ArticleScientific data2024
Chromosomal-level genome assembly and annotation of the tropical sea cucumber Holothuria scabra.
Article in Scientific data, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Sea CucumberResearch square · 2026Article
- Eupentacta fraudatrix: the first chromosome-level holothurian genome with extraordinarily high heterozygosity.Scientific data · 2026Article
- A stage and anatomy ontology for embryogenesis in indirect-developing echinoderms.Development (Cambridge, England) · 2026Article
- Chromosome-level genome assembly and annotation of the tropical sea cucumber Holothuria fuscocinerea.Scientific data · 2026Article
- Chromosome-level genome assembly and annotation of the tropical sea cucumber Bohadschia ocellate.Scientific data · 2025Article
- A chromosome-level genome assembly for the brown sea cucumber from the Galápagos Islands, Isostichopus fuscus.Scientific data · 2025Article
- Chromosome-level genome assembly of the sea cucumber, Colochirus anceps.Scientific data · 2025Article
- The sandfish identity: phylogeographic reconstructions uncover a species complex within the Indo-Pacific distribution of Holothuria (Metriatyla) scabra.BMC ecology and evolution · 2025Article
- A chromosomal-level genome assembly of the tropical sea cucumber Stichopus fusiformiossa.Scientific data · 2025Article
- Advances in biotechnology and breeding innovations in China's marine aquaculture.Advanced biotechnology · 2024Review
- Chromosomal-level genome assembly and annotation of the tropical sea cucumber Holothuria scabra.Scientific data · 2024Article
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Authors and funding
12 authors.
Funding
Abstract
Holothuria scabra, a commercially valuable yet ecologically vulnerable tropical holothuroid, has experienced a severe decline in its wild populations, especially in China. Genomic resources are crucial for the development of effective genomic breeding projects and stock conservation strategies to restore these natural populations. Until now, a high-quality, chromosome-level reference genome for H. scabra has not been available. Here, we employed Oxford Nanopore and Hi-C sequencing technologies to assemble and annotate a high-quality, chromosome-level reference genome of H. scabra. The final genome comprised 31 scaffolds with a total length of 1.19 Gb and a scaffold N50 length of 53.52 Mb. Remarkably, 1,191.67 Mb (99.95%) of the sequences were anchored to 23 pseudo-chromosomes, with the longest one spanning 79.75 Mb. A total of 34,418 protein-coding genes were annotated in the final genome, with BUSCO analysis revealing 98.01% coverage of metazoa_odb10 genes, marking a significant improvement compared to the previous report. These chromosome-level sequences and annotations will provide an essential genomic basis for further investigation into molecular breeding and conservation management of H. scabra.
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