차세대 염기서열 분석을 활용한 아홉동가리(Goniistius zonatus)의 다형성 Microsatellite 마커 개발 및 특성 분석
Development and Characterization of Polymorphic Microsatellite Markers in Goniistius zonatus Using Next Generation Sequencing
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This study aimed to analyze the genetic diversity of Goniistius zonatus by developing microsatellite markers and evaluating their population genetic characteristics. Among a total of 188,476 genome contigs, microsatellite sequences were detected in 39,127 contigs, which contained a total of 48,789 candidate microsatellite markers. After removing redundant simple sequence repeat (SSR) motifs, 34,117 candidate markers were initially selected. Subsequently, polymorphism analysis, including the presence of insertions and deletions (InDels) within the SSR marker regions, resulted in the final selection of 3,648 markers. Among these 3,648 markers, 146 microsatellite markers were initially chosen based on the type of repeat motif, primer size, and amplification product location. PCR amplification and fragment size evaluation further refined the selection to 20 markers. The genetic characteristics of the Goniistius zonatus population were analyzed using the 20 selected microsatellite markers. The mean number of effective alleles was 9, ranging from 5 to 15. The observed heterozygosity (HO) and expected heterozygosity (HE) were found to be 0.755 and 0.766, respectively. The polymorphic information content (PIC) values ranged from 0.546 to 0.861, with an average of 0.722, indicating that these markers provide sufficient individual identification power for accurately analyzing the genetic diversity of the Goniistius zonatus population.
Abstract
This study aimed to analyze the genetic diversity of Goniistius zonatus by developing microsatellite markers and evaluating their population genetic characteristics. Among a total of 188,476 genome contigs, microsatellite sequences were detected in 39,127 contigs, which contained a total of 48,789 candidate microsatellite markers. After removing redundant simple sequence repeat (SSR) motifs, 34,117 candidate markers were initially selected. Subsequently, polymorphism analysis, including the presence of insertions and deletions (InDels) within the SSR marker regions, resulted in the final selection of 3,648 markers. Among these 3,648 markers, 146 microsatellite markers were initially chosen based on the type of repeat motif, primer size, and amplification product location. PCR amplification and fragment size evaluation further refined the selection to 20 markers. The genetic characteristics of the Goniistius zonatus population were analyzed using the 20 selected microsatellite markers. The mean number of effective alleles was 9, ranging from 5 to 15. The observed heterozygosity (HO) and expected heterozygosity (HE) were found to be 0.755 and 0.766, respectively. The polymorphic information content (PIC) values ranged from 0.546 to 0.861, with an average of 0.722, indicating that these markers provide sufficient individual identification power for accurately analyzing the genetic diversity of the Goniistius zonatus population.