Chromosome-level genome assembly and annotation of eel goby (Odontamblyopus rebecca)
Abstract The eel gobies fascinate researchers with many important features, including its unique body structure, benthic lifestyle, and degenerated eyes. However, genome assembly and exploration of the unique genomic composition of the eel gobies are still in their infancy. This has severely limited...
| Main Authors: | , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2024-02-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-024-02997-8 |
| _version_ | 1797275910695550976 |
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| author | Zhenming Lü Ziwei Yu Wenkai Luo Tianwei Liu Yuzheng Wang Yantang Liu Jing Liu Bingjian Liu Li Gong Liqin Liu Yongxin Li |
| author_facet | Zhenming Lü Ziwei Yu Wenkai Luo Tianwei Liu Yuzheng Wang Yantang Liu Jing Liu Bingjian Liu Li Gong Liqin Liu Yongxin Li |
| author_sort | Zhenming Lü |
| collection | DOAJ |
| description | Abstract The eel gobies fascinate researchers with many important features, including its unique body structure, benthic lifestyle, and degenerated eyes. However, genome assembly and exploration of the unique genomic composition of the eel gobies are still in their infancy. This has severely limited research progress on gobies. In this study, multi-platform sequencing data were generated and used to assemble and annotate the genome of O. rebecca at the chromosome-level. The assembled genome size of O. rebecca is 918.57 Mbp, which is similar to the estimated genome size (903.03 Mbp) using 17-mer. The scaffold N50 is 41.67 Mbp, and 23 chromosomes were assembled using Hi-C technology with a mounting rate of 99.96%. Genome annotation indicates that 53.29% of the genome is repetitive sequences, and 22,999 protein-coding genes are predicted, of which 21,855 have functional annotations. The chromosome-level genome of O. rebecca will not only provide important genomic resources for comparative genomic studies of gobies, but also expand our knowledge of the genetic origin of their unique features fascinating researchers for decades. |
| first_indexed | 2024-03-07T15:20:47Z |
| format | Article |
| id | doaj.art-3d705cda3d464c9b9cf59ddcd4fd9d1e |
| institution | Directory Open Access Journal |
| issn | 2052-4463 |
| language | English |
| last_indexed | 2024-03-07T15:20:47Z |
| publishDate | 2024-02-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Data |
| spelling | doaj.art-3d705cda3d464c9b9cf59ddcd4fd9d1e2024-03-05T17:39:32ZengNature PortfolioScientific Data2052-44632024-02-0111111110.1038/s41597-024-02997-8Chromosome-level genome assembly and annotation of eel goby (Odontamblyopus rebecca)Zhenming Lü0Ziwei Yu1Wenkai Luo2Tianwei Liu3Yuzheng Wang4Yantang Liu5Jing Liu6Bingjian Liu7Li Gong8Liqin Liu9Yongxin Li10National Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, College of Marine Sciences and Technology, Zhejiang Ocean UniversitySchool of Ecology and Environment, Northwestern Polytechnical UniversitySchool of Ecology and Environment, Northwestern Polytechnical UniversityNational Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, College of Marine Sciences and Technology, Zhejiang Ocean UniversityNational Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, College of Marine Sciences and Technology, Zhejiang Ocean UniversityNational Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, College of Marine Sciences and Technology, Zhejiang Ocean UniversityNational Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, College of Marine Sciences and Technology, Zhejiang Ocean UniversityNational Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, College of Marine Sciences and Technology, Zhejiang Ocean UniversityNational Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, College of Marine Sciences and Technology, Zhejiang Ocean UniversityNational Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, College of Marine Sciences and Technology, Zhejiang Ocean UniversitySchool of Ecology and Environment, Northwestern Polytechnical UniversityAbstract The eel gobies fascinate researchers with many important features, including its unique body structure, benthic lifestyle, and degenerated eyes. However, genome assembly and exploration of the unique genomic composition of the eel gobies are still in their infancy. This has severely limited research progress on gobies. In this study, multi-platform sequencing data were generated and used to assemble and annotate the genome of O. rebecca at the chromosome-level. The assembled genome size of O. rebecca is 918.57 Mbp, which is similar to the estimated genome size (903.03 Mbp) using 17-mer. The scaffold N50 is 41.67 Mbp, and 23 chromosomes were assembled using Hi-C technology with a mounting rate of 99.96%. Genome annotation indicates that 53.29% of the genome is repetitive sequences, and 22,999 protein-coding genes are predicted, of which 21,855 have functional annotations. The chromosome-level genome of O. rebecca will not only provide important genomic resources for comparative genomic studies of gobies, but also expand our knowledge of the genetic origin of their unique features fascinating researchers for decades.https://doi.org/10.1038/s41597-024-02997-8 |
| spellingShingle | Zhenming Lü Ziwei Yu Wenkai Luo Tianwei Liu Yuzheng Wang Yantang Liu Jing Liu Bingjian Liu Li Gong Liqin Liu Yongxin Li Chromosome-level genome assembly and annotation of eel goby (Odontamblyopus rebecca) Scientific Data |
| title | Chromosome-level genome assembly and annotation of eel goby (Odontamblyopus rebecca) |
| title_full | Chromosome-level genome assembly and annotation of eel goby (Odontamblyopus rebecca) |
| title_fullStr | Chromosome-level genome assembly and annotation of eel goby (Odontamblyopus rebecca) |
| title_full_unstemmed | Chromosome-level genome assembly and annotation of eel goby (Odontamblyopus rebecca) |
| title_short | Chromosome-level genome assembly and annotation of eel goby (Odontamblyopus rebecca) |
| title_sort | chromosome level genome assembly and annotation of eel goby odontamblyopus rebecca |
| url | https://doi.org/10.1038/s41597-024-02997-8 |
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