青藏高原特有高原鳅Triplophysa stewarti的高分辨率染色体级别基因组研究
High-Resolution Chromosome-Level Genome Assembly and Annotation of Triplophysa stewarti, an Endemic Plateau Loach from the Qinghai-Tibet Plateau
Ma Yan, Xiong Huan, Chen Hongzhou, Xia Jingyu, Li Tuo, Abbas Iram, Liu Xueyan, Wu Yanfang, Zhang Jingyi, Hu Xingyue, Saima Samra, Chen Wei
Journal：Scientific Data
IF：7.2
DOI：10.1038/s41597-026-07509-4
PMID：
Published：2026-06-02
research field：进化生物学高海拔适应基因组学分子生态学水生生物学比较基因组学
Abstract
The bottom-dwelling fish Triplophysa stewarti , endemic to the Qinghai-Tibet Plateau, is a valuable model for studying high-altitude adaptation in aquatic ecosystems. However, the lack of a high-quality reference genome has hindered comparative genomic and evolutionary studies within this genus. Here, we present a chromosome-level genome assembly for T. stewarti , generated using PacBio HiFi long-read sequencing and Hi-C scaffolding. The 697.9 Mb assembly is highly continuous (scaffold N50 of 253.58 Mb) and encompasses 25 chromosomes, representing 92.65% of the genome. BUSCO analysis indicated a 98.4% completeness, supporting the high quality of the assembly. We annotated 28,009 protein-coding genes, with 97.04% being functionally assigned across multiple databases (NR, UniProt, KEGG, GO, Pfam and InterPro). Additionally, repetitive elements constituted 42.47% of the genome, and we identified 52,709 non-coding RNAs. This high-quality reference genome provides a fundamental resource for exploring the adaptive evolution, population structure, and conservation genetics of T. stewarti and related species on the Qinghai-Tibet Plateau.
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