Improved chromosomal-level genome assembly and re-annotation of leopard coral grouper
Abstract Plectropomus leopardus, as known as leopard coral grouper, is a valuable marine fish that has gradually been bred artificially. To promote future conservation, molecular breeding, and comparative studies, we generated an improved high-quality chromosomal-level genome assembly of leopard cor...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2023-03-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-023-02051-z |
| _version_ | 1827985156071227392 |
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| author | Wentao Han Shaoxuan Wu Hui Ding Mingyi Wang Mengya Wang Zhenmin Bao Bo Wang Jingjie Hu |
| author_facet | Wentao Han Shaoxuan Wu Hui Ding Mingyi Wang Mengya Wang Zhenmin Bao Bo Wang Jingjie Hu |
| author_sort | Wentao Han |
| collection | DOAJ |
| description | Abstract Plectropomus leopardus, as known as leopard coral grouper, is a valuable marine fish that has gradually been bred artificially. To promote future conservation, molecular breeding, and comparative studies, we generated an improved high-quality chromosomal-level genome assembly of leopard coral grouper using Nanopore long-reads, Illumina short reads, and the Hi-C sequencing data. The draft genome is 849.74 Mb with 45 contigs and N50 of 35.59 Mb. Finally, a total of 846.49 Mb corresponding to 99.6% of the contig sequences was anchored to 24 pseudo-chromosomes using Hi-C technology. A final set of 25,965 genes is annotated after manual curation of the predicted gene models, and BUSCO analysis yielded a completeness score of 99.5%. This study significantly improves the utility of the grouper genome and provided a reference for the study of molecular breeding, genomics and biology in this species. |
| first_indexed | 2024-04-09T23:10:23Z |
| format | Article |
| id | doaj.art-003ade4949e949d595d6f539d75908e0 |
| institution | Directory Open Access Journal |
| issn | 2052-4463 |
| language | English |
| last_indexed | 2024-04-09T23:10:23Z |
| publishDate | 2023-03-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Data |
| spelling | doaj.art-003ade4949e949d595d6f539d75908e02023-03-22T10:23:42ZengNature PortfolioScientific Data2052-44632023-03-011011710.1038/s41597-023-02051-zImproved chromosomal-level genome assembly and re-annotation of leopard coral grouperWentao Han0Shaoxuan Wu1Hui Ding2Mingyi Wang3Mengya Wang4Zhenmin Bao5Bo Wang6Jingjie Hu7MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences/Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of ChinaMOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences/Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of ChinaMOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences/Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of ChinaMOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences/Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of ChinaMOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences/Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of ChinaMOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences/Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of ChinaMOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences/Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of ChinaMOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences/Key Laboratory of Tropical Aquatic Germplasm of Hainan Province, Sanya Oceanographic Institution, Ocean University of ChinaAbstract Plectropomus leopardus, as known as leopard coral grouper, is a valuable marine fish that has gradually been bred artificially. To promote future conservation, molecular breeding, and comparative studies, we generated an improved high-quality chromosomal-level genome assembly of leopard coral grouper using Nanopore long-reads, Illumina short reads, and the Hi-C sequencing data. The draft genome is 849.74 Mb with 45 contigs and N50 of 35.59 Mb. Finally, a total of 846.49 Mb corresponding to 99.6% of the contig sequences was anchored to 24 pseudo-chromosomes using Hi-C technology. A final set of 25,965 genes is annotated after manual curation of the predicted gene models, and BUSCO analysis yielded a completeness score of 99.5%. This study significantly improves the utility of the grouper genome and provided a reference for the study of molecular breeding, genomics and biology in this species.https://doi.org/10.1038/s41597-023-02051-z |
| spellingShingle | Wentao Han Shaoxuan Wu Hui Ding Mingyi Wang Mengya Wang Zhenmin Bao Bo Wang Jingjie Hu Improved chromosomal-level genome assembly and re-annotation of leopard coral grouper Scientific Data |
| title | Improved chromosomal-level genome assembly and re-annotation of leopard coral grouper |
| title_full | Improved chromosomal-level genome assembly and re-annotation of leopard coral grouper |
| title_fullStr | Improved chromosomal-level genome assembly and re-annotation of leopard coral grouper |
| title_full_unstemmed | Improved chromosomal-level genome assembly and re-annotation of leopard coral grouper |
| title_short | Improved chromosomal-level genome assembly and re-annotation of leopard coral grouper |
| title_sort | improved chromosomal level genome assembly and re annotation of leopard coral grouper |
| url | https://doi.org/10.1038/s41597-023-02051-z |
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