Department of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA, United States.
Department of Botany, California Academy of Sciences, San Francisco, CA, United States.
J Hered. 2022 Nov 30;113(6):712-721. doi: 10.1093/jhered/esac052.
Sandblossoms, Linanthus parryae is a widespread annual plant species found in washes and sandy open habitats across the Mojave Desert and Eastern Sierra Nevada of California. Studies in this species have played a central role in evolutionary biology, serving as the first test cases of the shifting balance theory of evolution, models of isolation by distance, and metrics to describe the genetic structure of natural populations. Despite the importance of L. parryae in the development of landscape genetics and phylogeography, there are no genomic resources available for the species. Through the California Conservation Genomics Project, we assembled the first genome in the genus Linanthus. Using PacBio HiFi long reads and Hi-C chromatin conformation capture, we assembled 123 scaffolds spanning 1.51 Gb of the 1.96 Gb estimated genome, with a contig N50 of 18.7 Mb and a scaffold N50 of 124.8 Mb. This assembly, with a BUSCO completeness score of 88.7%, will allow us to revisit foundational ideas central to our understanding of how evolutionary forces operate in a geographic landscape. In addition, it will be a new resource to uncover adaptations to arid environments in the fragile desert habitat threatened by urban and solar farm development, climate change, and off-road vehicles.
砂原荠，林氏荠是一种广泛分布的一年生植物，分布于莫哈韦沙漠和加利福尼亚州东内华达山脉的溪流和沙质开阔生境中。该物种的研究在进化生物学中起着核心作用，是进化的摆动平衡理论、距离隔离模型以及描述自然种群遗传结构的度量标准的首批检验案例。尽管林氏荠在景观遗传学和系统地理学的发展中具有重要意义，但该物种尚无基因组资源。通过加利福尼亚保护基因组学计划，我们组装了林氏荠属的第一个基因组。我们使用 PacBio HiFi 长读长和 Hi-C 染色质构象捕获技术，组装了 123 个支架，跨越了 1.96 亿碱基对估计基因组的 1.51 亿碱基对，其中 contig N50 为 18.7 Mb，scaffold N50 为 124.8 Mb。该组装体的 BUSCO 完整性评分为 88.7%，将使我们能够重新审视我们理解地理景观中进化力量如何发挥作用的核心基本概念。此外，它将成为一个新的资源，以揭示在脆弱的沙漠生境中对干旱环境的适应，该生境受到城市和太阳能农场开发、气候变化和越野车的威胁。
