Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing 100083, China.
National Genomics Data Center, Beijing 100101, China.
Nucleic Acids Res. 2020 Jan 8;48(D1):D1069-D1075. doi: 10.1093/nar/gkz898.
The leaf senescence database (LSD) is a comprehensive resource of senescence-associated genes (SAGs) and their corresponding mutants. Through manual curation and extensive annotation, we updated the LSD to a new version LSD 3.0, which contains 5853 genes and 617 mutants from 68 species. To provide sustainable and reliable services for the plant research community, LSD 3.0 (https://bigd.big.ac.cn/lsd/) has been moved to and maintained by the National Genomics Data Center at Beijing Institute of Genomics, Chinese Academy of Sciences. In the current release, we added some new features: (i) Transcriptome data of leaf senescence in poplar were integrated; (ii) Leaf senescence-associated transcriptome data information in Arabidopsis, rice and soybean were included; (iii) Senescence-differentially expressed small RNAs (Sen-smRNA) in Arabidopsis were identified; (iv) Interaction pairs between Sen-smRNAs and senescence-associated transcription factors (Sen-TF) were established; (v) Senescence phenotypes of 90 natural accessions (ecotypes) and 42 images of ecotypes in Arabidopsis were incorporated; (vi) Mutant seed information of SAGs in rice obtained from Kitbase was integrated; (vii) New options of search engines for ecotypes and transcriptome data were implemented. Together, the updated database bears great utility to continue to provide users with useful resources for studies of leaf senescence.
叶片衰老数据库（LSD）是一个综合性的衰老相关基因（SAG）及其相应突变体资源库。通过人工整理和广泛注释，我们将 LSD 更新到了一个新版本 LSD 3.0，其中包含来自 68 个物种的 5853 个基因和 617 个突变体。为了为植物研究界提供可持续和可靠的服务，LSD 3.0（https://bigd.big.ac.cn/lsd/）已被转移并由中国科学院北京基因组研究所国家基因组科学数据中心维护。在当前版本中，我们增加了一些新功能：（i）整合了杨树叶片衰老的转录组数据；（ii）包含了拟南芥、水稻和大豆的叶片衰老相关转录组数据信息；（iii）鉴定了拟南芥中衰老差异表达的小 RNA（Sen-smRNA）；（iv）建立了 Sen-smRNA 与衰老相关转录因子（Sen-TF）之间的互作对；（v）整合了 90 个自然群体（生态型）的衰老表型和 42 个拟南芥生态型的图像；（vi）整合了 Kitbase 中获得的水稻 SAG 突变体种子信息；（vii）为生态型和转录组数据的搜索引擎实现了新的选项。总的来说，更新后的数据库非常有用，将继续为用户提供研究叶片衰老的有用资源。
