Bioinformatics analysis of JmjC domain-containing histone demethylase family in watermelon (<i>Citrullus lanatus</i> (Thunb.) Matsum. & Nakai)

Zhou Huang-Jing; Wang Xiang-Wu; Ji Feng-Feng; Zhang Peng-Hui; Guo Qing-Hua; Hao Yun-Fei; He Shi-Bin

doi:10.11913/PSJ.2095-0837.2020.60802

Plant Science Journal > 2020 > 38(6): 802-811. > DOI: 10.11913/PSJ.2095-0837.2020.60802 CSTR: 32231.14.PSJ.2095-0837.2020.60802

Zhou Huang-Jing, Wang Xiang-Wu, Ji Feng-Feng, Zhang Peng-Hui, Guo Qing-Hua, Hao Yun-Fei, He Shi-Bin. Bioinformatics analysis of JmjC domain-containing histone demethylase family in watermelon (Citrullus lanatus (Thunb.) Matsum. & Nakai)[J]. Plant Science Journal, 2020, 38(6): 802-811. DOI: 10.11913/PSJ.2095-0837.2020.60802

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Bioinformatics analysis of JmjC domain-containing histone demethylase family in watermelon (Citrullus lanatus (Thunb.) Matsum. & Nakai)

School of Life Sciences, State Key Laboratory of Cotton Biology, Henan University, Kaifeng, Henan 475004, China

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This work was supported by a grant from the National Natural Science Foundation of China (31401044).

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Received Date: April 09, 2020
Revised Date: May 17, 2020
Available Online: October 31, 2022
Published Date: December 27, 2020

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Abstract

Abstract

Jumonji C (JmjC) domain-containing proteins are a class of histone demethylases responsible for removing histone methylation marks. They also play important roles in plant growth and development. Using bioinformatics, we identified the JmjC genes in Citrullus lanatus (Thunb.) Matsum. & Nakai, and analyzed their location, gene structure, protein domain, enzyme activity site, and selection pressure. In addition, the phylogenetic relationships and collinearity among C. lanatus, Cucumis sativus L., and Arabidopsis thaliana (L.) Heynh were also analyzed. A total of 17 JmjC genes were identified in C. lanatus, which ranged in size from 1209 to 5541 bp. These genes all contained the JmjC domain and were located on nine chromosomes and classified into eight subfamilies. Both C. lanatus and closely related species C. sativus shared the same number of JmjC genes, with 14 members showing a one-to-one collinear relationship, while C. lanatus and distant species A. thaliana showed lower collinearity. The K_a/K_s ratios of JmjC genes in the same subfamily were less than One between C. lanatus and A. thaliana, indicating that orthologous genes between the two species should have similar functions. In addition, according to enzyme activity site prediction, we speculated that 10 of them may confer histone demethylase activity.
- Citrullus lanatus,
- Histone demethylase,
- JmjC domain,
- Bioinformatics analysis

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Bioinformatics analysis of JmjC domain-containing histone demethylase family in watermelon (Citrullus lanatus (Thunb.) Matsum. & Nakai)

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