State Key Laboratory of Tree Genetics and Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China.
National Genomics Data Center & CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China; China National Center for Bioinformation, Beijing 100101, China; University of Chinese Academy of Sciences, Beijing 100049, China.
J Mol Biol. 2024 Sep 1;436(17):168530. doi: 10.1016/j.jmb.2024.168530. Epub 2024 Mar 9.
Through an extensive literature survey, we have upgraded the Leaf Senescence Database (LSD v5.0; https://ngdc.cncb.ac.cn/lsd/), a curated repository of comprehensive senescence-associated genes (SAGs) and their corresponding mutants. Since its inception in 2010, LSD undergoes frequent updates to encompass the latest advances in leaf senescence research and its current version comprises a high-quality collection of 31,740 SAGs and 1,209 mutants from 148 species, which were manually searched based on robust experimental evidence and further categorized according to their functions in leaf senescence. Furthermore, LSD was greatly enriched with comprehensive annotations for the SAGs through meticulous curation using both manual and computational methods. In addition, it was equipped with user-friendly web interfaces that facilitate text queries, BLAST searches, and convenient download of SAG sequences for localized analysis. Users can effortlessly navigate the database to access a plethora of information, including literature references, mutants, phenotypes, multi-omics data, miRNA interactions, homologs in other plants, and cross-links to various databases. Taken together, the upgraded version of LSD stands as the most comprehensive and informative plant senescence-related database to date, incorporating the largest collection of SAGs and thus bearing great utility for a wide range of studies related to plant senescence.
通过广泛的文献调查，我们对已有的 Leaf Senescence Database（LSD v5.0；https://ngdc.cncb.ac.cn/lsd/）进行了升级，该数据库是一个经过精心整理的综合性衰老相关基因（SAGs）及其相应突变体的存储库。自 2010 年成立以来，LSD 经常进行更新，以涵盖叶片衰老研究的最新进展，其当前版本包含来自 148 个物种的 31740 个 SAG 和 1209 个突变体，这些数据是基于可靠的实验证据手动搜索的，并根据其在叶片衰老中的功能进一步分类。此外，通过使用手动和计算方法进行细致的整理，LSD 为 SAG 提供了全面的注释。此外，它还配备了用户友好的 Web 界面，方便文本查询、BLAST 搜索以及 SAG 序列的便捷下载，以进行本地化分析。用户可以轻松浏览数据库，访问大量信息，包括文献参考、突变体、表型、多组学数据、miRNA 相互作用、其他植物中的同源物以及与各种数据库的交叉链接。总之，升级后的 LSD 版本是迄今为止最全面、最具信息量的植物衰老相关数据库，它包含了最大的 SAG 集合，因此对于与植物衰老相关的广泛研究具有很大的实用价值。
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