High-quality genome assembly of Chironomus riparius and its population history in European populations.

ABSTRACT: The aquatic midge Chironomus riparius is an established indicator taxon for the assessment of water quality as of the European Water Framework Directive. Here, we present a novel long-read genome assembly generated with PacBio HiFi and Hi-C sequencing, which achieves chromosome-scale resolution with an assembly size of 192 Mb, an N50 of 59 Mb, and a BUSCO completeness of 99.0%. Four chromosomes with their predicted centromeric regions and 10 unplaced scaffolds were assembled containing 15,439 protein-coding genes. Chromosome-level resolution in nonmodel species is often limited, posing challenges for population genomic studies that depend on high-quality reference genomes. Reanalyzing genomic data of natural C. riparius populations, we demonstrate the improved accuracy of population genomi

SUBMITTER: Pettrich LC 

PROVIDER: S-EPMC12693489 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature