Abstract
Key message
We report coding and long noncoding RNAs in maize upon phytohormone gibberellin stimulation.
Abstract
Plant hormone gibberellin (GA) orchestrates various facets of biological processes. Dissection the transcriptomic dynamics upon GA stimulation has biological significance. Feature of maize transcriptome in response to GA application remains largely elusive. Herein, two types of plants, one was with normal height, the other was GA-sensitive dwarfism, were selected from advanced backcross population for GA3 treatment with different concentrations. In control and GA3-treated plants, we identified a large number of coding and long noncoding RNAs (lncRNAs) through sequencing eight ribosomal-depleted RNA libraries. Transcripts encoding GA biosynthetic and metabolic enzymes KS, GA20ox, GA3ox, and GA2ox were significantly differentially expressed in GA3-treated samples. A total of 78 protein-coding transcripts were shared between GA3-treated normal height and dwarf plants. Shared transcripts encoding terpene synthase, MYB transcription factor, and receptor-like protein kinase were co-regulated with their corresponding partners. Out of identified lncRNAs, 22 and 34 significantly differentially expressed lncRNAs were responsive to GA application in normal height and dwarf plants, respectively. Shared GA-responsive lncRNAs were found in GA3-treated normal height and dwarf plants. Some lncRNAs corresponded to precursors of known miRNA, such as zma-miR528a and zma-miR528b. Multiple promising targets of significantly differentially expressed lncRNAs were discovered, including Lazy plant1 for auxin- and GA-mediated shoot gravitropism, bZIP transcription factor member for GA-controlled cell elongation. This study will improve our knowledge of GA-triggered transcriptome change and facilitate a comprehensive understanding of regulatory cascade centering on GA.
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Acknowledgements
This work was supported by the National Natural Science Foundation of China (31571671), the National Key Research and Development Program of China (2016YFD0101002), the Key Research Program of Jiangsu Provincial Colleges and Universities (18KJA210002), the Innovative Foundation of Yangzhou University (2017CXJ063), the Science Foundation for Excellent Youth Scholars of Yangzhou University, the Priority Academic Program Development of Jiangsu Higher Education Institutions, and the Practicality and Innovation Training Project for College Students of Yangzhou University (x20160631, x20170646).
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YJW conceived and designed the experiments. DD prepared the experimental materials. YLW, JZ, JH, and YS performed the experiments. YJW and YLW analyzed the data. YJW wrote the manuscript.
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11103_2018_788_MOESM1_ESM.png
Fig. S1 Structure of miRNA precursor. Significantly differentially expressed lncRNA TCONS_00051916 could be the miRNA precursor (PNG 17 KB)
Table S1
Primers used in this study (DOCX 14 KB)
11103_2018_788_MOESM6_ESM.xlsx
Table S3 Gene ontology enrichment analysis of significantly differentially expressed protein-coding transcripts (XLSX 11 KB)
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Wang, Y., Wang, Y., Zhao, J. et al. Unveiling gibberellin-responsive coding and long noncoding RNAs in maize. Plant Mol Biol 98, 427–438 (2018). https://doi.org/10.1007/s11103-018-0788-8
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DOI: https://doi.org/10.1007/s11103-018-0788-8