TY - JOUR

T1 - Draft de novo Genome Assembly of the Elusive Jaguarundi, Puma yagouaroundi

AU - Тамазян, Гайк Симакович

AU - Добрынин, Павел Владимирович

AU - Жук, Анна Сергеевна

AU - Жернакова, Дарья Вячеславовна

AU - Перельман, Полина

AU - Сердюкова, Наталья

AU - Графодатский, Александр Сергеевич

AU - Комиссаров, Алексей Сергеевич

AU - Кливер, Сергей Федорович

AU - Черкасов, Николай Андреевич

AU - Scott, Alan F.

AU - Mohr, David W.

AU - Копфли, Клаус - Питер

AU - О Брайен, Стефан Джеймс

AU - Крашенинникова, Ксения Владимировна

PY - 2021/9/1

Y1 - 2021/9/1

N2 - The Puma lineage within the family Felidae consists of 3 species that last shared a common ancestor around 4.9 million years ago. Whole-genome sequences of 2 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 2 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.

AB - The Puma lineage within the family Felidae consists of 3 species that last shared a common ancestor around 4.9 million years ago. Whole-genome sequences of 2 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 2 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.

KW - Puma yagouaroundi

KW - , 10X Genomics Chromium

KW - Felidae

KW - whole genome assembly

KW - genome annotation

KW - linked reads

KW - 10X Genomics Chromium

KW - Puma/genetics

KW - Genomics

KW - Molecular Sequence Annotation

KW - Male

KW - Animals

KW - Female

KW - Genome

KW - VISUALIZATION

KW - CATS

KW - QUALITY ASSESSMENT

KW - FELIDAE

KW - ALIGNMENT

KW - DATABASE

UR - http://www.scopus.com/inward/record.url?scp=85119474938&partnerID=8YFLogxK

UR - https://www.mendeley.com/catalogue/fa146d17-142c-3567-9b66-4f936b4ce191/

U2 - 10.1093/jhered/esab036

DO - 10.1093/jhered/esab036

M3 - Article

C2 - 34146095

VL - 112

SP - 540

EP - 548

JO - Journal of Heredity

JF - Journal of Heredity

SN - 0022-1503

IS - 6

M1 - esab036

ER -