ArticleBMC biology2020
Long live the king: chromosome-level assembly of the lion (Panthera leo) using linked-read, Hi-C, and long-read data.
Article in BMC biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 66 citations in OpenAlex.
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- Reference genome bias in light of species-specific chromosomal reorganization and translocations.Genome biology · 2025Article
- Parameterizing Pantherinae: De Novo Mutation Rate Estimates from Panthera and Neofelis Pedigrees.Genome biology and evolution · 2025Article
- The Impact of Oxford Nanopore Technologies Based Methodologies on the Genome Sequencing and Assembly of Romanian Strains ofInsects · 2024Article
- Extant and extinct bilby genomes combined with Indigenous knowledge improve conservation of a unique Australian marsupial.Nature ecology & evolution · 2024Article
- A chromosome-scale fishing cat reference genome for the evaluation of potential germline risk variants.Scientific reports · 2024Article
- Chromosome-level assembly of the gray fox (Urocyon cinereoargenteus) confirms the basal loss of PRDM9 in Canidae.G3 (Bethesda, Md.) · 2024Article
- Whole genomes show contrasting trends of population size changes and genomic diversity for an Amazonian endemic passerine over the late quaternary.Ecology and evolution · 2024Article
- The Addis Ababa Lions: Whole-Genome Sequencing of a Rare and Precious Population.Genome biology and evolution · 2024Article
- Single-haplotype comparative genomics provides insights into lineage-specific structural variation during cat evolution.Nature genetics · 2023Article
- How genomic insights into the evolutionary history of clouded leopards inform their conservation.Science advances · 2023Article
- Genomics reveals introgression and purging of deleterious mutations in the Arabian leopard (iScience · 2023Article
- Chromosome-level, nanopore-only genome and allele-specific DNA methylation of Pallas's cat,NAR genomics and bioinformatics · 2023Article
- Population genomic analysis provides evidence of the past success and future potential of South China tiger captive conservation.BMC biology · 2023Article
- Whole genome analysis of clouded leopard species reveals an ancient divergence and distinct demographic histories.iScience · 2022Article
- A chromosome-level genome assembly reveals genomic characteristics of the American mink (Neogale vison).Communications biology · 2022Article
- Genome report: chromosome-level draft assemblies of the snow leopard, African leopard, and tiger (Panthera uncia, Panthera pardus pardus, and Panthera tigris).G3 (Bethesda, Md.) · 2022Article
- A Beary Good Genome: Haplotype-Resolved, Chromosome-Level Assembly of the Brown Bear (Ursus arctos).Genome biology and evolution · 2022Article
- Whole genome sequencing and the application of a SNP panel reveal primary evolutionary lineages and genomic variation in the lion (Panthera leo).BMC genomics · 2022Article
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Authors and funding
7 authors at 4 institutions in 1 country.
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Abstract
backgroundThe lion (Panthera leo) is one of the most popular and iconic feline species on the planet, yet in spite of its popularity, the last century has seen massive declines for lion populations worldwide. Genomic resources for endangered species represent an important way forward for the field of conservation, enabling high-resolution studies of demography, disease, and population dynamics. Here, we present a chromosome-level assembly from a captive African lion from the Exotic Feline Rescue Center (Center Point, IN) as a resource for current and subsequent genetic work of the sole social species of the Panthera clade.
resultsOur assembly is composed of 10x Genomics Chromium data, Dovetail Hi-C, and Oxford Nanopore long-read data. Synteny is highly conserved between the lion, other Panthera genomes, and the domestic cat. We find variability in the length of runs of homozygosity across lion genomes, indicating contrasting histories of recent and possibly intense inbreeding and bottleneck events. Demographic analyses reveal similar ancient histories across all individuals during the Pleistocene except the Asiatic lion, which shows a more rapid decline in population size. We show a substantial influence on the reference genome choice in the inference of demographic history and heterozygosity.
conclusionsWe demonstrate that the choice of reference genome is important when comparing heterozygosity estimates across species and those inferred from different references should not be compared to each other. In addition, estimates of heterozygosity or the amount or length of runs of homozygosity should not be taken as reflective of a species, as these can differ substantially among individuals. This high-quality genome will greatly aid in the continuing research and conservation efforts for the lion, which is rapidly moving towards becoming a species in danger of extinction.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.