InsectBase 3.0: a comprehensive multi-omics resource for insects

Abstract Insects represent the most diverse animal group and play essential roles in ecosystems, agriculture, and human health. The rapid accumulation of high-quality genomes and diverse omics datasets provides unprecedented opportunities to advance research in insect biology and evolution, yet also poses challenges in data integration, accessibility, and reuse. To address these demands, we developed InsectBase 3.0 (www.insect-genome.com), an upgraded platform that integrates extensive insect multi-omics data and provides user-friendly tools for furthor analysis. InsectBase 3.0 covers 3020 species across 24 insect orders, including 1651 chromosome-level assemblies and 61 353 curated transcriptomes. In addition, the new version incorporates a large-scale protein structure dataset (474 300 predicted models and 381 experimental entries), genome resequencing and variant resources, curated transposable element libraries, and 3D morphological reconstructions. To organize these heterogeneous resources, InsectBase 3.0 introduces knowledge graphs centered on species and genes, enabling users to navigate cross-dataset relationships more intuitively. In addition, the web framework has been modernized to improve efficiency, interactivity, and visualization. Together, these updates establish InsectBase 3.0 as the most comprehensive open-access insect omics platform to date, providing a valuable resource for evolutionary, functional, and applied research in insects.