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Draft de novo genome assembly of the elusive jaguarundi, Puma yagouaroundi

Citation

Tamazian, Gaik et al. (2021), Draft de novo genome assembly of the elusive jaguarundi, Puma yagouaroundi, Dryad, Dataset, https://doi.org/10.5061/dryad.wstqjq2mf

Abstract

The Puma lineage within the family Felidae consists of three species that last shared a common ancestor around 4.9 million years ago. Whole-genome sequences of two species from the lineage were previously reported: the cheetah (Acinonyx jubatus) and the mountain lion (Puma concolor). The present report describes a whole-genome assembly of the remaining species, the jaguarundi (Puma yagouaroundi). We sequenced the genome of a male jaguarundi with 10X Genomics linked reads and assembled the whole-genome sequence. The assembled genome contains a series of scaffolds that reach the length of chromosome arms and is similar in scaffold contiguity to the genome assemblies of cheetah and puma, with a contig N50 = 100.2 kbp and a scaffold N50 = 49.27 Mbp. We assessed the assembled sequence of the jaguarundi genome using BUSCO, aligned reads of the sequenced individual and another published female jaguarundi to the assembled genome, annotated protein-coding genes, repeats, genomic variants and their effects with respect to the protein-coding genes, and analyzed differences of the two jaguarundis from the reference mitochondrial genome. The jaguarundi genome assembly and its annotation were compared in quality, variants and features to the previously reported genome assemblies of puma and cheetah. Computational analyzes used in the study were implemented in transparent and reproducible way to allow their further reuse and modification.

Methods

The dataset presents aligned reads and genome annotation (including genomic variants) for jaguarundi (Puma yagouaroundi), aligned reads and genomic variants for cheetah (Acinonyx jubatus), and genomic variants for puma (Puma concolor). The Methods section of the related paper describes how the dataset was collected and processed.

Usage Notes

The dataset contents are described in the ReadMe file. Please use the JDGA Pipelines software to reproduce results reported in the related paper. The link to the software is available in the Related Works section.

Funding

Russian Foundation for Basic Research, Award: 20-34-70055

Russian Science Foundation, Award: 19-14-00034