哥伦比亚圣玛尔塔内华达山脉特有的濒危圣玛尔塔丑角蟾蜍的基因组组装。

IF 3 2区生物学 Q2 EVOLUTIONARY BIOLOGY

Journal of Heredity Pub Date : 2025-05-15 DOI:10.1093/jhered/esaf029

Victor L N Araújo, José H Grau, Luis Alberto Rueda-Solano, José D Barros-Castañeda, Sandra V Flechas, Andrew J Crawford

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引用次数: 0

摘要

尽管许多丑角蟾蜍（无尾目：蟾科：足足蟾蜍）具有重要的保护地位，并且它们在阐明新发疾病对两栖动物的影响方面具有重要意义，但该属的基因组数据很少。在这里，我们利用PacBio HiFi测序数据，展示了Santa Marta Harlequin Toad， Atelopus laetissimus的全新基因组组装，这是首次发表的Atelopus基因组组装，也是来自哥伦比亚的第二个两栖动物基因组组装。该组件由1487个contigs组成，覆盖率为35倍，N50为31 Mb，总长度为3.5 Gb。四足动物BUSCO得分为92%表明我们的组装非常接近完成。分析显示，重复序列含量高，70%的基因组由散布的重复序列组成。这种高邻近的草案组装将推动寻找这些圣玛尔塔内华达山脉濒危蟾蜍对病原体抗性的可能遗传基础，并促进正在进行的进化研究。

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Genome assembly of the endangered Santa Marta Harlequin Toad, Atelopus laetissimus, endemic to the Sierra Nevada de Santa Marta of Colombia.

Despite the critical conservation status of many harlequin toads (Anura: Bufonidae: Atelopus) and their significance in elucidating the impacts of emerging diseases on amphibians, genomic data for this genus are scarce. Here, we present a de novo genome assembly of the Santa Marta Harlequin Toad, Atelopus laetissimus, using PacBio HiFi sequencing data, representing the first published Atelopus genome assembly and only the second amphibian genome assembly from Colombia. The assembly consists of 1,487 contigs at 35X coverage with an N50 of 31 Mb and a total length of 3.5 Gb. A Tetrapoda BUSCO score of 92% suggests our assembly is very nearly complete. Analysis revealed a high repeat content, with 70% of the genome consisting of interspersed repeats. This high-contiguity draft assembly will drive the search for a possible genetic basis of pathogen resistance in these endangered toads of the Sierra Nevada de Santa Marta, as well as facilitate ongoing evolutionary studies.

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来源期刊

Journal of Heredity 生物-遗传学

CiteScore

5.20

自引率

6.50%

发文量

审稿时长

6-12 weeks

期刊介绍： Over the last 100 years, the Journal of Heredity has established and maintained a tradition of scholarly excellence in the publication of genetics research. Virtually every major figure in the field has contributed to the journal. Established in 1903, Journal of Heredity covers organismal genetics across a wide range of disciplines and taxa. Articles include such rapidly advancing fields as conservation genetics of endangered species, population structure and phylogeography, molecular evolution and speciation, molecular genetics of disease resistance in plants and animals, genetic biodiversity and relevant computer programs.