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Dryad

Chromosome-level genome assembly and annotation of Pterygoplichthys pardalis

Xia, Wangxiao1; Xu, Hao1; Liu, Yaowen2; Jiang, Hui3; Shi, Jing1; Wu, Yonghong1; Yu, Yameng1; Li, Xiaomin4; Fan, Wenbo4; Zhang, Yuanwei5; Xu, Lixian4

Published Nov 16, 2022; Updated May 14, 2025 on Dryad. https://doi.org/10.5061/dryad.bk3j9kdgh

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Abstract

Suckermouth catfishes, with their evolved powerful features, have become notorious invasive species, causing significant damage to aquatic ecosystems. However, the lack of high-quality genomes severely restricts research on this group within the field. In this study, we de novo  assembled the chromosome-level genome assembly of Pterygoplichthys pardalis using multiple platforms of sequencing data, including Illumina short reads, Nanopore long reads, and Hi-C sequencing reads, resulting in a 1.51 Gb genome assembly. Multiple evaluations, including read mapping ratio (98.52%), transcript mapping ratio (99.61%), conserved BUSCO gene set (98.8%), and N50 score (49.47 Mb), indicated the high continuity and accuracy of the genome assembly we generated. Genome annotation found that 0.97 Gb of genome sequences are repetitive sequences, accounting for 64.47% of the genome assembly. Further, 23,859 protein-coding genes were successfully predicted, 92.92% of which could be annotated in functional databases. This high-quality genome assembly of P. pardalis provides a valuable resource for understanding the genetic underpinnings of P. pardalis's invasive success and offers critical data for future fisheries research and management.