers developed in B. costata was conducted in two other Betula species. The transferability was 75% in B. ermanii and 100% in B. davurica . Therefore, the microsatellite markers developed and characterized in this study were expected to be useful for further genetic studies in B. costata and related species in the genus Betula .