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Genome-wide identification, expression analysis, and transcriptome analysis of the IAA gene family in Zoysia japonica

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Abstract

Background

AUX/IAA is an essential signaling molecule and has great physiological importance in various plants, but its function in Zoysia japonica remains unknown.

Methods and results

Genome-wide identification and analysis of AUX/IAA genes used bioinformatics methods to investigate the ZjIAA genes' expression of exogenous IAA hydroponics treatment for 2 h by qRT-PCR, control and exogenous IAA treated zoysia were subjected to transcriptome sequencing. ZjIAAs were distributed across the 13 subfamilies by phylogenetic analysis with Oryza sativa and Arabidopsis thaliana. Multiple sequence alignment revealed that the majority of genes were non-canonical ZjIAAs with incomplete domain. The optimal growth concentration of the IAA hormone was 0.05 mM, and the qRT-PCR analysis revealed that eight ZjIAAs were differentially expressed, with seven genes considerably upregulating and one gene significantly downregulating. The result of transcriptome sequencing revealed that 515 differentially expressed genes (DEGs) were identified, with 344 upregulated genes and 171 downregulated genes. A total of 18 genes were annotated as involved in the plant hormone signal transduction pathway. And 8 ZjIAAs exhibited distinct expressions, 7 upregulated, and only one downregulated, according to the qRT-PCR study.

Conclusions

Genome-wide identification and analysis increased the understanding of the evolution and function of the IAA family in zoysia. DEGs of control and treatment with 0.05 mM exogenous IAA hormone were investigated by transcriptome sequencing. ZjIAAs had substantial variations in the expression of associated genes, with the majority of genes upregulated and 18 genes implicated in plant hormone signal transduction.

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Acknowledgements

This research was jointly funded by the Special Fund for Basic Scientific Research Funds of Central Universities (2021ZY84) and the National Natural Science Foundation of China (31971770).

Funding

The work was funded by the Special Fund for Basic Scientific Research Funds of Central Universities (2021ZY84) and the National Natural Science Foundation of China (31971770).

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  1. Zhuoxiong Yang and Di Dong have contributed equally to this work.

Authors and Affiliations

  1. College of Grassland Science, Beijing Forestry University, Beijing, 100083, China

    Zhuoxiong Yang, Di Dong, Zewen Qi, Liebao Han & Yuehui Chao

  2. Inner Mongolia M-Grass Ecology and Environment (Group) Co., Ltd, Hohhot, 010010, Inner Mongolia, China

    Chenyan Jia

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Contributions

All authors contributed to the study. Material preparation and data collection were performed by ZY, DD, ZQ and CJ. The first draft of the manuscript and data analysis were performed by ZY and DD. LH and YC selected the topic, modified and finalized the manuscript, and all authors commented on previous versions of the manuscript. All authors read and approved the final manuscript.

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Correspondence to Liebao Han or Yuehui Chao.

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Yang, Z., Dong, D., Qi, Z. et al. Genome-wide identification, expression analysis, and transcriptome analysis of the IAA gene family in Zoysia japonica. Mol Biol Rep 50, 4385–4394 (2023). https://doi.org/10.1007/s11033-022-08154-x

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