A highly contiguous chromosome-level genome assembly of the Chilean jack mackerel Trachurus murphyi.

The Chilean jack mackerel (Trachurus murphyi) is an economically important pelagic fish widely distributed across the South Pacific Ocean. Due to intense fishing pressure and the lack of high-quality genomic resources, the development of sustainable fisheries management strategies has been hindered. Here, we present a highly contiguous chromosome-level genome assembly of T. murphyi using PacBio and Hi-C sequencing data. The assembled genome spans 818.31 Mb, with a contig N50 length of 24.89 Mb and a scaffold N50 length of 34.34 Mb. The assembly is anchored on 24 pseudo-chromosomes, covering 95.80% of the genome. BUSCO analysis indicates a high level of completeness at 99.0%. Telomeric repeat motifs were detected at 12 single chromosome ends, whereas putative centromeric regions were identified on 12 chromosomes. Repetitive sequences account for 23.86% of the total genome, and 47,734 protein-coding genes were annotated, 90.98% of them with assigned function. This high-quality genome assembly serves as a valuable resource for studying the genetic diversity and population structure of the Chilean jack mackerel and provides a solid foundation for future management and conservation efforts.