A Chromosomal-scale Reference Genome of the Kelp Grouper Epinephelus moara
- PDF / 1,127,253 Bytes
- 5 Pages / 595.276 x 790.866 pts Page_size
- 79 Downloads / 150 Views
SHORT COMMUNICATION
A Chromosomal-scale Reference Genome of the Kelp Grouper Epinephelus moara Qian Zhou 1,2 & Haoyang Gao 3 & Hao Xu 1 & Haoran Lin 4 & Songlin Chen 1,2 Received: 15 June 2020 / Accepted: 28 September 2020 # Springer Science+Business Media, LLC, part of Springer Nature 2020
Abstract The kelp grouper, Epinephelus moara, is a carnivorous coral reef fish widely distributing in the Indo-Pacific Oceans. Compared to other grouper species, E. moara is featured for its wide tolerance to environmental stresses, such as temperature and salinity. In addition, it is popularly used as a breeding species for hybrid grouper production. Here, we report the de novo sequencing and assembly of E. moara genome using a combination of Illumina pair-ended, PacBio and Hi-C technologies. We generated a 1.08 Gb genome assembly with a scaffold N50 of 44.93 Mb and contig N50 of 2.22 Mb. The scaffolds and contigs were clustered and oriented into 24 chromosomes, and 24,135 protein-coding genes were predicted, among which 96.8% were annotated. More than 95.6% of the conserved complete genes were successfully retrieved by BUSCO analysis. Comparative genomic analyses showed that some expanded gene families in the E. moara genome were significantly enriched in innate immune pathways. The E. moara genome provides a valuable resource for genetic improvement and genomic breeding of groupers, as well as evolutionary and comparative study with other grouper species. Keywords Genome assembly . Chromosome . Annotation . Kelp grouper . Epinephelus moara
Introduction Groupers (Epinephelus sp.) are carnivorous coral reef fishes distributing in tropical and subtropical oceans. Kelp grouper, Epinephelus moara, exhibits a strong Qian Zhou and Haoyang Gao contributed equally to this work. Electronic supplementary material The online version of this article (https://doi.org/10.1007/s10126-020-10003-6) contains supplementary material, which is available to authorized users. * Haoran Lin [email protected] * Songlin Chen [email protected] 1
Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Key Laboratory for Sustainable Development of Marine Fisheries, Ministry of Agriculture, 266071 Qingdao, China
2
Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266373, China
3
BGI-Qingdao, BGI-Shenzhen, Qingdao 266555, China
4
School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China
adaptability to a wide range of water temperature and other environmental factors such as salinity (Okada et al. 1996). Therefore, in the artificial culturing industry, the kelp grouper has been commercially cultured for marketing and popularly used in cross breeding to produce hybrid groupers that harbour advantageous traits. However, high malformation rates and low survival rates were observed in the artificial propagation of kelp grouper. In addition, infection of various pathogens has caused mass mortality and economic losses (
Data Loading...
