Department of Biosciences, Molecular Cell Biology of Plants.
Cluster of Excellence Frankfurt.
DNA Res. 2017 Apr 1;24(2):205-217. doi: 10.1093/dnares/dsw051.
Alternative splicing (AS) is a key control mechanism influencing signal response cascades in different developmental stages and under stress conditions. In this study, we examined heat stress (HS)-induced AS in the heat sensitive pollen tissue of two tomato cultivars. To obtain the entire spectrum of HS-related AS, samples taken directly after HS and after recovery were combined and analysed by RNA-seq. For nearly 9,200 genes per cultivar, we observed at least one AS event under HS. In comparison to control, for one cultivar we observed 76% more genes with intron retention (IR) or exon skipping (ES) under HS. Furthermore, 2,343 genes had at least one transcript with IR or ES accumulated under HS in both cultivars. These genes are involved in biological processes like protein folding, gene expression and heat response. Transcriptome assembly of these genes revealed that most of the alternative spliced transcripts possess truncated coding sequences resulting in partial or total loss of functional domains. Moreover, 141 HS specific and 22 HS repressed transcripts were identified. Further on, we propose AS as layer of stress response regulating constitutively expressed genes under HS by isoform abundance.
可变剪接 (AS) 是影响不同发育阶段和应激条件下信号反应级联的关键调控机制。在这项研究中，我们研究了两个番茄品种中热敏感花粉组织中热应激 (HS) 诱导的 AS。为了获得与 HS 相关的整个 AS 谱，我们将 HS 后直接取样和恢复后取样组合，并通过 RNA-seq 进行分析。对于每个品种的近 9200 个基因，我们观察到至少有一个 AS 事件在 HS 下发生。与对照相比，在一个品种中，我们观察到 76%的基因在 HS 下存在内含子保留 (IR) 或外显子跳跃 (ES)。此外，在两个品种中，有 2343 个基因至少有一个带有 IR 或 ES 的转录本在 HS 下积累。这些基因参与蛋白质折叠、基因表达和热响应等生物学过程。这些基因的转录组组装表明，大多数可变剪接转录本具有截断的编码序列，导致功能域的部分或完全缺失。此外，还鉴定了 141 个 HS 特异性和 22 个 HS 抑制性转录本。此外，我们提出 AS 是一种通过异构体丰度调节 HS 下组成型表达基因的应激反应层。
