Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, South Korea.
Division of Applied Life Science (BK21 Four), Gyeongsang National University, Jinju, South Korea.
Sci Data. 2024 Apr 13;11(1):381. doi: 10.1038/s41597-024-03239-7.
Alternative splicing (AS) is a widely observed phenomenon in eukaryotes that plays a critical role in development and stress responses. In plants, the large number of RNA-seq datasets in response to different environmental stressors can provide clues for identification of condition-specific and/or common AS variants for preferred agronomic traits. We report RNA-seq datasets (350.7 Gb) from Capsicum annuum inoculated with one of three bacteria, one virus, or one oomycete and obtained additional existing transcriptome datasets. In this study, we investigated the landscape of AS in response to environmental stressors, signaling molecules, and tissues from 425 total samples comprising 841.49 Gb. In addition, we identified genes that undergo AS under specific and shared stress conditions to obtain potential genes that may be involved in enhancing tolerance to stressors. We uncovered 1,642,007 AS events and identified 4,354 differential alternative splicing genes related to environmental stressors, tissues, and signaling molecules. This information and approach provide useful data for basic-research focused on enhancing tolerance to environmental stressors in hot pepper or establishing breeding programs.
可变剪接（AS）是真核生物中广泛存在的一种现象，在发育和应激反应中起着关键作用。在植物中，大量针对不同环境胁迫的 RNA-seq 数据集可以为鉴定特定条件和/或常见的 AS 变体提供线索，这些变体与优选的农艺性状有关。我们报告了 350.7Gb 的辣椒接种三种细菌、一种病毒或一种卵菌后的 RNA-seq 数据集，并获得了额外的现有转录组数据集。在这项研究中，我们研究了 AS 对环境胁迫、信号分子和组织的反应情况，共涉及 425 个样本，总数据量为 841.49Gb。此外，我们鉴定了在特定和共享胁迫条件下发生 AS 的基因，以获得可能参与增强对胁迫耐受的潜在基因。我们发现了 1642007 个 AS 事件，并鉴定了与环境胁迫、组织和信号分子相关的 4354 个差异可变剪接基因。这些信息和方法为专注于提高辣椒对环境胁迫的耐受性或建立育种计划的基础研究提供了有用的数据。
