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<p>YABBY transcription factors play crucial roles in plant growth and responses to various abiotic stresses. However, their identification and functional characterization in <i>Cucurbita</i> species, particularly in relation to salt stress, remain largely unexplored. This study used bioinformatics tools to analyze the <i>YABBY</i> gene family in three <i>Cucurbita</i> species, including gene numbers, chromosomal distribution, gene structure, conserved protein domains, protein motifs, and <i>cis</i>-acting regulatory elements. Additionally, tissue-specific expression patterns and expression profiles under salt stress conditions were investigated. In this study, 34 <i>YABBY</i> genes were identified across three <i>Cucurbita</i> species: 11 in <i>C</i>u<i>curbita moschata</i> (<i>CmoYABBYs</i>), 12 in <i>Cucurbita maxima</i> (<i>CmaYABBYs</i>), and 11 in <i>Cucurbita pepo</i> (<i>CpeYABBYs</i>). These genes were classified into five subfamilies: YAB1/YAB3, YAB2, INO, CRC, and YAB5. Members of the same subfamily exhibited similar gene structures, including intron-exon distribution, and shared conserved domains. Chromosomal localization analysis revealed that the <i>YABBY</i> genes were unevenly distributed across 8, 9, and 9 chromosomes in the respective genomes. A total of 30 pairs of duplicated genes were identified, all originating from whole-genome duplication events. <i>Cis</i>-acting element analysis indicated that many <i>Cucurbita YABBY</i> genes are associated with plant hormone responses, growth regulation, and abiotic stress responses. Transcriptional profiling revealed tissue-specific expression patterns: <i>CmoYABBYs</i> and <i>CmaYABBYs</i> were expressed in roots, stems, leaves, and fruits, while <i>CpeYABBYs</i> were predominantly expressed in seeds and fruit mesocarp. Furthermore, transcriptional profiling of the 11 <i>CmoYABBYs</i> in leaves, along with qRT-PCR analysis of their expression in roots under salt stress, suggested that specific genes play key roles in salt stress responses. These findings provide a solid theoretical foundation for the functional characterization and potential utilization of <i>YABBY</i> genes in <i>Cucurbita</i>.</p>

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Genome-wide characterization and expression analysis of YABBY gene family in three species of Cucurbita and their response of salt stress in Cucurbita moschata

  • 期刊论文

  • 发表日期：

    2025年3月19日

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  • Changwei Shen,
  • Jingping Yuan,
  • Shuai Li,
  • Yu Xu,
  • Bo Sun,
  • Yuanyuan Zhang,
  • Nadeem Khan,
  • Xinlei Guo

摘要

YABBY transcription factors play crucial roles in plant growth and responses to various abiotic stresses. However, their identification and functional characterization in Cucurbita species, particularly in relation to salt stress, remain largely unexplored. This study used bioinformatics tools to analyze the YABBY gene family in three Cucurbita species, including gene numbers, chromosomal distribution, gene structure, conserved protein domains, protein motifs, and cis-acting regulatory elements. Additionally, tissue-specific expression patterns and expression profiles under salt stress conditions were investigated. In this study, 34 YABBY genes were identified across three Cucurbita species: 11 in Cucurbita moschata (CmoYABBYs), 12 in Cucurbita maxima (CmaYABBYs), and 11 in Cucurbita pepo (CpeYABBYs). These genes were classified into five subfamilies: YAB1/YAB3, YAB2, INO, CRC, and YAB5. Members of the same subfamily exhibited similar gene structures, including intron-exon distribution, and shared conserved domains. Chromosomal localization analysis revealed that the YABBY genes were unevenly distributed across 8, 9, and 9 chromosomes in the respective genomes. A total of 30 pairs of duplicated genes were identified, all originating from whole-genome duplication events. Cis-acting element analysis indicated that many Cucurbita YABBY genes are associated with plant hormone responses, growth regulation, and abiotic stress responses. Transcriptional profiling revealed tissue-specific expression patterns: CmoYABBYs and CmaYABBYs were expressed in roots, stems, leaves, and fruits, while CpeYABBYs were predominantly expressed in seeds and fruit mesocarp. Furthermore, transcriptional profiling of the 11 CmoYABBYs in leaves, along with qRT-PCR analysis of their expression in roots under salt stress, suggested that specific genes play key roles in salt stress responses. These findings provide a solid theoretical foundation for the functional characterization and potential utilization of YABBY genes in Cucurbita.