Genome assemblies and annotation of Verpa bohemica and Verpa conica

We constructed subchromosomal genome assemblies for six strains of Verpa combing Nanopore and Illumina sequencing technologies. The average assembly sizes were 44.38 Mb for V. bohemica and 45.40 Mb for V. conica. Additionally, Hi-C data were used to anchor V. bohemica strain 21108 and V. conica strain 21120 to chromosomes 26 and 25, respectively. Benchmarking Universal Single-Copy Orthologue (BUSCO) analysis revealed that the completeness of the final assemblies exceeds 95%. Following the assembly and quality assessments, we annotated protein-coding genes and analyzed the phylogenetic relationships of the genus Verpa. We observed the presence of multiple accessory chromosomes in Verpa, suggesting the complexity of their chromosomal evolution. Furthermore, trough analyses of expaned gene families, along with the detecting of carbohydrate-active enzymes (CAZymes), we conducted a preliminary exploration of the genetic basis underlying the saprotrophic nutritional strategy of Verpa.

本研究结合纳米孔（Nanopore）测序与Illumina测序技术，为6株钟菌属（Verpa）菌株构建了亚染色体级基因组组装体。波希米亚钟菌（V. bohemica）的平均组装基因组大小为44.38 Mb，圆锥钟菌（V. conica）的平均组装基因组大小为45.40 Mb。此外，本研究利用Hi-C测序数据，将波希米亚钟菌菌株21108与圆锥钟菌菌株21120分别挂载至26条与25条染色体上。通用单拷贝同源基因基准测试（Benchmarking Universal Single-Copy Orthologue, BUSCO）分析结果显示，最终基因组组装的完整度超过95%。完成基因组组装与质量评估后，本研究对蛋白编码基因进行了注释，并解析了钟菌属的系统发育关系。研究团队在钟菌属基因组中发现了多条附属染色体，提示该类群的染色体演化过程具有较高复杂性。此外，通过对扩张基因家族的分析，结合碳水化合物活性酶（carbohydrate-active enzymes, CAZymes）的注释鉴定，本研究对钟菌属腐生营养策略的遗传基础开展了初步探索。