Transcriptome profiling of cytokinin and auxin regulation in tomato root.
Transcriptome profiling of cytokinin and auxin regulation in tomato root.
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DOI：
10.1093/jxb/ers365
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发表时间：
2013-01
影响因子：
6.9
通讯作者：
Rashotte AM
中科院分区：
文献类型：
--
作者：
Gupta S;Shi X;Lindquist IE;Devitt N;Mudge J;Rashotte AM
番茄是一种模式作物，具有重要的经济价值，但有关番茄根中基因表达的信息却很少。目前，只有少数研究研究番茄根部的激素反应，而没有在全基因组水平上进行研究。本研究使用Illumina RNA测序检查了番茄根区域（根尖、侧根和全根）的转录组图谱以及每个根区域响应于植物激素细胞分裂素和生长素的转录调控。超过1.65亿个1×54碱基对读数被映射到番茄参考基因组上，并评估了每个根区域响应每种激素的差异表达模式。许多新的细胞分裂素和生长素诱导和抑制的基因被确定为显着差异表达，并通过qPCR证实了几个的表达水平。许多这些调节基因代表了在其他物种中鉴定的细胞分裂素或生长素调节基因的番茄直系同源物，包括CKX、A型RR、Aux/IAAs和ARF。此外，这些数据证实了最近在番茄中检查的基因如SlIAAs和SlGH 3s的一些激素调节研究。此外，在每个根区域中大量表达的基因被鉴定，其提供了许多类基因的空间分布，包括植物防御、次生代谢产物的产生和整个根的一般代谢。总的来说，这项研究提出了第一个全球表达模式的番茄根，这将是功能相关的针对番茄根的生长和发育的研究。
Tomato is a model and economically important crop plant with little information available about gene expression in roots. Currently, there have only been a few studies that examine hormonal responses in tomato roots and none at a genome-wide level. This study examined the transcriptome atlas of tomato root regions (root tip, lateral roots, and whole roots) and the transcriptional regulation of each root region in response to the plant hormones cytokinin and auxin using Illumina RNA sequencing. More than 165 million 1×54 base pair reads were mapped onto the Solanum lycopersicum reference genome and differential expression patterns in each root region in response to each hormone were assessed. Many novel cytokinin- and auxin-induced and -repressed genes were identified as significantly differentially expressed and the expression levels of several were confirmed by qPCR. A number of these regulated genes represent tomato orthologues of cytokinin- or auxin-regulated genes identified in other species, including CKXs, type-A RRs, Aux/IAAs, and ARFs. Additionally, the data confirm some of the hormone regulation studies for recently examined genes in tomato such as SlIAAs and SlGH3s. Moreover, genes expressed abundantly in each root region were identified which provide a spatial distribution of many classes of genes, including plant defence, secondary metabolite production, and general metabolism across the root. Overall this study presents the first global expression patterns of hormone-regulated transcripts in tomato roots, which will be functionally relevant for future studies directed towards tomato root growth and development.
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影响因子：
11.8
作者：
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