The transcriptional dynamics during de novo shoot organogenesis of Ma bamboo (Dendrocalamus latiflorus Munro): implication of the contributions of the abiotic stress response in this process
The transcriptional dynamics during de novo shoot organogenesis of Ma bamboo (Dendrocalamus latiflorus Munro): implication of the contributions of the abiotic stress response in this process
复制标题
麻竹（Dendrocalamus latiflorus Munro）从头芽器官发生过程中的转录动态：非生物胁迫反应在此过程中的贡献的含义
DOI：
10.1111/tpj.15398
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发表时间：
2021
期刊：
影响因子：
7.2
通讯作者：
Zhu Qiang
中科院分区：
文献类型：
--
作者：
Tu Min;Wang Wenjia;Yao Nan;Cai Changyang;Liu Yuanyuan;Lin Chentao;Zuo Zecheng;Zhu Qiang
新生芽器官发生是植物基础研究的重要生物技术手段。然而，这是困难的，在大多数竹种，这一高度动态和复杂的再生过程的遗传控制仍然不清楚。本研究基于细胞水平的深入分析，将麻竹（Dendrocalamus latiflorusMunro）愈伤组织芽器官发生分为5个阶段。随后，对从所有五个阶段合并的组织样本进行单分子长读长同种型测序，以生成全长转录物图谱。共捕获83 971个转录本，其中包括73 209个高质量的全长转录本，作为后续RNA测序分析的注释参考。通过对上述5个时期的样品进行时程转录组分析，研究了竹笋器官发生过程中全基因组转录物表达的全基因表达图谱，通过K均值聚类分析和阶段特异性转录物鉴定，揭示了竹笋器官发生过程中重要的动态表达转录调控因子。大多数非生物胁迫响应基因在此过程中改变了它们的表达水平，进一步的实验表明，外源施加中度但不严重的非生物胁迫增加了芽再生效率。综上所述，本研究为竹笋器官发生过程中的遗传流动态研究提供了一个综述。本研究获得的全长cDNA序列可作为今后竹类植物基础研究和应用研究的宝贵资源。
De novoshoot organogenesis is an important biotechnological tool for fundamental studies in plant. However, it is difficult in most bamboo species, and the genetic control of this highly dynamic and complicated regeneration process remains unclear. In this study, based on an in‐depth analysis at the cellular level, the shoot organogenesis from calli of Ma bamboo (Dendrocalamus latiflorusMunro) was divided into five stages. Subsequently, single‐molecule long‐read isoform sequencing of tissue samples pooled from all five stages was performed to generate a full‐length transcript landscape. A total of 83 971 transcripts, including 73 209 high‐quality full‐length transcripts, were captured, which served as an annotation reference for the subsequent RNA sequencing analysis. Time‐course transcriptome analysis of samples at the abovementioned five stages was conducted to investigate the global gene expression atlas showing genome‐wide expression of transcripts during the course of bamboo shoot organogenesis.K‐means clustering analysis and stage‐specific transcript identification revealed important dynamically expressed transcription regulators that function in bamboo shoot organogenesis. The majority of abiotic stress‐responsive genes altered their expression levels during this process, and further experiments demonstrated that exogenous application of moderate but not severe abiotic stress increased the shoot regeneration efficiency. In summary, our study provides an overview of the genetic flow dynamics during bamboo shoot organogenesis. Full‐length cDNA sequences generated in this study can serve as a valuable resource for fundamental and applied research in bamboo in the future.