The genomic annotation-related data for Troglonectes daqikongensis

This data comes from the State Key Laboratory of Breeding Biotechnology and Sustained Aquaculture, Institute of Hydrobiology, Chinese Academy of Sciences, China. In this study, we generated a chromosome-level genome assembly of the obligate cave loach Troglonectes daqikongensis usingPacBio HiFi long-read sequencing and Hi-C technology. The final genome assembly is 615.18 Mb in size, consisting of 47 scaffolds, with a contig N50 of 20.92 Mb and a scaffold N50 of 23.57 Mb. In total, 97.96% of the genome was anchored to 25 pseudo-chromosomes. Genome annotation identified 276.51 Mb of repetitive elements, accounting for 44.95% of the total genome length. Using a combination of de novo prediction, homology-based search, and transcriptome-assisted approaches, we predicted 24,652 protein-coding genes, of which 99.89% were functionally annotated. A total of 4,774 rRNA genes, 9,759 tRNA genes, 896 miRNA genes, and 1,652 snRNA genes were identified using a combination of model-based prediction and database-driven annotation strategies.