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Collichthys lucidus ( C . lucidus ) is a commercially important marine fish species distributed in coastal regions of East Asia with the X 1 X 1 X 2 X 2 /X 1 X 2 Y multiple sex chromosome system. The karyotype for female C . lucidus is 2n = 48, while 2n = 47 for male ones. Therefore, C . lucidus is also an excellent model to investigate teleost sex-determination and sex chromosome evolution. We reported the first chromosome genome assembly of C . lucidus using Illumina short-read, PacBio long-read sequencing and Hi-C technology. An 877 Mb genome was obtained with a contig and scaffold N50 of 1.1 Mb and 35.9 Mb, respectively. More than 97% BUSCOs genes were identified in the C . lucidus genome and 28,602 genes were annotated. We identified potential sex-determination genes along chromosomes and found that the chromosome 1 might be involved in the formation of Y specific metacentric chromosome. The first C . lucidus chromosome-level reference genome lays a solid foundation for the following population genetics study, functional gene mapping of important economic traits, sex-determination and sex chromosome evolution studies for Sciaenidae and teleosts.

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