A chromosomal-level genome assembly of Omiodes indicata Fabricius (Lepidoptera: Crambidae)

Abstract

Omiodes indicata, a significant pest of legumes, impacts food security in tropical and subtropical regions of Asia, Africa, and the Americas Asia. However, the lack of high-quality genomes has limited our understanding of the ecology of O. indicata. In this study, we present a high-quality genome assembly of O. indicata generated using advanced sequencing technologies, including PacBio HiFi long reads, Illumina short-read, and Hi-C platforms. The final assembly spans 493.08 Mb, comprising 59 scaffolds (scaffold N50: 17.25 Mb) and 100 contigs (contig N50: 15.72 Mb), with 99.80% of the total assembly (492.12 Mb) successfully anchored to 31 chromosomes. BUSCO analysis (n = 1,367) indicates a high level of completeness, with 99.1% of genes detected: 96.6% as single-copy and 2.5% as duplicated. Repetitive elements constitute 38.13% (188.00 Mb) of the genome, and 14,713 protein-coding genes were predicted. The high-quality O. indicata genome represents a valuable resource for diverse molecular ecology studies and will contribute to the advancement of modern pest management strategies.

Fig. 1

Life cycle of Omiodes indicata and its damage on soybeans. (a) Different developmental stages of O. indicata. (b) The symptom of soybean leaves damaged by O. indicata.

Fig. 2

The chromosomal heatmap visualization of Omiodes indicata genome assembly displays complete chromosomes in blue, with individual contigs demarcated by green borders.

Fig. 3

The genomic features of Omiodes indicata are displayed in a circular layout. Moving inward from the outermost ring, the visualization depicts (1) chromosome length, (2) GC content, (3) gene density, and (4) various repetitive elements, including transposable elements (DNA, SINEs, LINEs, and LTRs), along with simple repeat sequences.