Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao 266003, China.
Institute of Marine and Environmental Technology, Department of Biochemistry and Molecular Biology, University of Maryland School of Medicine, Baltimore, MD, USA.
Mar Biotechnol (NY). 2024 Aug;26(4):827-834. doi: 10.1007/s10126-024-10327-7. Epub 2024 Jun 1.
The molluscan family Ostreidae, commonly known as oysters, is an important molluscan group due to its economic and ecological importance. In recent years, an abundance of genomic data of Ostreidae species has been generated and available in public domain. However, there is still a lack of a high-efficiency database platform to store and distribute these data with comprehensive tools. In this study, we developed an oyster genome database (OysterDB) to consolidate oyster genomic data. This database includes eight oyster genomes and 208,923 protein-coding gene annotations. Bioinformatic tools, such as BLAST and JBrowse, are integrated into the database to provide a user-friendly platform for homologous sequence searching, visualization of genomes, and screen for candidate gene information. Moreover, OysterDB will be continuously updated with ever-growing oyster genomic resources and facilitate future studies for comparative and functional genomic analysis of oysters ( http://oysterdb.com.cn/ ).
软体动物牡蛎科（Ostreidae），俗称牡蛎，是一类具有重要经济和生态意义的软体动物。近年来，大量牡蛎物种的基因组数据已经产生并在公共领域中可用。然而，仍然缺乏一个高效的数据库平台来存储和分发这些数据，并提供全面的工具。在这项研究中，我们开发了一个牡蛎基因组数据库（OysterDB）来整合牡蛎基因组数据。该数据库包括 8 个牡蛎基因组和 208923 个编码蛋白的基因注释。生物信息学工具，如 BLAST 和 JBrowse，被整合到数据库中，为同源序列搜索、基因组可视化和候选基因信息筛选提供了一个用户友好的平台。此外，牡蛎数据库将随着牡蛎基因组资源的不断增长而持续更新，并促进未来对牡蛎的比较和功能基因组分析的研究（http://oysterdb.com.cn/）。
