Laboratory of Insect Behavior and Evolutionary Ecology, College of Life Sciences, Central South University of Forestry and Technology, Changsha, China.
Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518000, China.
Sci Data. 2024 Sep 4;11(1):963. doi: 10.1038/s41597-024-03827-7.
Dryocosmus kuriphilus, commonly known as the chestnut gall wasp, belongs to the family Cynipidae and is native to China. It is a highly invasive insect species causing serious damage to chestnut trees and has rapidly spread to various continents, including Europe, North America, and Oceania. The D. kuriphilus has become one of the important pests of chestnut plants in the world and is listed as a quarantine object by the European and Mediterranean Plant Protection Organization (EPPO). In this study, we used PacBio long reads, Illumina short reads, and Hi-C sequencing data to construct a chromosome-level assembly of the D. kuriphilus genome. The assembled genome includes 14,729 contigs with a total length of 2.28 Gb and a contig N50 of 0.8 Mb. With Hi-C technology, 2.17 Gb (95.02%) of contigs were anchored and oriented into the 10 pseudochromosomes with the scaffold N50 of 198.8 Mb and the scaffold N90 of 158.8 Mb. In total, 24,086 protein-coding genes were predicted in the assembled D. kuriphilus genome as the reference gene set. A total of 1.82 Gb repeats (occupying 79.7% of the genome), including 1.42 Gb of transposable elements and 0.40 Gb of tandem repeats, were identified in D. kuriphilus genome. In the evaluation of completeness, the BUSCO analysis determined a level of 98.1% completeness for the assembled genome sequences based on the Insecta database (OrthoDB version 10). The high-quality genome assembly of D. kuriphilus will not only provide a valuable reference for the study of its evolutionary history and genetic structure but also facilitate the research of host-pest interactions and invasiveness. Moreover, this genome assembly will promote in the development of effective management strategies to mitigate the economic and ecological impacts of this invasive pest on chestnut trees and ecosystems.
栗瘿蜂，俗称栗瘤蜂，属于长尾小蜂科，原产于中国。它是一种高度入侵性昆虫，对栗树造成严重破坏，并迅速传播到包括欧洲、北美和大洋洲在内的各大洲。栗瘿蜂已成为世界上重要的板栗植物害虫之一，并被欧洲和地中海植物保护组织（EPPO）列为检疫对象。在本研究中，我们使用 PacBio 长读长、Illumina 短读长和 Hi-C 测序数据构建了栗瘿蜂基因组的染色体水平组装。组装的基因组包括 14729 个 contigs，总长度为 2.28Gb，contig N50 为 0.8Mb。通过 Hi-C 技术，2.17Gb（95.02%）的 contigs被锚定并定向到 10 条假染色体中，支架 N50 为 198.8Mb，支架 N90 为 158.8Mb。总共预测了组装的栗瘿蜂基因组中的 24086 个蛋白质编码基因作为参考基因集。在栗瘿蜂基因组中鉴定到 1.82Gb 重复序列（占基因组的 79.7%），包括 1.42Gb 的转座元件和 0.40Gb 的串联重复序列。在完整性评估中，基于昆虫数据库（OrthoDB 版本 10），BUSCO 分析确定组装基因组序列的完整性水平为 98.1%。栗瘿蜂高质量的基因组组装不仅为研究其进化历史和遗传结构提供了有价值的参考，还促进了宿主-害虫相互作用和入侵性的研究。此外，该基因组组装将有助于制定有效的管理策略，以减轻这种入侵性害虫对栗树和生态系统的经济和生态影响。
