{"title":"牛奶红树林 Excoecaria agallocha 的基因组组装。","authors":"","doi":"10.46471/gigabyte.119","DOIUrl":null,"url":null,"abstract":"<p><p>The milky mangrove <i>Excoecaria agallocha</i> is a latex-secreting mangrove that are distributed in tropical and subtropical regions. While its poisonous latex is regarded as a potential source of phytochemicals for biomedical applications, the genomic resources of <i>E. agallocha</i> remains limited. Here, we present a chromosomal level genome of <i>E. agallocha</i>, assembled from the combination of PacBio long-read sequencing and Omni-C data. The resulting assembly size is 1,332.45 Mb and has high contiguity and completeness with a scaffold N50 of 58.9 Mb and a BUSCO score of 98.4%, with 86.08% of sequences anchored to 18 pseudomolecules. 73,740 protein-coding genes were also predicted. The milky mangrove genome provides a useful resource for further understanding the biosynthesis of phytochemical compounds in <i>E. agallocha</i>.</p>","PeriodicalId":73157,"journal":{"name":"GigaByte (Hong Kong, China)","volume":"2024 ","pages":"gigabyte119"},"PeriodicalIF":0.0000,"publicationDate":"2024-04-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11066562/pdf/","citationCount":"0","resultStr":"{\"title\":\"Genome assembly of the milky mangrove <i>Excoecaria agallocha</i>.\",\"authors\":\"\",\"doi\":\"10.46471/gigabyte.119\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>The milky mangrove <i>Excoecaria agallocha</i> is a latex-secreting mangrove that are distributed in tropical and subtropical regions. While its poisonous latex is regarded as a potential source of phytochemicals for biomedical applications, the genomic resources of <i>E. agallocha</i> remains limited. Here, we present a chromosomal level genome of <i>E. agallocha</i>, assembled from the combination of PacBio long-read sequencing and Omni-C data. The resulting assembly size is 1,332.45 Mb and has high contiguity and completeness with a scaffold N50 of 58.9 Mb and a BUSCO score of 98.4%, with 86.08% of sequences anchored to 18 pseudomolecules. 73,740 protein-coding genes were also predicted. The milky mangrove genome provides a useful resource for further understanding the biosynthesis of phytochemical compounds in <i>E. agallocha</i>.</p>\",\"PeriodicalId\":73157,\"journal\":{\"name\":\"GigaByte (Hong Kong, China)\",\"volume\":\"2024 \",\"pages\":\"gigabyte119\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2024-04-25\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11066562/pdf/\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"GigaByte (Hong Kong, China)\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/10.46471/gigabyte.119\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2024/1/1 0:00:00\",\"PubModel\":\"eCollection\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"GigaByte (Hong Kong, China)","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.46471/gigabyte.119","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2024/1/1 0:00:00","PubModel":"eCollection","JCR":"","JCRName":"","Score":null,"Total":0}
引用次数: 0
摘要
乳汁红树林（Excoecaria agallocha）是一种分泌乳汁的红树林，分布于热带和亚热带地区。虽然其有毒的乳汁被认为是生物医学应用中植物化学物质的潜在来源，但 E. agallocha 的基因组资源仍然有限。在这里，我们展示了结合 PacBio 长线程测序和 Omni-C 数据组装的 E. agallocha 染色体级基因组。组装结果大小为 1,332.45 Mb，具有很高的连续性和完整性，支架 N50 为 58.9 Mb，BUSCO 得分为 98.4%，其中 86.08% 的序列锚定在 18 个假分子上。此外，还预测了 73,740 个编码蛋白质的基因。乳汁红树林基因组为进一步了解 E. agallocha 植物化学物质的生物合成提供了有用的资源。
Genome assembly of the milky mangrove Excoecaria agallocha.
The milky mangrove Excoecaria agallocha is a latex-secreting mangrove that are distributed in tropical and subtropical regions. While its poisonous latex is regarded as a potential source of phytochemicals for biomedical applications, the genomic resources of E. agallocha remains limited. Here, we present a chromosomal level genome of E. agallocha, assembled from the combination of PacBio long-read sequencing and Omni-C data. The resulting assembly size is 1,332.45 Mb and has high contiguity and completeness with a scaffold N50 of 58.9 Mb and a BUSCO score of 98.4%, with 86.08% of sequences anchored to 18 pseudomolecules. 73,740 protein-coding genes were also predicted. The milky mangrove genome provides a useful resource for further understanding the biosynthesis of phytochemical compounds in E. agallocha.
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