《卷叶蛾科林业害虫长尾卷叶蛾染色体水平基因组组装》

A chromosome-level genome assembly of the forestry pest Coronaproctus castanopsis.

机构信息

Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China.

Qianjiangyuan National Park, Kaihua, Zhejiang, 324300, China.

出版信息

Sci Data. 2024 Feb 17;11(1):218. doi: 10.1038/s41597-024-03016-6.

DOI:10.1038/s41597-024-03016-6

PMID:38368451

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10874433/

Abstract

As an important forestry pest, Coronaproctus castanopsis (Monophlebidae) has caused serious damage to the globally valuable Gutianshan ecosystem, China. In this study, we assembled the first chromosome-level genome of the female specimen of C. castanopsis by merging BGI reads, HiFi long reads and Hi-C data. The assembled genome size is 700.81 Mb, with a scaffold N50 size of 273.84 Mb and a contig N50 size of 12.37 Mb. Hi-C scaffolding assigned 98.32% (689.03 Mb) of C. Castanopsis genome to three chromosomes. The BUSCO analysis (n = 1,367) showed a completeness of 91.2%, comprising 89.2% of single-copy BUSCOs and 2.0% of multicopy BUSCOs. The mapping ratio of BGI, second-generation RNA, third-generation RNA and HiFi reads are 97.84%, 96.15%, 97.96%, and 99.33%, respectively. We also identified 64.97% (455.3 Mb) repetitive elements, 1,373 non-coding RNAs and 10,542 protein-coding genes. This study assembled a high-quality genome of C. castanopsis, which accumulated valuable molecular data for scale insects.

摘要

作为一种重要的林业害虫，栗山宽盾蝽（Monophlebidae）对中国全球重要的古田山生态系统造成了严重破坏。在这项研究中，我们通过合并 BGI reads、HiFi 长读长和 Hi-C 数据，组装了栗山宽盾蝽雌性标本的首个染色体水平基因组。组装的基因组大小为 700.81Mb，支架 N50 大小为 273.84Mb，拼接 N50 大小为 12.37Mb。Hi-C 支架将栗山宽盾蝽基因组的 98.32%（689.03Mb）分配到三个染色体上。BUSCO 分析（n=1,367）显示完整性为 91.2%，包括 89.2%的单拷贝 BUSCO 和 2.0%的多拷贝 BUSCO。BGI、第二代 RNA、第三代 RNA 和 HiFi 读取的映射率分别为 97.84%、96.15%、97.96%和 99.33%。我们还鉴定了 64.97%（455.3Mb）重复元件、1,373 个非编码 RNA 和 10,542 个蛋白质编码基因。这项研究组装了栗山宽盾蝽的高质量基因组，为鳞翅目昆虫积累了有价值的分子数据。