Next-generation sequencing-based mRNA and microRNA expression profiling analysis revealed pathways involved in the rapid growth of developing culms in Moso bamboo.
Next-generation sequencing-based mRNA and microRNA expression profiling analysis revealed pathways involved in the rapid growth of developing culms in Moso bamboo.
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基于下一代测序的 mRNA 和 microRNA 表达谱分析揭示了毛竹正在发育的茎快速生长的途径
DOI：
10.1186/1471-2229-13-119
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发表时间：
2013-08-21
影响因子：
5.3
通讯作者：
Zeng YF
中科院分区：
文献类型：
--
作者：
He CY;Cui K;Zhang JG;Duan AG;Zeng YF
竹子是地球上生长最快的木质纤维素丰富的植物之一，由于芽中已经存在的单个节间的扩展，竹子可以快速达到其最终高度;然而，这一现象背后的分子过程尚不清楚。毛竹（Phyllostachys heterocycv.）从4个不同的发展阶段和3个不同的节间在同一阶段内，在我们的研究中被用来调查的分子过程中的转录组和转录后组level.ResultsOur解剖学观察表明，秆的发展是由细胞分裂的初始阶段和细胞伸长在中期和后期阶段。四种主要内源激素均能积极促进茎的发育。利用新一代的RNA-Seq、mRNA和microRNA表达谱分析技术，构建了包含大部分毛竹基因的转录组和转录后组，为毛竹节间从基部到顶部顺序伸长的现象提供了分子基础。几个关键的途径，如环境适应，信号转导，翻译，运输和许多代谢被确定为参与快速伸长的竹culms.ConclusionsThis是第一次报告的时间和空间转录组和基因表达和microRNA分析在一个发展中的竹culms。除了更深入地了解竹子独特的生长特性外，我们还提供了一个很好的案例研究，利用高通量短读测序分析非模式植物物种的基因、microRNA表达和谱。此外，我们表明，我们的多组学数据的综合分析，包括转录组，转录后组，蛋白质组，产生更完整的表示和额外的生物学见解，特别是发生在毛竹秆复杂的动态过程。
BackgroundAs one of the fastest-growing lignocellulose-abundant plants on Earth, bamboos can reach their final height quickly due to the expansion of individual internodes already present in the buds; however, the molecular processes underlying this phenomenon remain unclear. Moso bamboo (Phyllostachys heterocyclacv. Pubescens) internodes from four different developmental stages and three different internodes within the same stage were used in our study to investigate the molecular processes at the transcriptome and post-transcriptome level.ResultsOur anatomical observations indicated the development of culms was dominated by cell division in the initial stages and by cell elongation in the middle and late stages. The four major endogenous hormones appeared to actively promote culm development. Using next-generation sequencing-based RNA-Seq, mRNA and microRNA expression profiling technology, we produced a transcriptome and post-transcriptome in possession of a large fraction of annotated Moso bamboo genes, and provided a molecular basis underlying the phenomenon of sequentially elongated internodes from the base to the top. Several key pathways such as environmental adaptation, signal transduction, translation, transport and many metabolisms were identified as involved in the rapid elongation of bamboo culms.ConclusionsThis is the first report on the temporal and spatial transcriptome and gene expression and microRNA profiling in a developing bamboo culms. In addition to gaining more insight into the unique growth characteristics of bamboo, we provide a good case study to analyze gene, microRNA expression and profiling of non-model plant species using high-throughput short-read sequencing. Also, we demonstrate that the integrated analysis of our multi-omics data, including transcriptome, post-transcriptome, proteome, yield more complete representations and additional biological insights, especially the complex dynamic processes occurring in Moso bamboo culms.
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DOI：
10.2183/pjab.86.265
发表时间：
2010
期刊：
Proceedings of the Japan Academy. Series B, Physical and biological sciences
影响因子：
--
作者：
Asano K;Miyao A;Hirochika H;Kitano H;Matsuoka M;Ashikari M
通讯作者：
Ashikari M
影响因子：
7
作者：
Li, Ruiqiang;Zhu, Hongmei;Wang, Jun
通讯作者：
Wang, Jun
影响因子：
6.1
作者：
Hsieh, CW;Liu, LK;Wang, AY
通讯作者：
Wang, AY
影响因子：
7.3
作者：
Iwamoto, M.;Baba-Kasai, A.;Takano, M.
通讯作者：
Takano, M.
影响因子：
4.4
作者：
Dharmawardhana P;Brunner AM;Strauss SH
通讯作者：
Strauss SH