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Comparative transcriptome analysis reveals an ABA-responsive regulation network associated with cell wall organization and oxidation reduction in sugar beet

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Abstract

Abscisic acid (ABA) is an essential phytohormone and plays a key role in root architecture and plant stress responses. However, the ABA signalling pathway and its regulatory network in sugar beet roots remain unclear. Here, we carried out a time course experiment and performed global transcriptome profiling via strand-specific RNA sequencing (ssRNA-seq) to evaluate the response of sugar beet plants to exogenous ABA. According to the expression patterns of 5625 differentially expressed transcription units (TUs), the ABA-responsive stages within 24 h were divided into the early (1 h), intermediate (6 h and 12 h) and late (24 h) stages. Gene Ontology (GO) analysis revealed that oxidation reduction (GO: 0055114) and cell wall organization (GO: 0071555) were enriched in all ABA-responsive stages. For oxidation reduction, genes encoding cytochromes, peroxidases (PODs) and 2-oxoglutarate and Fe(II)-dependent oxygenases (2OG-Fe(II)s) constituted the largest proportion. ABA-responsive xyloglucan endotransglucosylase/hydrolase (XTH), expansin A (EXPA), pectinesterase (PME), pectate lyase (PL) and cellulose synthase (CES) were also detected in terms of cell wall organization. By performing regulation prediction and co-expression analysis, we determined that three genes, one encoding an AP2 domain-containing transcription factor (TF) and two encoding Dof domain-containing TFs (BVRB_4g074790, BVRB_8g180860 and BVRB_9g211370, respectively) may play an important role in the regulation of oxidation reduction and cell wall organization. Our profiling of ABA-responsive genes provides valuable information for understanding the molecular functions of regulatory genes and will aid in the future molecular breeding of sugar beet.

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Data availability

The raw data of ssRNA-seq was deposited in Sequence Read Archive (PRJNA594791).

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Acknowledgements

This work was supported by National Sugar Beet Germplasm Resources Platform (NICGR-2019-017), China agriculture research system (CARS-170111), The Project of Species, Varieties and Resources Conservation Fee (19190171), Fundamental Research Fund for the Provincial Universities Basal Research Project in Heilongjiang Province (KJCXZD201716, RCCXYJ201810 and KJCXZD201714), Postdoctoral Science Foundation of Heilongjiang (LBH-Z18236), Youth Program of National Nature Science Foundation of China (#31601229) and Science Foundation Project of Heilongjiang Province (C2018053).

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  1. Wang Xing and Zhi Pi contributed equally to this work.

Authors and Affiliations

  1. Key Laboratory of Sugar Beet Genetic Breeding, Heilongjiang University, Harbin, 150080, Heilongjiang, China

    Wang Xing, Zhi Pi, Yi Zou, Maoqian Wang, Dali Liu, Qiuhong Wang & Zedong Wu

  2. Sugar Beet Engineering Research Center of Heilongjiang Province, Heilongjiang University, Harbin, 150080, Heilongjiang, China

    Wang Xing, Zhi Pi, Yi Zou, Maoqian Wang, Dali Liu, Qiuhong Wang & Zedong Wu

  3. National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, 100081, China

    Jun Liu & Xinchang Li

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  1. Wang Xing
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Contributions

WX, YZ, MW and DL performed the experimental work. XL, ZP and QW participated in the bioinformatics and statistical analysis. ZP, JL and WX wrote and edited manuscript. ZW conceived and directed the overall concept of this work.

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Correspondence to Zedong Wu.

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Xing, W., Pi, Z., Liu, J. et al. Comparative transcriptome analysis reveals an ABA-responsive regulation network associated with cell wall organization and oxidation reduction in sugar beet. Plant Growth Regul 91, 127–141 (2020). https://doi.org/10.1007/s10725-020-00592-6

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