Telomere-to-telomere genome assembly of Phoxinus lagowskii
Abstract As an important economic and ecological fish, Amur minnow (Phoxinus lagowskii) plays a significant role in food products as well as evolutionary, ecological research. However, a high-quality chromosome-level genome of P. lagowskii is not currently available. In this study, we report a T2T (...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2025-06-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-025-05367-0 |
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| author | Yanfeng Zhou Chunhai Chen Dian Fang Chenhe Wang Yajuan Peng Binhu Wang Minying Zhang Yang You Yixin Liu Guoping Deng Jianbo Jian Dongpo Xu |
| author_facet | Yanfeng Zhou Chunhai Chen Dian Fang Chenhe Wang Yajuan Peng Binhu Wang Minying Zhang Yang You Yixin Liu Guoping Deng Jianbo Jian Dongpo Xu |
| author_sort | Yanfeng Zhou |
| collection | DOAJ |
| description | Abstract As an important economic and ecological fish, Amur minnow (Phoxinus lagowskii) plays a significant role in food products as well as evolutionary, ecological research. However, a high-quality chromosome-level genome of P. lagowskii is not currently available. In this study, we report a T2T (Telomere-to-telomere) genome for P. lagowskii with chromosome-level. The finally assembled genome size is 1.04 G, with a contig N50 of 41.7 Mb, comprising 25 chromosomes. The transposable elements constituted 512.40 Mb (49.22%) of the assembled P. lagowskii genome, with DNA transposons 25.02% being the predominant repeat type. A total of 2,4610 protein-coding genes were predicted in P. lagowskii genome, with 99.96% of these genes being functionally annotated. The identification of telomeres, BUSCO assessment, mapping coverage, and sequencing depth collectively demonstrated the high quality of the genome assembly. The T2T genomic information serves as an invaluable resource for studies in evolution, comparative genomics, fish breeding applications, and ecological research. |
| format | Article |
| id | doaj-art-b0c5396864ea45e6baf24fb8a89788fc |
| institution | Kabale University |
| issn | 2052-4463 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Data |
| spelling | doaj-art-b0c5396864ea45e6baf24fb8a89788fc2025-08-20T03:47:24ZengNature PortfolioScientific Data2052-44632025-06-0112111010.1038/s41597-025-05367-0Telomere-to-telomere genome assembly of Phoxinus lagowskiiYanfeng Zhou0Chunhai Chen1Dian Fang2Chenhe Wang3Yajuan Peng4Binhu Wang5Minying Zhang6Yang You7Yixin Liu8Guoping Deng9Jianbo Jian10Dongpo Xu11Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery SciencesBGI GenomicsKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery SciencesBGI GenomicsBGI GenomicsBGI GenomicsKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery SciencesKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery SciencesLiaoning Institute of Freshwater FisheriesDalian Ocean UniversityBGI GenomicsKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery SciencesAbstract As an important economic and ecological fish, Amur minnow (Phoxinus lagowskii) plays a significant role in food products as well as evolutionary, ecological research. However, a high-quality chromosome-level genome of P. lagowskii is not currently available. In this study, we report a T2T (Telomere-to-telomere) genome for P. lagowskii with chromosome-level. The finally assembled genome size is 1.04 G, with a contig N50 of 41.7 Mb, comprising 25 chromosomes. The transposable elements constituted 512.40 Mb (49.22%) of the assembled P. lagowskii genome, with DNA transposons 25.02% being the predominant repeat type. A total of 2,4610 protein-coding genes were predicted in P. lagowskii genome, with 99.96% of these genes being functionally annotated. The identification of telomeres, BUSCO assessment, mapping coverage, and sequencing depth collectively demonstrated the high quality of the genome assembly. The T2T genomic information serves as an invaluable resource for studies in evolution, comparative genomics, fish breeding applications, and ecological research.https://doi.org/10.1038/s41597-025-05367-0 |
| spellingShingle | Yanfeng Zhou Chunhai Chen Dian Fang Chenhe Wang Yajuan Peng Binhu Wang Minying Zhang Yang You Yixin Liu Guoping Deng Jianbo Jian Dongpo Xu Telomere-to-telomere genome assembly of Phoxinus lagowskii Scientific Data |
| title | Telomere-to-telomere genome assembly of Phoxinus lagowskii |
| title_full | Telomere-to-telomere genome assembly of Phoxinus lagowskii |
| title_fullStr | Telomere-to-telomere genome assembly of Phoxinus lagowskii |
| title_full_unstemmed | Telomere-to-telomere genome assembly of Phoxinus lagowskii |
| title_short | Telomere-to-telomere genome assembly of Phoxinus lagowskii |
| title_sort | telomere to telomere genome assembly of phoxinus lagowskii |
| url | https://doi.org/10.1038/s41597-025-05367-0 |
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