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Genome-wide analysis and environmental response profiling of dirigent family genes in rice (Oryza sativa)

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Abstract

Dirigent (DIR) and DIR-like family genes were involved in lignification or in the response to pathogen infection and abiotic stress in plants. Little is known to us about how rice DIR genes respond to adverse conditions. In this study, we reported genome-wide analysis of 49 DIR or DIR-likes genes in rice. The 49 OsDIRs or OsDIR-likes were tandem arranged into ten clusters. The phylogenetic analysis indicated that the 49 rice DIR and DIR-like genes cluster into five distinct subfamilies, DIR-a and four DIR-like subfamilies (DIR-b/d, and DIR-g, DIR-c, DIR-e). Meta-analysis of microarray gene expression datas indicated that all the OsDIRs or OsDIR-likes were expressed almost at the same level but with different patterns: most OsDIRs or OsDIR-likes were expressed exclusively in stigma and ovary and were induced by IAA and BAP; several genes were induced by trans-zeatin (tZ) and DMSO; 23 OsDIRs or OsDIR-likes were responded to abiotic stress. Our analysis also showed that most of these genes could respond to abiotic stresses, which contained cis-regulatory elements. The present study will provide a useful reference for further functional analysis of the DIR genes in rice.

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Acknowledgements

This research was supported by Fund 2015HH0032 (An international co-operation Project Supported by Science and technology Department of Sichuan Province) to RJ Chen.

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    Authors and Affiliations

    1. Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, Sichuan, China

      Yongrong Liao, Changqiong Hu, Xuewei Zhang, Xufeng Cao, Zhengjun Xu, Xiaoling Gao, Lihua Li, Jianqing Zhu & Rongjun Chen

    2. Zigong Center for Disease Control and Prevention, Zigong, 643000, Sichuan, China

      Shengbin Liu

    3. College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, 100083, China

      Yunyun Jiang

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    1. Yongrong Liao
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    Yongrong Liao, Shengbin Liu, Yunyun Jiang, Changqiong Hu, Xuewei Zhang, Xufeng Cao, Zhengjun Xu, Xiaoling Gao, Lihua Li, Jianqing Zhu, and Rongjun Chen declares that they have no conflict of interest.

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    Yongrong Liao and Shengbin Liu contributed equally to this paper.

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    Liao, Y., Liu, S., Jiang, Y. et al. Genome-wide analysis and environmental response profiling of dirigent family genes in rice (Oryza sativa). Genes Genom 39, 47–62 (2017). https://doi.org/10.1007/s13258-016-0474-7

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