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Global Profiling of Alternative Splicing in Callus Induction of Immature Maize Embryo

  • Embryogenesis/Somatic Embryogenesis
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Abstract

Callus induction in plants is similar to pluripotent stem cell induction in animals and can incite global changes in gene expression. Alternative splicing is considered a key factor underlying functional complexity and function in the induction of pluripotent stem cells in animals. However, the role of alternative splicing in plant callus induction remains unclear. We performed high-throughput RNA sequencing of maize callus induced on a callus induction medium (CIM) at different stages and recorded global alternative splicing changes. At every stage, over 20,000 alternative splicing events were detected, and the numbers slightly increased with callus induction. In total, 648 to 2580 genes were found to exhibit significant alternative splicing changes during callus induction—mainly those that belong to the spliceosome, metabolic pathways, and mRNA surveillance pathways. It was also found that alternative splicing can function alongside transcriptional regulation to contribute to callus induction. Especially, ZmWOX11, whose orthologous gene in Arabidopsis plays a vital role in the first-step cell fate transition of callus induction, was found to exhibit alternative splicing and expression level changes during callus induction. Our results establish a foundation from which researchers can further explore the molecular mechanism of callus induction in maize, especially at alternative splicing level.

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Acknowledgments

We are grateful to the reviewers for the valuable advice to improve the manuscript.

Funding

This work was supported by the National Major Project for Transgenic Organism Breeding (2016ZX08010-004), the Agricultural Science and Technology Innovation Program of CAAS and Youth Talent Plan of CAAS.

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Author notes

  1. Xuemei Du and Ting Fang contributed equally to this work.

Authors and Affiliations

  1. Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China

    Xuemei Du, Ting Fang, Yan Liu, Xiaoli Wang, Guoying Wang, Junjie Fu & Yunjun Liu

  2. College of Agronomy and Biotechnology, China Agricultural University, Beijing, China

    Liying Huang, Jie Zhang, Yangbo Cui & Maosen Zang

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  1. Xuemei Du
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  2. Ting Fang
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  3. Yan Liu
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  4. Liying Huang
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  5. Xiaoli Wang
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Contributions

XmD, TF, GyW, JjF, and YjL designed the research. XmD and TF performed the research. YL, LyH, YbC, and MsZ conducted the validation and collected the samples. TF, JZ, and XlW analyzed the data. XmD, TF, JjF, and YjL wrote the article.

Corresponding authors

Correspondence to Junjie Fu or Yunjun Liu.

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Editor: Yong Eui Choi

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Du, X., Fang, T., Liu, Y. et al. Global Profiling of Alternative Splicing in Callus Induction of Immature Maize Embryo. In Vitro Cell.Dev.Biol.-Plant 56, 159–168 (2020). https://doi.org/10.1007/s11627-019-10024-4

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