ArticleGigaScience2024
A high-quality chromosomal genome assembly of the sea cucumber Chiridota heheva and its hydrothermal adaptation.
Article in GigaScience, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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9 citing papers in PubMed, 12 citations in OpenAlex.
- Eupentacta fraudatrix: the first chromosome-level holothurian genome with extraordinarily high heterozygosity.Scientific data · 2026Article
- DOO: integrated multi-omics resources for deep ocean organisms.Nucleic acids research · 2026Article
- The complete mitochondrial genome of Holothuria atra (Holothuriida: Holothuriidae: Holothuria) and its structural characteristics.PloS one · 2026Article
- The genome of the reef-building coralGigaByte (Hong Kong, China) · 2026Article
- 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
- A chromosomal-level genome assembly of the tropical sea cucumber Stichopus fusiformiossa.Scientific data · 2025Article
- The complete mitochondrial genome ofMitochondrial DNA. Part B, Resources · 2025Article
- A high-quality chromosomal genome assembly of the sea cucumber Chiridota heheva and its hydrothermal adaptation.GigaScience · 2024Article
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4 authors at 1 institution in 1 country.
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Abstract
backgroundChiridota heheva is a cosmopolitan holothurian well adapted to diverse deep-sea ecosystems, especially chemosynthetic environments. Besides high hydrostatic pressure and limited light, high concentrations of metal ions also represent harsh conditions in hydrothermal environments. Few holothurian species can live in such extreme conditions. Therefore, it is valuable to elucidate the adaptive genetic mechanisms of C. heheva in hydrothermal environments.
findingsHerein, we report a high-quality reference genome assembly of C. heheva from the Kairei vent, which is the first chromosome-level genome of Apodida. The chromosome-level genome size was 1.43 Gb, with a scaffold N50 of 53.24 Mb and BUSCO completeness score of 94.5%. Contig sequences were clustered, ordered, and assembled into 19 natural chromosomes. Comparative genome analysis found that the expanded gene families and positively selected genes of C. heheva were involved in the DNA damage repair process. The expanded gene families and the unique genes contributed to maintaining iron homeostasis in an iron-enriched environment. The positively selected gene RFC2 with 10 positively selected sites played an essential role in DNA repair under extreme environments.
conclusionsThis first chromosome-level genome assembly of C. heheva reveals the hydrothermal adaptation of holothurians. As the first chromosome-level genome of order Apodida, this genome will provide the resource for investigating the evolution of class Holothuroidea.
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