Identification and Characterization of Polymorphic Microsatellite Loci using Next Generation Sequencing in Quercus variabilis

백승훈,; 이제완,; 홍경낙,; 이석우,; 안지영,; 이민우,

doi:10.14578/jkfs.2016.105.2.186

Cited by 2 publications

(1 citation statement)

References 22 publications

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“…Penta-and tetra-nucleotide microsatellites were 3,348 and 1,820, respectively, accounting for 34%. These results were consistent with most other organisms, excluding mono-nucleotide motifs which were not considered for analysis in this study (Zhang et al, 2012;Baek et al, 2016;Batkhuu et al, 2019). All of the 163 primer sets were designed from 179 contigs containing di-and tri-nucleotide microsatellites.…”

Section: Resultssupporting

confidence: 84%

Development of Microsatellite Markers Using Next-Generation Sequencing and Genetic Characterization in Three Natural Monument Populations of Koelreuteria paniculata (Goldenrain Tree)

Lee¹,

Kim²,

Shin³

et al. 2020

HST

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This study was conducted to develop microsatellite markers in Koelreuteria paniculata using next-generation sequencing. A total of 71,114,562 reads of 20x coverage for the K. paniculata genome were generated and assembled to 141,924 contigs of a minimum of 500 bp long. One hundred seventy-nine of the 79,633 contigs containing microsatellite regions were used for primer design. Fourteen primer sets were selected as polymorphic markers by applying them to three K. paniculata populations, designated as natural monuments in Korea. Somewhat low levels of genetic diversity were observed. The grand means of the number of alleles, observed heterozygosity, and expected heterozygosity were 2.7, 0.493, and 0.407, respectively. Analysis of molecular variance indicated a high level of genetic differentiation among populations. Distinct patterns of three populations were identified in the principal coordinate analysis and Bayesian structure analysis. The probability of identity of these markers was estimated to be quite low, suggesting that these markers have the robust potential power to distinguish genetically different individuals. K. paniculata has a high economic value as an ornamental tree, and a honey tree. The novel microsatellite markers developed in this study will be useful for future breeding programs and genetic studies aimed at developing conservation plans.

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Section: Resultssupporting

confidence: 84%