两种斯米蒂亚飞蝇（双翅目，摇蚊科）的染色体水平基因组。

Two chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae).

机构信息

Hubei Key Laboratory of Economic Forest Germplasm Improvement and Resources Comprehensive Utilization, Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Hubei Zhongke Research Institute of Industrial Technology, College of Biology and Agricultural Resources, Huanggang Normal University, Huanggang City, Hubei, 438000, China.

College of Life Sciences, Nankai University, Tianjin, 300071, China.

出版信息

Sci Data. 2024 Feb 3;11(1):165. doi: 10.1038/s41597-024-03010-y.

DOI:10.1038/s41597-024-03010-y

PMID:38310146

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10838273/

Abstract

Chironomids are one of the most abundant aquatic insects and are widely distributed in various biological communities. However, the lack of high-quality genomes has hindered our ability to study the evolution and ecology of this group. Here, we used Nanopore long reads and Hi-C data to produce two chromosome-level genomes from mixed genomic data. The genomes of Smittia aterrima (SateA) and Smittia pratorum (SateB) were assembled into three chromosomes, with sizes of 78.45 Mb and 71.56 Mb, scaffold N50 lengths of 25.73 and 23.53 Mb, and BUSCO completeness of 98.5% and 97.8% (n = 1,367), 5.68 Mb (7.24%) and 1.94 Mb (2.72%) of repetitive elements, and predicted 12,330 (97.70% BUSCO completeness) and 11,250 (97.40%) protein-coding genes, respectively. These high-quality genomes will serve as valuable resources for comprehending the evolution and environmental adaptation of chironomids.

摘要

摇蚊是最丰富的水生昆虫之一，广泛分布于各种生物群落中。然而，高质量基因组的缺乏阻碍了我们研究该类群进化和生态学的能力。在这里，我们使用纳米孔长读长和 Hi-C 数据从混合基因组数据中生成了两个染色体水平的基因组。Smittia aterrima（SateA）和 Smittia pratorum（SateB）的基因组被组装成三个染色体，大小分别为 78.45 Mb 和 71.56 Mb，支架 N50 长度分别为 25.73 Mb 和 23.53 Mb，BUSCO 完整性分别为 98.5%和 97.8%（n=1367），重复元件分别为 5.68 Mb（7.24%）和 1.94 Mb（2.72%），分别预测了 12330 个（97.70% BUSCO 完整性）和 11250 个（97.40% BUSCO 完整性）蛋白编码基因。这些高质量的基因组将成为理解摇蚊进化和环境适应的有价值的资源。