Alternative splicing in tomato pollen in response to heat stress.
Alternative splicing in tomato pollen in response to heat stress.
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DOI：
10.1093/dnares/dsw051
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发表时间：
2017-04-01
期刊：
影响因子：
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通讯作者：
Simm S
中科院分区：
文献类型：
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作者：
Keller M;Hu Y;Mesihovic A;Fragkostefanakis S;Schleiff E;Simm S
选择性剪接(AS)是影响不同发育阶段和胁迫条件下信号反应级联的关键调控机制。在这项研究中，我们检测了热胁迫(HS)诱导的两个番茄品种的热敏花粉组织中的AS。为了获得HS相关AS的全部光谱，将HS后直接采集的样品和恢复后的样品组合在一起，并用RNA-SEQ进行分析。对于每个品种近9,200个基因，我们在HS下观察到至少一个AS事件。与对照相比，在HS下，我们观察到一个品种的内含子保留(IR)或外显子跳跃(ES)的基因增加了76%。此外，2,343个基因至少有1个转录本在HS条件下积累IR或ES。这些基因参与蛋白质折叠、基因表达和热反应等生物过程。这些基因的转录组组装显示，大多数选择性剪接的转录本都具有截短的编码序列，导致部分或全部功能结构域的丧失。此外，还鉴定了141个HS特异转录本和22个HS抑制转录本。在此基础上，我们提出AS作为应激反应的一层，通过异构体丰度来调控HS条件下的结构性表达基因。
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.