Supporting data for "Chromosome-level genome assembly of the spotted sea bass, Lateolabrax maculatus"

Dataset type: Genomic, Transcriptomic
Data released on August 21, 2018

Shao C; Li C; Wang N; Yating Q; Xu W; Liu Q; Zhou Q; Zhao Y; Li X; Liu S; Chen X; Mahboob S; Liu X; Chen S (2018): Supporting data for "Chromosome-level genome assembly of the spotted sea bass, Lateolabrax maculatus" GigaScience Database. http://dx.doi.org/10.5524/100458

DOI10.5524/100458

The spotted sea bass (Lateolabrax maculatus) is a valuable commercial fish that is widely cultured in China. While analyses using molecular markers and population genetics have been conducted, genomic resources are lacking. Here, we report a chromosome-scale assembly of the spotted sea bass genome by high-depth genome sequencing, assembly and annotation. The genome scale was 0.62 Gb with contig and scaffold N50 length to be 31 Kb and 1,040 Kb, respectively. Hi-C scaffolding of the genome resulted in 24 pseudochromosomes containing 77.68% of the total assembled sequences. A total of 132.38Mb repeat sequences were detected, accounting for 20.73% of the assemble genome. 22,015 protein-coding genes were predicted, of which 96.52% were homologous to proteins in various databases. In addition, we constructed a phylogenetic tree using 1,586 single-copy gene families and identified 125 unique gene families in the spotted sea bass genome. We assembled a spotted sea bass genome, which will be a valuable genomic resource to understand the biology of the spotted sea bass, and will also lead to the development of molecular breeding techniques to generate spotted sea bass with better economical traits.

Additional details

Read the peer-reviewed publication(s):

Shao, C., Li, C., Wang, N., Qin, Y., Xu, W., Liu, Q., … Chen, S. (2018). Chromosome-level genome assembly of the spotted sea bass, Lateolabrax maculatus. GigaScience. doi:10.1093/gigascience/giy114

Accessions (data included in GigaDB):

BioProject: PRJNA408177





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
SAMN03276538315492  Lateolabrax maculatus Description:RNA extracted from a male spotted sea ...
Alternative names:spotted sea bass
Alternative accession-BioSample:SAMN03276538
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SAMN07680090315492  Lateolabrax maculatus Description:Genomic DNA extracted from a female sp...
Alternative names:spotted sea bass
Alternative accession-BioSample:SAMN07680090
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Displaying 1-2 of 2 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
otherTEXT0.65 KB2018-06-05
otherTEXT0.62 KB2018-06-05
otherTEXT0.67 KB2018-06-05
OtherTEXT0.24 KB2018-08-16
Coding SequenceFASTA36.48 MB2018-06-05
protein sequenceFASTA13.75 MB2018-06-05
Phylogenetic treeNewick0.57 KB2018-08-16
annotationGFF18.55 MB2018-06-05
AlignmentsFASTA1.51 MB2018-06-05
Sequence assemblyFASTA710.87 MB2018-06-05
Displaying 1-10 of 14 File(s).
Funding body Awardee Award ID Comments
Qingdao National Laboratory for Marine Science and Technology Songlin Chen 2017ASTCP-OS15 AoShan Talents Program
Qingdao National Laboratory for Marine Science and Technology Songlin Chen No. 2015ASKJ02-03 Technological Innovation Project
People's Government of Shandong Province Songlin Chen Taishan Scholar Climbing Project of Shandong
People's Government of Shandong Province Changwei Shao Taishan Scholar Project of Shandong for Young Scientists
Date Action
August 21, 2018 Dataset publish
September 3, 2018 Manuscript Link added : 10.1093/gigascience/giy114