Data from: Chromosome-level genome assembly of a cyprinid fish Onychostoma macrolepis by integration of Nanopore Sequencing, Bionano and Hi-C technology

Onychostoma macrolepis is an emerging commercial cyprinid fish species. It
is a model system for studies of sexual dimorphism and genome evolution.
Here, we report the chromosome-level assembly of the O.macrolepis genome
obtained from the integration of Nanopore long-read sequencing with
physical maps produced using Bionano and Hi-C technology. A total of 87.9
Gb of Nanopore sequence provided approximately 100-fold coverage of the
genome. The preliminary genome assembly was 883.2 Mb in size with a contig
N50 size of 11.2 Mb. The 969 corrected contigs obtained from Bionano
optical mapping were assembled into 853 scaffolds and produced an assembly
of 886.5 Mb with a scaffold N50 of 16.5 Mb. Finally, using the Hi-C data,
881.3 Mb (99.4% of genome) in 526 scaffolds were anchored and oriented in
25 chromosomes ranging in size from 25.27 to 56.49 Mb. In total, 24,770
protein-coding genes were predicted in the genome, and ~96.85% of the
genes were functionally annotated. The annotated assembly contains 93.3%
complete genes from the BUSCO reference set. In addition, we identified
409 Mb (46.23% of the genome) of repetitive sequence, and 11,213
non-coding RNAs, in the genome. Evolutionary analysis revealed that
O.macrolepis diverged from common carp approximately 24.25 million years
ago. The chromosomes of O.macrolepis showed an unambiguous correspondence
to the chromosomes of zebrafish. The high-quality genome assembled in this
work provides a valuable genomic resource for further biological and
evolutionary studies of O. macrolepis.