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泰坦步甲(Serrognathus titanus)染色体水平基因组组装。(鞘翅目:步甲科)

A chromosomal-level genome assembly of Serrognathus titanus Boisduval, 1835 (Coleoptera: Lucanidae).

机构信息

College of Life Sciences, Xinyang Normal University, Xinyang, 464000, China.

Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing, 210095, China.

出版信息

Sci Data. 2024 Aug 15;11(1):888. doi: 10.1038/s41597-024-03727-w.

Abstract

The Stag beetle (Coleoptera: Lucanidae) is a fascinating group, often considered one of the most primitive within the Scarabaeoidea. They are valuable models for studying beetle evolution. However, the lack of high-quality genomes hinders our understanding of the evolution and ecology of Lucanidae. In this study, we present a chromosome-level genome of Serrognathus titanus by combining PacBio HiFi long reads, Illumina short reads, and Hi-C data. The genome spans 384.07 Mb, with a scaffold N50 size of 75.81 Mb, and most contigs (97.45%, 374.30 Mb) were anchored into six chromosomes. Our BUSCO analysis of the assembly indicates a completeness of 97.6% (n = 1,367), with 92.8% single-copy BUSCOs and 4.8% duplicated BUSCOs identified. Additionally, we found that the genome contains 43.87% (168.50 Mb) repeat elements and identified 14,263 predicted protein-coding genes. The high-quality genome of S. titanus provides valuable genomic information for comprehending the evolution and ecology of Lucanidae.

摘要

鹿角虫(鞘翅目:鹿角甲科)是一类引人入胜的昆虫,通常被认为是 Scarabaeoidea 中最原始的昆虫之一。它们是研究甲虫进化的有价值的模型。然而,高质量基因组的缺乏阻碍了我们对鹿角甲科的进化和生态学的理解。在这项研究中,我们通过结合 PacBio HiFi 长读长、Illumina 短读长和 Hi-C 数据,提供了 Serrognathus titanus 的染色体水平基因组。该基因组跨度为 384.07 Mb,支架 N50 大小为 75.81 Mb,大多数(97.45%,374.30 Mb)contigs 被锚定到六个染色体上。我们对组装的 BUSCO 分析表明,其完整性为 97.6%(n=1,367),其中 92.8%是单拷贝 BUSCO,4.8%是重复拷贝 BUSCO。此外,我们发现该基因组包含 43.87%(168.50 Mb)重复元件,鉴定出 14,263 个预测的蛋白质编码基因。S. titanus 的高质量基因组为理解鹿角甲科的进化和生态学提供了有价值的基因组信息。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1860/11327348/c0983fec4162/41597_2024_3727_Fig1_HTML.jpg

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