ArticleScientific data2025
Chromosome-level genome assembly of the obligate cave loach Troglonectes daqikongensis.
Article in Scientific data, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Troglonectes daqikongensis is an obligate cave-dwelling fish with a narrowly restricted distribution in southwestern China and pronounced troglomorphic traits. Despite its ecological and evolutionary significance, genomic resources for this species remain scarce. Here, we report a chromosome-level reference genome of Troglonectes daqikongensis, assembled using PacBio HiFi long reads, Hi-C data, and MGI T7 short reads. The final assembly spans 615.17 Mb across 47 scaffolds, with a contig N50 of 20.92 Mb and a scaffold N50 of 23.57 Mb. In total, 97.96% of the assembly was anchored to 25 pseudo-chromosomes. Repetitive elements comprise 276.51 Mb, accounting for 44.95% of the genome. A total of 24,652 protein-coding genes were predicted using a combination of de novo prediction, homology-based annotation, and transcriptome evidence, with 99.89% functionally annotated. BUSCO assessments indicated high completeness for both the genome assembly (96.6%) and gene annotation (95.5%). This high-quality genome provides a foundational resource for evolutionary and ecological research, including studies on the genetic basis of cave adaptation and the conservation of the microendemic species Troglonectes daqikongensis.
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