Chromosome-level genome assembly of an Arctic fish species pale eelpout (Lycodes pallidus)
Abstract Eelpouts (Zoarcidae) are known for their bipolar distributions and distinctive biogeographic histories. However, limited genomic data have hindered our understanding of their adaptive evolution. In this study, we present a thoroughly annotated chromosome-level genome assembly of pale eelpou...
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| Format: | Article |
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Nature Portfolio
2025-07-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-025-05385-y |
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| author | Ran Zhang Rui Wang Xing Miao Hai Li Puqing Song Yuan Li Longshan Lin |
| author_facet | Ran Zhang Rui Wang Xing Miao Hai Li Puqing Song Yuan Li Longshan Lin |
| author_sort | Ran Zhang |
| collection | DOAJ |
| description | Abstract Eelpouts (Zoarcidae) are known for their bipolar distributions and distinctive biogeographic histories. However, limited genomic data have hindered our understanding of their adaptive evolution. In this study, we present a thoroughly annotated chromosome-level genome assembly of pale eelpout (Lycodes pallidus) generated through the integration of Illumina, PacBio circular consensus, and Hi-C sequencing techniques. The final assembly spans 753.4 Mb, with its high quality confirmed by a scaffold N50 of 28.6 Mb and a Benchmarking Universal Single-Copy Ortholog (BUSCO) completeness of 99.3%. In comparison to other eelpouts and related fishes, the L. pallidus genome is larger and exhibits greater repetitive element content, accounting for approximately 45% of its total length. We annotated 21,419 protein-coding genes, a significant proportion of which are involved in signal transduction mechanisms and transcription. These findings provide valuable genetic resources for elucidating the evolutionary mechanisms underlying polar fish adaptation. |
| format | Article |
| id | doaj-art-4fb03588f1e343ffa098037eee818a0d |
| institution | DOAJ |
| issn | 2052-4463 |
| language | English |
| publishDate | 2025-07-01 |
| publisher | Nature Portfolio |
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| series | Scientific Data |
| spelling | doaj-art-4fb03588f1e343ffa098037eee818a0d2025-08-20T03:04:18ZengNature PortfolioScientific Data2052-44632025-07-011211810.1038/s41597-025-05385-yChromosome-level genome assembly of an Arctic fish species pale eelpout (Lycodes pallidus)Ran Zhang0Rui Wang1Xing Miao2Hai Li3Puqing Song4Yuan Li5Longshan Lin6Laboratory of Marine Biodiversity Research, Third Institute of Oceanography, Ministry of Natural ResourcesLaboratory of Marine Biodiversity Research, Third Institute of Oceanography, Ministry of Natural ResourcesLaboratory of Marine Biodiversity Research, Third Institute of Oceanography, Ministry of Natural ResourcesLaboratory of Marine Biodiversity Research, Third Institute of Oceanography, Ministry of Natural ResourcesLaboratory of Marine Biodiversity Research, Third Institute of Oceanography, Ministry of Natural ResourcesLaboratory of Marine Biodiversity Research, Third Institute of Oceanography, Ministry of Natural ResourcesLaboratory of Marine Biodiversity Research, Third Institute of Oceanography, Ministry of Natural ResourcesAbstract Eelpouts (Zoarcidae) are known for their bipolar distributions and distinctive biogeographic histories. However, limited genomic data have hindered our understanding of their adaptive evolution. In this study, we present a thoroughly annotated chromosome-level genome assembly of pale eelpout (Lycodes pallidus) generated through the integration of Illumina, PacBio circular consensus, and Hi-C sequencing techniques. The final assembly spans 753.4 Mb, with its high quality confirmed by a scaffold N50 of 28.6 Mb and a Benchmarking Universal Single-Copy Ortholog (BUSCO) completeness of 99.3%. In comparison to other eelpouts and related fishes, the L. pallidus genome is larger and exhibits greater repetitive element content, accounting for approximately 45% of its total length. We annotated 21,419 protein-coding genes, a significant proportion of which are involved in signal transduction mechanisms and transcription. These findings provide valuable genetic resources for elucidating the evolutionary mechanisms underlying polar fish adaptation.https://doi.org/10.1038/s41597-025-05385-y |
| spellingShingle | Ran Zhang Rui Wang Xing Miao Hai Li Puqing Song Yuan Li Longshan Lin Chromosome-level genome assembly of an Arctic fish species pale eelpout (Lycodes pallidus) Scientific Data |
| title | Chromosome-level genome assembly of an Arctic fish species pale eelpout (Lycodes pallidus) |
| title_full | Chromosome-level genome assembly of an Arctic fish species pale eelpout (Lycodes pallidus) |
| title_fullStr | Chromosome-level genome assembly of an Arctic fish species pale eelpout (Lycodes pallidus) |
| title_full_unstemmed | Chromosome-level genome assembly of an Arctic fish species pale eelpout (Lycodes pallidus) |
| title_short | Chromosome-level genome assembly of an Arctic fish species pale eelpout (Lycodes pallidus) |
| title_sort | chromosome level genome assembly of an arctic fish species pale eelpout lycodes pallidus |
| url | https://doi.org/10.1038/s41597-025-05385-y |
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