Global transcriptome changes of elongating internode of sugarcane in response to mepiquat chloride.
Global transcriptome changes of elongating internode of sugarcane in response to mepiquat chloride.
复制标题
甘蔗伸长节间响应氯化哌啶醇（缩节胺）的全转录组变化
DOI：
10.1186/s12864-020-07352-w
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发表时间：
2021-01-25
期刊：
影响因子：
4.4
通讯作者：
Wu J
中科院分区：
文献类型：
--
作者：
Chen R;Fan Y;Zhou H;Mo S;Zhou Z;Yan H;Luo T;Huang X;Weng M;Lakshmanan P;Li Y;Qiu L;Wu J
甲哌快氯化物（DPC）是一种化学品，广泛用于控制节间生长，并在培养植物中形成紧凑的冠层。以往的研究表明，DPC也可以抑制甘蔗赤霉素的生物合成。不幸的是，DPC对植物生长的抑制作用的分子机制仍然是未知的。在本研究中，我们首先获得了高质量的长转录本从甘蔗节间使用PacBio Sequel系统。共生成72，671种亚型，N50为3073。这些长同种型用作随后RNA-seq的参考。然后，使用从Illumina HiSeq 4000平台生成的短读段来比较DPC组和对照组中差异表达的基因。转录组分析显示，DPC处理后6天发生了最显著的基因变化。这些基因与植物激素信号转导和多种代谢产物的生物合成有关，表明DPC除了抑制赤霉素的生物合成外，还影响多种途径。通过加权基因共表达网络分析（WGCNA），阐明了关键阶段DPC的网络结构。在构建的36个模块中，在喷完DPC后第6天，正相关系数最高的模块是sienna 3。值得注意的是，Stf 0磺基转移酶，细胞周期蛋白样F-box和HOX 12是sienna 3中与该模块中其他基因具有高度相关性的枢纽基因。此外，qPCR验证了RNA-seq结果的高准确性。总之，我们已经证明了这些基因在DPC诱导的甘蔗生长抑制中的关键作用。在线版本包含补充材料，可通过10.1186/s12864-020-07352-w获得。
Mepiquat chloride (DPC) is a chemical that is extensively used to control internode growth and create compact canopies in cultured plants. Previous studies have suggested that DPC could also inhibit gibberellin biosynthesis in sugarcane. Unfortunately, the molecular mechanism underlying the suppressive effects of DPC on plant growth is still largely unknown. In the present study, we first obtained high-quality long transcripts from the internodes of sugarcane using the PacBio Sequel System. A total of 72,671 isoforms, with N50 at 3073, were generated. These long isoforms were used as a reference for the subsequent RNA-seq. Afterwards, short reads generated from the Illumina HiSeq 4000 platform were used to compare the differentially expressed genes in both the DPC and the control groups. Transcriptome profiling showed that most significant gene changes occurred after six days post DPC treatment. These genes were related to plant hormone signal transduction and biosynthesis of several metabolites, indicating that DPC affected multiple pathways, in addition to suppressing gibberellin biosynthesis. The network of DPC on the key stage was illustrated by weighted gene co-expression network analysis (WGCNA). Among the 36 constructed modules, the top positive correlated module, at the stage of six days post spraying DPC, was sienna3. Notably, Stf0 sulfotransferase, cyclin-like F-box, and HOX12 were the hub genes in sienna3 that had high correlation with other genes in this module. Furthermore, the qPCR validated the high accuracy of the RNA-seq results. Taken together, we have demonstrated the key role of these genes in DPC-induced growth inhibition in sugarcane. The online version contains supplementary material available at 10.1186/s12864-020-07352-w.
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DOI：
10.2147/rrb.s84753
发表时间：
2015-01-01
期刊：
RESEARCH AND REPORTS IN BIOLOGY
影响因子：
--
作者：
Boycheva, Irina;Vassileva, Valya;Iantcheva, Anelia
通讯作者：
Iantcheva, Anelia
WGCNA：用于加权相关网络分析的 R 包。
影响因子：
3
作者：
Langfelder P;Horvath S
通讯作者：
Horvath S
影响因子：
4.4
作者：
Fickett, Nathanael;Gutierrez, Andres;Baisakh, Niranjan
通讯作者：
Baisakh, Niranjan
DOI：
10.1002/9781119210436.ch12
发表时间：
2016-01-01
期刊：
GIBBERELLINS
影响因子：
--
作者：
Rademacher, Wilhelm
通讯作者：
Rademacher, Wilhelm
影响因子：
5
作者：
Liu, Fangchun;Xing, Shangjun;Ma, Bingyao
通讯作者：
Ma, Bingyao