Abstract
Phoxinus lagowskii is an economically important freshwater fish species native to China. In this study, a chromosome-level genome assembly of P. lagowskii was assembled using PacBio and Hi-C sequencing technologies. The total genome size was 1.22 Gb, with a contig N50 of 38.16 Mb. The final assembly comprised 25 chromosomes, with an anchor rate of 96.29%, resulting in a total anchored length of 1,173,227,270 bp. The genome completeness, as evaluated by the BUSCO assessment, was 94.2%. The genome contained 33,449 predicted protein-coding genes, and the BUSCO completeness for the gene set was 93.6%. A total of 76,416 proteins were predicted, of which 95.29% had functional annotations. Repetitive sequences in the genome totaled 626.50 Mb, representing 51.42% of the entire genome. This genome assembly of P. lagowskii provides significant insights into its biological traits, genetic diversity, and adaptive responses to environmental pressures. Moreover, it lays the groundwork for future genetic improvements in the aquaculture of this species.