Abstract
The longfin barb (Acrossocheilus longipinnis), a vulnerable cyprinid fish endemic to China’s Pearl River basin, is of significant conservation concern and also popular in the ornamental fish trade. To facilitate genetic research and molecular breeding for this species, we generated a high-quality genome by integrating PacBio HiFi long reads and Hi-C sequencing data. The final assembly spans approximately 936.04 Mb, achieving high continuity with a contig N50 of 36.09 Mb. Assessment of genome quality revealed excellent completeness (98.76% BUSCO score) and accuracy (QV = 54.46; GCI = 29.76; CRAQ = 96.40). The vast majority of the sequence (927.20 Mb, 99.06%) was successfully anchored to 25 chromosomes. Annotation predicted 24,718 protein-coding genes and identified approximately 553.06 Mb (59.09%) of repetitive elements. This high-quality chromosome-scale reference genome provides a crucial foundation for investigating the genomic underpinnings of A. longipinnis evolution and will significantly advance molecular breeding programs aimed at its conservation and sustainable utilization.
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Data availability
Raw sequencing data have been deposited in the NCBI SRA database under BioProject accession number PRJNA1297891, with accession numbers as follows: PacBio HiFi: SRR3477099149; Hi-C: SRR3477099250; RNA sequencing: SRR3477099051; DNA short-read sequencing: SRR3477099352. The genome assembly has been uploaded to the GenBank database under the accession GCA_054083375.153. Moreover, the genome assembly, annotation files (GFF3, FASTA), and gene functional annotation datasets, are available via Figshare41. All datasets are publicly accessible without restrictions.
Code availability
No specific code or script was used in this work. Commands used for data processing were all executed according to the manuals and protocols of the corresponding software.
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Acknowledgements
This work is supported by Operating funds of Hongshui River Rare Fish conservation Center.
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Zechen E conceived this study, designed the experiment, and performed data analysis. Fangyuan Xiong contributed to the experimental design, collected samples, and performed data analysis. Yuansheng Zhu and Li Wang provided funding and contributed to conceptualization. Jiajun Zhang and Shenghui Dong assisted in methodology and data curation. All authors have read and approved the final manuscript.
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E, Z., Xiong, F., Zhu, Y. et al. Chromosome-level genome assembly of the longfin barb (Acrossocheilus longipinnis). Sci Data (2026). https://doi.org/10.1038/s41597-026-06656-y
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DOI: https://doi.org/10.1038/s41597-026-06656-y
