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Genome-wide identification, characterization and expression analysis of the LIM transcription factor family in quinoa

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Abstract

Lim family members play an important role in the regulation of plant cell development and stress response. However, there are few studies on LIM family in quinoa. In this study, we identified nine LIMS (named cqlim01-cqlim09) from quinoa, which were divided into three subfamilies (α Lim1, γ lim2 and δ lim2) according to phylogeny. The differences in gene structure and motif composition among different subfamilies have been observed. In addition, we studied the repetitive events of the members of the family. The Ka/Ks (non synchronous substitution rate / synchronous substitution rate) ratio analysis showed that the repetitive CqLIMs probably experienced purifying selection pressure. Promoter analysis showed that the family genes contained a variety of hormones, stress and tissue-specific expression elements, and protein interactions showed that these genes had actin stabilizing effect. In addition, QRT PCR results showed that all CqLIM genes were positively regulated under three stresses (low temperature, salt and ABA). These results provide a theoretical basis of further study of LIM gene in quinoa.

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Acknowledgements

The authors thank all contributors to this research for their help. The research was financially supported by National Natural Science Foundation of China, Gansu Provincial Key Laboratory of Aridland Crop Science.

Funding

The research was financially supported by National Natural Science Foundation of China (no. 32060401).

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Authors and Affiliations

  1. College of Agronomy, Gansu Agricultural University, Lanzhou, 730070, China

    Xiaolin Zhu & Xiaohong Wei

  2. Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou, 730070, China

    Xiaolin Zhu, Baoqiang Wang, Xian Wang, Chaoyang Zhang & Xiaohong Wei

  3. College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, China

    Xiaohong Wei

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  1. Xiaolin Zhu
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  2. Baoqiang Wang
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  3. Xian Wang
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  4. Chaoyang Zhang
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Contributions

Data curation, X.W; Funding acquisition, X.W. and C.Z.; Methodology, C.Z., X.W., and X.Z.; Project administration,X.W.; Resources, L.H.; Supervision,X.Z and X.W.; Writing—original draft, B.W.; Writing—review and editing, X.Z and X.W.

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Correspondence to Xiaohong Wei.

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Zhu, X., Wang, B., Wang, X. et al. Genome-wide identification, characterization and expression analysis of the LIM transcription factor family in quinoa. Physiol Mol Biol Plants 27, 787–800 (2021). https://doi.org/10.1007/s12298-021-00988-2

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