ArticleGenome biology2019
Chromosome-level genome assembly for giant panda provides novel insights into Carnivora chromosome evolution.
Article in Genome biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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24 citing papers in PubMed, 44 citations in OpenAlex.
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- Comparative Analysis of Olfactory Receptor Repertoires Sheds Light on the Diet Adaptation of the Bamboo-Eating Giant Panda Based on the Chromosome-Level Genome.Animals : an open access journal from MDPI · 2023Article
- Near-chromosomal de novo assembly of Bengal tiger genome reveals genetic hallmarks of apex predation.GigaScience · 2022Article
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- How low can you go? Introducing SeXY: sex identification from low-quantity sequencing data despite lacking assembled sex chromosomes.Ecology and evolution · 2022Article
- Limited Introgression between Rock-Wallabies with Extensive Chromosomal Rearrangements.Molecular biology and evolution · 2022Article
- Telomere-to-telomere genome assembly of asparaginase-producing Trichoderma simmonsii.BMC genomics · 2021Article
- Hi-C scaffolded short- and long-read genome assemblies of the California sea lion are broadly consistent for syntenic inference across 45 million years of evolution.Molecular ecology resources · 2021Article
- A Chromosome-Level Genome of the Agile Gracile Mouse Opossum (Gracilinanus agilis).Genome biology and evolution · 2021Article
- Genome Warehouse: A Public Repository Housing Genome-scale Data.Genomics, proteomics & bioinformatics · 2021Article
- An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus.The Journal of heredity · 2021Article
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Authors and funding
6 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundChromosome evolution is an important driver of speciation and species evolution. Previous studies have detected chromosome rearrangement events among different Carnivora species using chromosome painting strategies. However, few of these studies have focused on chromosome evolution at a nucleotide resolution due to the limited availability of chromosome-level Carnivora genomes. Although the de novo genome assembly of the giant panda is available, current short read-based assemblies are limited to moderately sized scaffolds, making the study of chromosome evolution difficult.
resultsHere, we present a chromosome-level giant panda draft genome with a total size of 2.29 Gb. Based on the giant panda genome and published chromosome-level dog and cat genomes, we conduct six large-scale pairwise synteny alignments and identify evolutionary breakpoint regions. Interestingly, gene functional enrichment analysis shows that for all of the three Carnivora genomes, some genes located in evolutionary breakpoint regions are significantly enriched in pathways or terms related to sensory perception of smell. In addition, we find that the sweet receptor gene TAS1R2, which has been proven to be a pseudogene in the cat genome, is located in an evolutionary breakpoint region of the giant panda, suggesting that interchromosomal rearrangement may play a role in the cat TAS1R2 pseudogenization.
conclusionsWe show that the combined strategies employed in this study can be used to generate efficient chromosome-level genome assemblies. Moreover, our comparative genomics analyses provide novel insights into Carnivora chromosome evolution, linking chromosome evolution to functional gene evolution.
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