Chromosome-level genome assembly and annotation of the Triplophysa pappenheimi

Triplophysa pappenheimi, an ecologically important species within the plateau freshwater ecosystem, predominantly inhabits the rapids of the upper Yellow River, its tributaries, and associated lakes, playing a crucial role in maintaining local aquatic biodiversity and serving as a model for plateau fish adaptation studies. In this study, we utilized a combination of Illumina short-read sequencing, PacBio HiFi long-read sequencing, and Hi-C technology to generate the first high-quality, chromosome-level genome assembly of T. pappenheimi. The assembled genome spans 626.33 Mb, organized into 25 pseudochromosomes, with a scaffold N50 of 24.41 Mb. We annotated 24,952 genes, representing 98.82% of the predicted protein-coding genes. In addition, we used GetOrganelle v1.7.7.1 to isolate and assemble the complete mitochondrial genome from the Illumina sequencing data, with a total length of 16,574 bp, and successfully achieved circularization. This high-quality genome assembly provides a valuable genomic resource for understanding the evolutionary history, adaptive mechanisms, and biological characteristics of this species.