ArticleMolecular ecology resources2019
De novo assembly of a chromosome-level reference genome of red-spotted grouper (Epinephelus akaara) using nanopore sequencing and Hi-C.
Article in Molecular ecology resources, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers, 1 of them a synthesis that pooled it.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
31 citing papers in PubMed, 1 synthesis or guideline pooled it, 69 citations in OpenAlex.
- Meta-analysis of gonadal transcriptome provides novel insights into sex change mechanism across protogynous fishes.Genes to cells : devoted to molecular & cellular mechanisms · 2024Pooled it
- Reference-Guided Chromosome-Scale Genome Assembly With Insights on Population Genomics of the Atlantic Goliath Grouper (Ecology and evolution · 2026Article
- Molecular Responses of Cold Stress Adaptation in the Red Grouper (Epinephelus Akaara): Compensatory Regulation Between FOXO and MAPK Signaling Pathways.Marine biotechnology (New York, N.Y.) · 2026Article
- Chromosome-Level Genome Assembly and Genomic Analysis of the Hybrid Grouper ShanHu (International journal of molecular sciences · 2025Article
- Telomere-to-telomere gapless genome assembly of the giant grouper (Epinephelus lanceolatus).Scientific data · 2024Article
- Chromosome-level genome assembly and annotation of the camouflage grouper (Epinephelus polyphekadion).Scientific data · 2024Article
- Gap-free telomere-to-telomere haplotype assembly of the tomato hind (Cephalopholis sonnerati).Scientific data · 2024Article
- Identification of Genes and Long Non-Coding RNAs Putatively Related toInternational journal of molecular sciences · 2024Article
- Advances in biotechnology and breeding innovations in China's marine aquaculture.Advanced biotechnology · 2024Review
- Decoding the fish genome opens a new era in important trait research and molecular breeding in China.Science China. Life sciences · 2024Review
- The transcriptional landscape underlying larval development and metamorphosis in the Malabar grouper (eLife · 2024Article
- Chromosome-level genome assembly and annotation of the yellow grouper, Epinephelus awoara.Scientific data · 2024Article
- Chromosome-level genome assembly of humpback grouper using PacBio HiFi reads and Hi-C technologies.Scientific data · 2024Article
- The First High-Quality Chromosome-Level Genome of the Lutjanus erythropterus (Bloch, 1790) Using Single-Tube Long Fragment Reads and Hi-C Technologies.Genome biology and evolution · 2023Article
- Genome assembly and isoform analysis of a highly heterozygous New Zealand fisheries species, the tarakihi (Nemadactylus macropterus).G3 (Bethesda, Md.) · 2023Article
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- Near-chromosomal de novo assembly of Bengal tiger genome reveals genetic hallmarks of apex predation.GigaScience · 2022Article
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- Insights into chromosomal evolution and sex determination of Pseudobagrus ussuriensis (Bagridae, Siluriformes) based on a chromosome-level genome.DNA research : an international journal for rapid publication of reports on genes and genomes · 2022Article
Corrections and comments
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Authors and funding
16 authors at 6 institutions in 1 country.
Funding
Abstract
The red-spotted grouper Epinephelus akaara (E. akaara) is one of the most economically important marine fish in China, Japan and South-East Asia and is a threatened species. The species is also considered a good model for studies of sex inversion, development, genetic diversity and immunity. Despite its importance, molecular resources for E. akaara remain limited and no reference genome has been published to date. In this study, we constructed a chromosome-level reference genome of E. akaara by taking advantage of long-read single-molecule sequencing and de novo assembly by Oxford Nanopore Technology (ONT) and Hi-C. A red-spotted grouper genome of 1.135 Gb was assembled from a total of 106.29 Gb polished Nanopore sequence (GridION, ONT), equivalent to 96-fold genome coverage. The assembled genome represents 96.8% completeness (BUSCO) with a contig N50 length of 5.25 Mb and a longest contig of 25.75 Mb. The contigs were clustered and ordered onto 24 pseudochromosomes covering approximately 95.55% of the genome assembly with Hi-C data, with a scaffold N50 length of 46.03 Mb. The genome contained 43.02% repeat sequences and 5,480 noncoding RNAs. Furthermore, combined with several RNA-seq data sets, 23,808 (99.5%) genes were functionally annotated from a total of 23,923 predicted protein-coding sequences. The high-quality chromosome-level reference genome of E. akaara was assembled for the first time and will be a valuable resource for molecular breeding and functional genomics studies of red-spotted grouper in the future.
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