Response of Gene Expression and Alternative Splicing to Distinct Growth Environments in Tomato.
Response of Gene Expression and Alternative Splicing to Distinct Growth Environments in Tomato.
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番茄基因表达和选择性剪接对不同生长环境的响应
DOI：
10.3390/ijms18030475
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发表时间：
2017-03-02
影响因子：
5.6
通讯作者：
Xiao H
中科院分区：
文献类型：
--
作者：
Wang G;Weng L;Li M;Xiao H
表型可塑性是一种特定的基因在不同的环境条件下产生不同的表型的现象，但其潜在的分子和遗传机制尚不清楚。可塑性特征可能受到基因的控制，这些基因的表达受到环境线索的调节。在这项研究中，我们通过比较两种不同生长条件下生长的番茄幼苗的整体基因表达，研究了番茄(Solanum Lycopersicum)及其祖先种小叶茄子(S.pimpinellifolium)的表型可塑性。我们的结果表明，从人工气候室到塑料温室，超过7000个基因表现出对环境变化的差异表达，而98个环境敏感基因在两个番茄物种中表现出相同的表达响应模式。我们还发现，生长条件对转录组的复杂性有显著影响，这归因于选择性剪接(AS)，其中665个剪接变体对环境变化表现出差异表达。此外，塑料温室幼苗比人工气候室幼苗检测到更多的剪接变异体和每个基因的AS事件，这些幼苗也有更高比例的内含子保留事件。本研究中保守的环境敏感基因和剪接变异体的鉴定将有助于进一步分析番茄和其他作物环境反应的基因调控。
Phenotypic plasticity is the phenomenon that one particular genotype produces different phenotypes under different environmental conditions, but its underlying molecular and genetic mechanisms are poorly understood. Plastic traits may be under the control of genes whose expression is modulated by environmental cues. In this study, we investigated phenotypic plasticity in tomato (Solanum lycopersicum) and its ancestral species S. pimpinellifolium by comparing the global gene expression of young seedlings grown under two distinct growth conditions. Our results show that more than 7000 genes exhibited differential expression in response to environmental changes from phytotron to a plastic greenhouse, and 98 environmentally sensitive genes displayed the same patterns of expression response across the two tomato species. We also found that growth conditions had a remarkable impact on transcriptome complexity, attributable to alternative splicing (AS), in which 665 splice variants showed differential expression in response to the environmental changes. Moreover, more splice variants and AS events per gene were detected in plastic greenhouse-grown seedlings than their phytotron counterparts, and these seedlings also had higher percentages of intron retention events. The identification of the conserved environmentally-sensitive genes and the splice variants in this study will be useful for further analysis of gene regulation of environmental response in tomato and other crops.