Two chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae)
Abstract Chironomids are one of the most abundant aquatic insects and are widely distributed in various biological communities. However, the lack of high-quality genomes has hindered our ability to study the evolution and ecology of this group. Here, we used Nanopore long reads and Hi-C data to prod...
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| Format: | Article |
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Nature Portfolio
2024-02-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-024-03010-y |
| _version_ | 1797275950131445760 |
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| author | Yue Fu Xiangliang Fang Yunli Xiao Bin Mao Zigang Xu Mi Shen Xinhua Wang |
| author_facet | Yue Fu Xiangliang Fang Yunli Xiao Bin Mao Zigang Xu Mi Shen Xinhua Wang |
| author_sort | Yue Fu |
| collection | DOAJ |
| description | Abstract Chironomids are one of the most abundant aquatic insects and are widely distributed in various biological communities. However, the lack of high-quality genomes has hindered our ability to study the evolution and ecology of this group. Here, we used Nanopore long reads and Hi-C data to produce two chromosome-level genomes from mixed genomic data. The genomes of Smittia aterrima (SateA) and Smittia pratorum (SateB) were assembled into three chromosomes, with sizes of 78.45 Mb and 71.56 Mb, scaffold N50 lengths of 25.73 and 23.53 Mb, and BUSCO completeness of 98.5% and 97.8% (n = 1,367), 5.68 Mb (7.24%) and 1.94 Mb (2.72%) of repetitive elements, and predicted 12,330 (97.70% BUSCO completeness) and 11,250 (97.40%) protein-coding genes, respectively. These high-quality genomes will serve as valuable resources for comprehending the evolution and environmental adaptation of chironomids. |
| first_indexed | 2024-03-07T15:21:23Z |
| format | Article |
| id | doaj.art-e2e016a2ba7b4b8bbc9bdf0f3736d638 |
| institution | Directory Open Access Journal |
| issn | 2052-4463 |
| language | English |
| last_indexed | 2024-03-07T15:21:23Z |
| publishDate | 2024-02-01 |
| publisher | Nature Portfolio |
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| spelling | doaj.art-e2e016a2ba7b4b8bbc9bdf0f3736d6382024-03-05T17:39:15ZengNature PortfolioScientific Data2052-44632024-02-011111710.1038/s41597-024-03010-yTwo chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae)Yue Fu0Xiangliang Fang1Yunli Xiao2Bin Mao3Zigang Xu4Mi Shen5Xinhua Wang6Hubei Key Laboratory of Economic Forest Germplasm Improvement and Resources Comprehensive Utilization, Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Hubei Zhongke Research Institute of Industrial Technology, College of Biology and Agricultural Resources, Huanggang Normal UniversityHubei Key Laboratory of Economic Forest Germplasm Improvement and Resources Comprehensive Utilization, Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Hubei Zhongke Research Institute of Industrial Technology, College of Biology and Agricultural Resources, Huanggang Normal UniversityHubei Key Laboratory of Economic Forest Germplasm Improvement and Resources Comprehensive Utilization, Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Hubei Zhongke Research Institute of Industrial Technology, College of Biology and Agricultural Resources, Huanggang Normal UniversityHubei Key Laboratory of Economic Forest Germplasm Improvement and Resources Comprehensive Utilization, Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Hubei Zhongke Research Institute of Industrial Technology, College of Biology and Agricultural Resources, Huanggang Normal UniversityHubei Key Laboratory of Economic Forest Germplasm Improvement and Resources Comprehensive Utilization, Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Hubei Zhongke Research Institute of Industrial Technology, College of Biology and Agricultural Resources, Huanggang Normal UniversityHubei Key Laboratory of Economic Forest Germplasm Improvement and Resources Comprehensive Utilization, Hubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Hubei Zhongke Research Institute of Industrial Technology, College of Biology and Agricultural Resources, Huanggang Normal UniversityCollege of Life Sciences, Nankai UniversityAbstract Chironomids are one of the most abundant aquatic insects and are widely distributed in various biological communities. However, the lack of high-quality genomes has hindered our ability to study the evolution and ecology of this group. Here, we used Nanopore long reads and Hi-C data to produce two chromosome-level genomes from mixed genomic data. The genomes of Smittia aterrima (SateA) and Smittia pratorum (SateB) were assembled into three chromosomes, with sizes of 78.45 Mb and 71.56 Mb, scaffold N50 lengths of 25.73 and 23.53 Mb, and BUSCO completeness of 98.5% and 97.8% (n = 1,367), 5.68 Mb (7.24%) and 1.94 Mb (2.72%) of repetitive elements, and predicted 12,330 (97.70% BUSCO completeness) and 11,250 (97.40%) protein-coding genes, respectively. These high-quality genomes will serve as valuable resources for comprehending the evolution and environmental adaptation of chironomids.https://doi.org/10.1038/s41597-024-03010-y |
| spellingShingle | Yue Fu Xiangliang Fang Yunli Xiao Bin Mao Zigang Xu Mi Shen Xinhua Wang Two chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae) Scientific Data |
| title | Two chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae) |
| title_full | Two chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae) |
| title_fullStr | Two chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae) |
| title_full_unstemmed | Two chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae) |
| title_short | Two chromosome-level genomes of Smittia aterrima and Smittia pratorum (Diptera, Chironomidae) |
| title_sort | two chromosome level genomes of smittia aterrima and smittia pratorum diptera chironomidae |
| url | https://doi.org/10.1038/s41597-024-03010-y |
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