Genome assembly and annotation of Litopenaeus vannamei

The Pacific white shrimp (<i>Litopenaeus vannamei</i>) is a globally important aquaculture species with significant ecological and commercial value. We present a high-quality, chromosome-level genome assembly for <i>L. vannamei</i>, generated by integrating PacBio HiFi, Nanopore ultra-long, and Hi-C sequencing data. The final assembly spans 1.95 Gb (contig N50: 1.97 Mb), with approximately 97.25% of sequences anchored to 44 pseudochromosomes. Repetitive sequences constitute approximately 1.195 Gb, representing 61.28% of the genome. We annotated a total of 26,830 protein-coding genes, 23,952 of which were functionally characterized. The assembly exhibits exceptional completeness, achieving BUSCO scores of 70.98% (genome mode) and 69.8% (protein mode). This reference genome will serve as a fundamental resource for future genetic research on key economic traits and molecular breeding applications in <i>L. vannamei</i>.

凡纳滨对虾（Litopenaeus vannamei）是全球重要的水产养殖物种，兼具显著的生态与商业价值。本研究针对凡纳滨对虾（L. vannamei）构建了高质量染色体级基因组组装结果，该组装整合PacBio HiFi、Nanopore超长读长测序及Hi-C测序数据完成。最终组装的基因组总长1.95 Gb，重叠群N50（contig N50）为1.97 Mb，约97.25%的序列被锚定至44条假染色体（pseudochromosomes）。重复序列总长约1.195 Gb，占基因组总长度的61.28%。本研究共注释得到26830个蛋白质编码基因（protein-coding genes），其中23952个基因完成了功能注释。该基因组组装结果具有优异的完整性，经BUSCO评估，其基因组模式得分达70.98%，蛋白质组模式得分达69.8%。该参考基因组将为凡纳滨对虾后续关键经济性状的遗传研究及分子育种应用提供核心基础资源。