Voss Erin R, Escalona Merly, Kozak Krzysztof M, Seligmann William, Fairbairn Colin W, Nguyen Oanh, Marimuthu Mohan P A, Conroy Christopher J, Patton James L, Bowie Rauri C K, Nachman Michael W
Museum of Vertebrate Zoology, University of California, Berkeley, CA, 94720, USA.
Department of Integrative Biology, University of California, Berkeley, 94720, USA.
J Hered. 2024 Aug 27. doi: 10.1093/jhered/esae045.
Botta's pocket gopher (Thomomys bottae) is a common and widespread subterranean rodent of the North American west. The species has been of long interest to evolutionary biologists due to the phenotypic diversity across its range and unusual levels of variation in chromosome number and composition. Here, we present a high-quality reference genome from a male T. b. bottae individual captured in the San Francisco Bay Area. The assembly is comprised of 2,792 scaffolds, with a scaffold N50 value of 23.6 Mb and a BUSCO score of 91.0%. This genome helps fill a significant taxonomic sampling gap in rodent genome resources. With this reference genome, we envision new opportunities to investigate questions regarding the genomics of adaptation to the belowground niche. Further, we can begin to explore the impact of associated life history traits, such as limited dispersal and low population connectivity, on intraspecific genetic and phenotypic variation, genome evolution, speciation, and phylogenetic relationships across the Geomyoidea.
博塔囊鼠（Thomomys bottae）是北美西部一种常见且分布广泛的地下啮齿动物。由于其分布范围内的表型多样性以及染色体数量和组成的异常变异水平，该物种长期以来一直受到进化生物学家的关注。在此，我们展示了一只在旧金山湾区捕获的雄性博塔囊鼠个体的高质量参考基因组。该组装由2792个支架组成，支架N50值为23.6 Mb，BUSCO得分91.0%。这个基因组有助于填补啮齿动物基因组资源中一个重大的分类学采样空白。有了这个参考基因组，我们设想有新的机会来研究关于适应地下生态位的基因组学问题。此外，我们可以开始探索相关生活史特征，如有限的扩散和低种群连通性，对囊鼠总科内种内遗传和表型变异、基因组进化、物种形成和系统发育关系的影响。
