| Summary: | <i>Hermetia illucens</i> is a species of great interest for numerous industrial applications. A high-quality reference genome is already available for <i>H. illucens</i>. However, the worldwide maintenance of numerous captive populations of <i>H. illucens</i>, each with its own genotypic and phenotypic characteristics, made it of interest to perform a de novo genome assembly on one population of <i>H. illucens</i> to define a chromosome-scale genome assembly. By combining the PacBio and the Omni-C proximity ligation technologies, a new <i>H. illucens</i> chromosome-scale genome of 888.59 Mb, with a scaffold N50 value of 162.19 Mb, was assembled. The final chromosome-scale assembly obtained a BUSCO completeness of 89.1%. By exploiting the Omni-C proximity ligation technology, topologically associated domains and other topological features that play a key role in the regulation of gene expression were identified. Further, 65.62% of genomic sequences were masked as repeated sequences, and 32,516 genes were annotated using the MAKER pipeline. The <i>H. illucens</i> Lsp-2 genes that were annotated were further characterized, and the three-dimensional organization of the encoded proteins was predicted. A new chromosome-scale genome assembly of good quality for <i>H. illucens</i> was assembled, and the genomic annotation phase was initiated. The availability of this new chromosome-scale genome assembly enables the further characterization, both genotypically and phenotypically, of a species of interest for several biotechnological applications.
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