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Pan-Genome-Wide Identification and Transcriptome-Wide Analysis of ZIP Genes in Cucumber

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  • Zimo Wang

    (Shandong Collaborative Innovation Center of Fruit & Vegetable Quality and Efficient Production, College of Horticultural Science and Engineering, Shandong Agricultural University, Tai’an 271018, China)

  • Mengmeng Yin

    (Shandong Collaborative Innovation Center of Fruit & Vegetable Quality and Efficient Production, College of Horticultural Science and Engineering, Shandong Agricultural University, Tai’an 271018, China)

  • Jing Han

    (College of Agriculture and Agricultural Engineering, Liaocheng University, Liaocheng 252000, China)

  • Xuehua Wang

    (Shandong Collaborative Innovation Center of Fruit & Vegetable Quality and Efficient Production, College of Horticultural Science and Engineering, Shandong Agricultural University, Tai’an 271018, China)

  • Jingshu Chang

    (Shandong Collaborative Innovation Center of Fruit & Vegetable Quality and Efficient Production, College of Horticultural Science and Engineering, Shandong Agricultural University, Tai’an 271018, China)

  • Zhonghai Ren

    (Shandong Collaborative Innovation Center of Fruit & Vegetable Quality and Efficient Production, College of Horticultural Science and Engineering, Shandong Agricultural University, Tai’an 271018, China)

  • Lina Wang

    (Shandong Collaborative Innovation Center of Fruit & Vegetable Quality and Efficient Production, College of Horticultural Science and Engineering, Shandong Agricultural University, Tai’an 271018, China)

Abstract

The ZRT/IRT-like proteins (ZIPs) play critical roles in the absorption, transport, and intracellular balance of metal ions essential for various physiological processes in plants. However, little is known about the pan-genomic characteristics and properties of ZIP genes in cucumber ( Cucumis sativus L.). In this study, we identified 10 CsZIP genes from the pan-genome of 13 C . sativus accessions. Among them, only CsZIP10 showed no variation in protein sequence length. We analyzed the gene structure, conserved domains, promoter cis -elements, and phylogenetic relationships of these 10 CsZIP genes derived from “9930”. Based on phylogenetic analysis, the CsZIP genes were classified into three branches. Amino acid sequence comparison revealed the presence of conserved histidine residues in the ZIP proteins. Analysis of promoter cis -elements showed that most promoters contained elements responsive to plant hormones. Expression profiling in different tissues showed that most CsZIP genes were expressed at relatively low levels in C . sativus leaves, stems, and tendrils, and CsZIP7 and CsZIP10 were specifically expressed in roots, indicating their potential involvement in the absorption and transport of metal ions. Transcriptomic data indicated that these 10 ZIP genes displayed responses to both downy mildew and powdery mildew, and CsZIP1 was significantly downregulated after both salt and heat treatments. In conclusion, this study deepens our understanding of the ZIP gene family and enhances our knowledge of the biological functions of CsZIP genes in C . sativus .

Suggested Citation

  • Zimo Wang & Mengmeng Yin & Jing Han & Xuehua Wang & Jingshu Chang & Zhonghai Ren & Lina Wang, 2024. "Pan-Genome-Wide Identification and Transcriptome-Wide Analysis of ZIP Genes in Cucumber," Agriculture, MDPI, vol. 14(1), pages 1-19, January.
    • Handle: RePEc:gam:jagris:v:14:y:2024:i:1:p:133-:d:1320266
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    References listed on IDEAS

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    1. Mostafa Alamholo & Alireza Tarinejad, 2023. "Molecular mechanism of drought stress tolerance in barley (Hordeum vulgare L.) via a combined analysis of the transcriptome data," Czech Journal of Genetics and Plant Breeding, Czech Academy of Agricultural Sciences, vol. 59(2), pages 76-94.
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