School of Life Sciences, Taizhou University, Zhejiang 318000, China.
Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China.
Genome Biol Evol. 2022 Apr 10;14(4). doi: 10.1093/gbe/evac039.
The family Tomoceridae is among the earliest derived collembolan lineages, thus is of key importance in understanding the evolution of Collembola. Here, we assembled a chromosome-level genome of one tomocerid species Tomocerus qinae by combining Nanopore long reads and Hi-C data. The final genome size was 334.44 Mb with the scaffold/contig N50 length of 71.85/13.94 Mb. BUSCO assessment indicated that 96.80% of complete arthropod universal single-copy orthologs (n = 1,013) were present in the assembly. The repeat elements accounted for 26.11% (87.26 Mb) and 494 noncoding RNAs were identified in the genome. A total of 20,451 protein-coding genes were predicted, which captured 96.0% (973) BUSCO genes. Gene family evolution analyses identified 4,825 expanded gene families of T. qinae, among them, 47 experienced significant expansions, and these significantly expanded gene families mainly involved in proliferation and growth. This study provides an important genomic resource for future evolution and comparative genomics analyses of Collembola.
汤姆科瑟家族是最早期衍生的弹尾目谱系之一，因此对于理解弹尾目的进化具有关键重要性。在这里，我们通过结合纳米孔长读和 Hi-C 数据，组装了一种汤姆科瑟物种 Tomocerus qinae 的染色体水平基因组。最终基因组大小为 334.44 Mb，支架/连续体 N50 长度分别为 71.85/13.94 Mb。BUSCO 评估表明，组装中存在 96.80%的完整节肢动物通用单拷贝直系同源物（n=1,013）。重复元件占 26.11%（87.26 Mb），鉴定出 494 个非编码 RNA。总共预测了 20,451 个蛋白质编码基因，其中捕获了 96.0%（973）的 BUSCO 基因。基因家族进化分析确定了 T. qinae 的 4,825 个扩展基因家族，其中 47 个经历了显著扩展，这些显著扩展的基因家族主要涉及增殖和生长。这项研究为未来弹尾目的进化和比较基因组学分析提供了重要的基因组资源。
