Transcriptome sequencing and whole genome expression profiling of chrysanthemum under dehydration stress.
Transcriptome sequencing and whole genome expression profiling of chrysanthemum under dehydration stress.
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脱水胁迫下菊花的转录组测序和全基因组表达谱
DOI：
10.1186/1471-2164-14-662
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发表时间：
2013-09-28
期刊：
影响因子：
4.4
通讯作者：
Hong B
中科院分区：
文献类型：
--
作者：
Xu Y;Gao S;Yang Y;Huang M;Cheng L;Wei Q;Fei Z;Gao J;Hong B
菊花是世界上最重要的观赏植物之一，干旱胁迫严重限制了菊花的生产和分布。为了产生一个功能基因组学资源，并获得更深入的了解有关菊花响应脱水胁迫的分子机制，我们进行了大规模的转录组测序的菊花植物脱水stress.ResultsTwo的mRNA构建的对照和脱水处理幼苗的cDNA文库测序Illumina技术。总共产生了超过1亿个读数，并重新组装成98，180个独特的转录物，通过将其测序与不同的蛋白质数据库进行比较，进一步广泛注释。从这些转录本序列预测生化途径。此外，我们对菊花脱水处理后的基因表达谱进行了分析，并鉴定了8，558个脱水响应的独特转录本，包括307个转录因子和229个蛋白激酶以及许多已知的胁迫响应基因。基因本体论（GO）术语富集和生化途径分析表明，脱水胁迫引起的激素反应，次生代谢和氨基酸代谢，光和光周期反应的变化。这些结果表明，菊花植株的耐旱性可能与调节激素的生物合成和信号传导，减少氧化损伤，稳定细胞蛋白和结构，结论我们的转录组序列为菊花的育种和研究提供了宝贵的资源，为菊花对脱水胁迫的反应提供了新的见解，并提供了候选基因或标记可用于指导今后的耐旱菊花品种选育研究。
BackgroundChrysanthemum is one of the most important ornamental crops in the world and drought stress seriously limits its production and distribution. In order to generate a functional genomics resource and obtain a deeper understanding of the molecular mechanisms regarding chrysanthemum responses to dehydration stress, we performed large-scale transcriptome sequencing of chrysanthemum plants under dehydration stress using the Illumina sequencing technology.ResultsTwo cDNA libraries constructed from mRNAs of control and dehydration-treated seedlings were sequenced by Illumina technology. A total of more than 100 million reads were generated and de novo assembled into 98,180 unique transcripts which were further extensively annotated by comparing their sequencing to different protein databases. Biochemical pathways were predicted from these transcript sequences. Furthermore, we performed gene expression profiling analysis upon dehydration treatment in chrysanthemum and identified 8,558 dehydration-responsive unique transcripts, including 307 transcription factors and 229 protein kinases and many well-known stress responsive genes. Gene ontology (GO) term enrichment and biochemical pathway analyses showed that dehydration stress caused changes in hormone response, secondary and amino acid metabolism, and light and photoperiod response. These findings suggest that drought tolerance of chrysanthemum plants may be related to the regulation of hormone biosynthesis and signaling, reduction of oxidative damage, stabilization of cell proteins and structures, and maintenance of energy and carbon supply.ConclusionsOur transcriptome sequences can provide a valuable resource for chrysanthemum breeding and research and novel insights into chrysanthemum responses to dehydration stress and offer candidate genes or markers that can be used to guide future studies attempting to breed drought tolerant chrysanthemum cultivars.
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