The developmental dynamics of the maize leaf transcriptome
The developmental dynamics of the maize leaf transcriptome
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DOI：
10.1038/ng.703
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发表时间：
2010-12-01
期刊：
影响因子：
30.8
通讯作者：
Brutnell, Thomas P.
中科院分区：
文献类型：
--
作者：
Li, Pinghua;Ponnala, Lalit;Brutnell, Thomas P.
我们利用illumina测序技术分析了玉米叶片的转录组。我们绘制了超过1.2亿个reads，以确定基因结构和可选剪接事件，并量化沿叶片发育梯度和成熟束鞘和叶肉细胞的转录物丰度。我们检测到大多数玉米基因的差异mRNA加工事件。我们发现64%和21%的基因沿发育梯度、束鞘和叶肉细胞之间分别存在差异表达。我们实现了Gbrowse，一个电子荧光象形文字浏览器，并创建了一个双细胞生化途径查看器来可视化数据集。聚类分析揭示了一个动态的转录组，叶基的初生细胞壁和基本细胞代谢转录物向叶尖的次生细胞壁生物合成和C-4光合发育转录物过渡。这个数据集将作为理解光合作用发展的系统生物学方法的基础。
We have analyzed the maize leaf transcriptome using illumina sequencing. We mapped more than 120 million reads to define gene structure and alternative splicing events and to quantify transcript abundance along a leaf developmental gradient and in mature bundle sheath and mesophyll cells. We detected differential mRNA processing events for most maize genes. We found that 64% and 21% of genes were differentially expressed along the developmental gradient and between bundle sheath and mesophyll cells, respectively. We implemented Gbrowse, an electronic fluorescent pictograph browser, and created a two-cell biochemical pathway viewer to visualize datasets. Cluster analysis of the data revealed a dynamic transcriptome, with transcripts for primary cell wall and basic cellular metabolism at the leaf base transitioning to transcripts for secondary cell wall biosynthesis and C-4 photosynthetic development toward the tip. This dataset will serve as the foundation for a systems biology approach to the understanding of photosynthetic development.