Genetic diversity and population structure of Shorea macrophylla using genome‐wide single‐nucleotide polymorphisms and microsatellite markers in Indonesia for conservation

作者：Utomo Singgih, Widiyatno Widiyatno, Sapto Indrioko, Mohamad Na’iem, Yoshihisa Suyama, Yunosuke Onuma, Takaki Aihara, Yoshihiko Tsumura · 发表于：Ecological Research · 年份：2025 · DOI：10.1111/1440-1703.70010 · 被引用次数：3 · 研究领域：Genetic diversity and population structure、Genomics and Phylogenetic Studies、Plant and Fungal Species Descriptions

Abstract In the tropical forests of Southeast Asia, the dipterocarp species stands out as the most significant tree group in terms of ecosystem stability and forestry management. Shorea macrophylla , found on Borneo Island, is particularly noteworthy for its rapid growth, high oil content nut production, and versatile timber characteristics, making it a prime candidate for plantation material in rehabilitating degraded forests. We collected population samples of S. macrophylla in Kalimantan Island and evaluated parameters such as genetic diversity, genetic structure, and estimated divergence times of the populations using SSR (simple sequence repeat) markers and SNPs (single‐nucleotide polymorphisms). Interestingly, the estimated divergence time of genetic groups was similar between the two markers, with SNP markers likely offering a more accurate estimation owing to their higher marker count. Although SNP markers generally offer advantages over SSR markers in genetic studies, the latter remains valuable for assessing genetic diversity due to its high polymorphism. We conclude that SSR markers are still useful for identifying hotspot areas in terms of genetic diversity. Our study revealed that both DNA markers identified the Northeast Kalimantan population as the most genetically distinct population of S. macrophylla , which is important for the conservation of this species. By using multiple DNA markers with different characteristics, the history and features of the populati...