Department of Biology, Colorado State University, Fort Collins, Colorado, USA.
Mammalian Genetics, The Jackson Laboratory, Bar Harbor, Maine, USA.
Genome Biol Evol. 2023 Nov 1;15(11). doi: 10.1093/gbe/evad192.
The angiosperm genus Silene has been the subject of extensive study in the field of ecology and evolution, but the availability of high-quality reference genome sequences has been limited for this group. Here, we report a chromosome-level assembly for the genome of Silene conica based on Pacific Bioscience HiFi, Hi-C, and Bionano technologies. The assembly produced 10 scaffolds (1 per chromosome) with a total length of 862 Mb and only ∼1% gap content. These results confirm previous observations that S. conica and its relatives have a reduced base chromosome number relative to the genus's ancestral state of 12. Silene conica has an exceptionally large mitochondrial genome (>11 Mb), predominantly consisting of sequence of unknown origins. Analysis of shared sequence content suggests that it is unlikely that transfer of nuclear DNA is the primary driver of this mitochondrial genome expansion. More generally, this assembly should provide a valuable resource for future genomic studies in Silene, including comparative analyses with related species that recently evolved sex chromosomes.
石竹属植物在生态学和进化领域一直是广泛研究的对象，但该类群的高质量参考基因组序列的可用性有限。在这里，我们基于太平洋生物科学的 HiFi、Hi-C 和 Bionano 技术，报道了圆锥石头花的染色体水平基因组组装。组装产生了 10 个支架（每个染色体 1 个），总长度为 862Mb，仅包含约 1%的缺口内容。这些结果证实了先前的观察结果，即圆锥石头花及其亲缘关系具有相对于该属祖先状态 12 的减少的基本染色体数目。圆锥石头花具有异常大的线粒体基因组（>11Mb），主要由未知来源的序列组成。共享序列内容的分析表明，核 DNA 的转移不太可能是导致这种线粒体基因组扩张的主要驱动力。更一般地说，这个组装应该为未来在石竹属中的基因组研究提供有价值的资源，包括与最近进化出性染色体的相关物种进行比较分析。
