Chromosome-level genome assembly of the sap-feeding beetle Amphicrossus lewisi (Coleoptera: Nitidulidae)
TL;DR
A chromosome-level reference genome for A. lewisi is generated using PacBio HiFi long reads, Illumina short reads, Hi-C chromatin-contact data and RNA sequencing to provide a reusable resource for comparative genomics, phylogenetics and studies of adaptation to sap-associated environments in Nitidulidae.
Abstract
Amphicrossus lewisi is a sap-feeding beetle associated with fermenting tree-sap habitats, but genomic resources for its subfamily, Amphicrossinae, are lacking. We generated a chromosome-level reference genome for A. lewisi using PacBio HiFi long reads, Illumina short reads, Hi-C chromatin-contact data and RNA sequencing from multiple developmental stages. The 991.21 Mb assembly comprises ten chromosome-scale scaffolds and has a scaffold N50 of 129.00 Mb. Repetitive elements account for 69.15% of the genome. Evidence from transcript alignments, protein homology and ab initio prediction identified 12,691 protein-coding genes, of which 12,061 (95.04%) received at least one functional annotation. Assembly quality was supported by 99.5% complete endopterygota_odb10 BUSCOs, a Merqury consensus quality value of 43.89, and mapping rates of 99.85% and 99.11% for Illumina and HiFi reads, respectively. The deposited raw reads, genome assembly and annotations provide a reusable resource for comparative genomics, phylogenetics and studies of adaptation to sap-associated environments in Nitidulidae.