Near-Chromosomal-Level Genome Assembly of the Sea Urchin Echinometra lucunter, a Model for Speciation in the Sea.
| Autor: | Davidson PL; Department of Biology, Duke University, Durham, North Carolina, USA.; Department of Biology, Indiana University, Bloomington, Indiana, USA., Lessios HA; Smithsonian Tropical Research Institute, Gamboa, Panama., Wray GA; Department of Biology, Duke University, Durham, North Carolina, USA., McMillan WO; Smithsonian Tropical Research Institute, Gamboa, Panama., Prada C; Smithsonian Tropical Research Institute, Gamboa, Panama.; Department of Biological Sciences, University of Rhode Island, Kingston, Rhode Island, USA. |
|---|---|
| Jazyk: | angličtina |
| Zdroj: | Genome biology and evolution [Genome Biol Evol] 2023 Jun 01; Vol. 15 (6). |
| DOI: | 10.1093/gbe/evad093 |
| Abstrakt: | Echinometra lucunter, the rock-boring sea urchin, is a widely distributed echinoid and a model for ecological studies of reproduction, responses to climate change, and speciation. We present a near chromosome-level genome assembly of E. lucunter, including 21 scaffolds larger than 10 Mb predicted to represent each of the chromosomes of the species. The 760.4 Mb assembly includes a scaffold N50 of 30.0 Mb and BUSCO (benchmarking universal single-copy orthologue) single copy and a duplicated score of 95.8% and 1.4%, respectively. Ab-initio gene model prediction and annotation with transcriptomic data constructed 33,989 gene models composing 50.4% of the assembly, including 37,036 transcripts. Repetitive elements make up approximately 39.6% of the assembly, and unresolved gap sequences are estimated to be 0.65%. Whole genome alignment with Echinometra sp. EZ revealed high synteny and conservation between the two species, further bolstering Echinometra as an emerging genus for comparative genomics studies. This genome assembly represents a high-quality genomic resource for future evolutionary and developmental studies of this species and more broadly of echinoderms. (Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution 2023.) |
| Databáze: | MEDLINE |
| Externí odkaz: |
|