数字农科院2.0

Regulatory modules controlling early shade avoidance response in maize seedlings

文献类型： 外文期刊

作者： Hai Wang; Guangxia Wu; Binbin Zhao; Baobao Wang; Zhihong Lang; Chunyi Zhang* and Haiyang Wang*

作者机构：

关键词： Maize;Shade;Phytochrome;Transcriptome;Regulatory module

期刊名称： BMC Genomics

ISSN： 1471-2164

年卷期： 2016 年 玉米功能基因组创新团队 卷 JCR学科排名5-25%期刊 期

页码：

收录情况： JCR（2021版）

摘要： Background: Optimization of shade avoidance response (SAR) is crucial for enhancing crop yield in high-density planting conditions in modern agriculture, but a comprehensive study of the regulatory network of SAR is still lacking in monocot crops. Results: In this study, the genome-wide early responses in maize seedlings to the simulated shade (low red/far-red ratio) and also to far-red light treatment were transcriptionally profiled. The two processes were predominantly mediated by phytochrome B and phytochrome A, respectively. Clustering of differentially transcribed genes (DTGs) along with functional enrichment analysis identified important biological processes regulated in response to both treatments. Co-expression network analysis identified two transcription factor modules as potentially pivotal regulators of SAR and de-etiolation, respectively. A comprehensive cross-species comparison of orthologous DTG pairs between maize and Arabidopsis in SAR was also conducted, with emphasis on regulatory circuits controlling accelerated flowering and elongated growth, two physiological hallmarks of SAR. Moreover, it was found that the genome-wide distribution of DTGs in SAR and de-etiolation both biased toward the maize1 subgenome, and this was associated with differential retention of various cis-elements between the two subgenomes. Conclusions: The results provide the first transcriptional picture for the early dynamics of maize phytochrome signaling. Candidate genes with regulatory functions involved in maize shade avoidance response have been identified, offering a starting point for further functional genomics investigation of maize adaptation to heavily shaded field conditions.

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[1]Additional file 4: Table S2. of Regulatory modules controlling early shade avoidance response in maize seedlings. Binbin Zhao,Zhihong Lang,Chunyi Zhang,Guangxia Wu,Wang, Hai,Baobao Wang,Haiyang Wang

[2]Additional file 9: Figure S5. of Regulatory modules controlling early shade avoidance response in maize seedlings. Baobao Wang,Haiyang Wang,Zhihong Lang,Wang, Hai,Guangxia Wu,Binbin Zhao,Chunyi Zhang

[3]Additional file 1: Figure S1. of Regulatory modules controlling early shade avoidance response in maize seedlings. Binbin Zhao,Guangxia Wu,Wang, Hai,Chunyi Zhang,Zhihong Lang,Baobao Wang,Haiyang Wang

[4]Additional file 2: Figure S2. of Regulatory modules controlling early shade avoidance response in maize seedlings. Binbin Zhao,Baobao Wang,Guangxia Wu,Zhihong Lang,Haiyang Wang,Chunyi Zhang,Wang, Hai

[5]Regulatory modules controlling early shade avoidance response in maize seedlings. Chunyi Zhang,Zhihong Lang,Binbin Zhao,Guangxia Wu,Haiyang Wang,Wang, Hai,Baobao Wang

[6]Additional file 7: Figure S3. of Regulatory modules controlling early shade avoidance response in maize seedlings. Baobao Wang,Zhihong Lang,Haiyang Wang,Wang, Hai,Chunyi Zhang,Guangxia Wu,Binbin Zhao

[7]Additional file 12: Table S7. of Regulatory modules controlling early shade avoidance response in maize seedlings. Chunyi Zhang,Baobao Wang,Wang, Hai,Guangxia Wu,Zhihong Lang,Haiyang Wang,Binbin Zhao

[8]Additional file 11: Table S6. of Regulatory modules controlling early shade avoidance response in maize seedlings. Wang, Hai,Chunyi Zhang,Baobao Wang,Zhihong Lang,Guangxia Wu,Binbin Zhao,Haiyang Wang

[9]Additional file 10: Table S5. of Regulatory modules controlling early shade avoidance response in maize seedlings. Chunyi Zhang,Guangxia Wu,Zhihong Lang,Binbin Zhao,Baobao Wang,Haiyang Wang,Wang, Hai

[10]Additional file 3: Table S1. of Regulatory modules controlling early shade avoidance response in maize seedlings. Guangxia Wu,Chunyi Zhang,Binbin Zhao,Wang, Hai,Baobao Wang,Haiyang Wang,Zhihong Lang

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