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首页> 外文期刊>Journal of Experimental Botany >Transcriptome analysis of rice mature root tissue and root tips in early development by massive parallel sequencing.
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Transcriptome analysis of rice mature root tissue and root tips in early development by massive parallel sequencing.

机译：通过大规模平行测序对水稻成熟根组织和早期发育的根尖进行转录组分析。

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Despite the major physiological dissimilarities between mature root regions and their tips, differences in their gene expression profiles remain largely unexplored. In this research, the transcriptome of rice (Oryza sativa L. subsp. japonica) mature root tissue and root tips was monitored using mRNA-Seq at two time points. Almost 50 million 76 bp reads were mapped onto the rice genome sequence, expression patterns for different tissues and time points were investigated, and at least 1106 novel transcriptionally active regions (nTARs) expressed in rice root tissue were detected. More than 30 000 genes were found to be expressed in rice roots, among which were 1761 root-enriched and 306 tip-enriched transcripts. Mature root tissue appears to respond more strongly to external stimuli than tips, showing a higher expression of, for instance, auxin-responsive and abscisic acid-responsive genes, as well as the phenylpropanoid pathway and photosynthesis upon light. The root tip-enriched transcripts are mainly involved in mitochondrial electron transport, organelle development, secondary metabolism, DNA replication and metabolism, translation, and cellular component organization. During root maturation, genes involved in cell wall biosynthesis and modification, response to oxidative stress, and secondary metabolism were activated. For some nTARs, a potential role in root development can be put forward based on homology to genes involved in CLAVATA signalling, cell cycle regulators, and hormone signalling. A subset of differentially expressed genes and novel transcripts was confirmed using (quantitative) reverse transcription-PCR. These results uncover previously unrecognized tissue-specific expression profiles and provide an interesting starting point to study the different regulation of transcribed regions of these tissues.
机译：尽管成熟的根部区域和它们的尖端之间在生理学上有很大的不同，但是它们的基因表达谱上的差异仍未得到充分探索。在这项研究中，在两个时间点使用mRNA-Seq监测了水稻（Oryza sativa L. subsp。 japonica ）成熟根组织和根尖的转录组。在水稻基因组序列上定位了近5000万个76 bp读段，研究了不同组织和时间点的表达模式，并检测了至少1106个在水稻根组织中表达的新型转录活性区（nTAR）。发现水稻根中表达了超过3万个基因，其中有1761个富集根和306个富集尖的转录本。成熟的根部组织似乎比尖端对外部刺激的反应更强烈，显示出例如生长素应答性和脱落酸应答性基因以及苯丙烷途径和光合作用的更高表达。根尖富集的转录物主要涉及线粒体电子运输，细胞器发育，次级代谢，DNA复制和代谢，翻译和细胞成分组织。在根成熟过程中，激活了参与细胞壁生物合成和修饰，对氧化应激的反应以及次级代谢的基因。对于某些nTAR，可以根据与CLAVATA信号传导，细胞周期调节剂和激素信号传导相关基因的同源性，提出在根发育中的潜在作用。使用（定量）逆转录PCR确认了差异表达基因和新转录本的子集。这些结果揭示了以前无法识别的组织特异性表达谱，并为研究这些组织转录区的不同调控提供了有趣的起点。

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