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Identification of miRNAs and Their Targets Involved in Flower and Fruit Development across Domesticated and Wild Capsicum Species,International Journal of Molecular Sciences

花匠小妙招
2025-09-15 15:16

MicroRNAs (miRNAs) are regulators of the post-transcription stage of gene activity documented to play central roles in flower and fruit development in model plant species. However, little is known about their roles and differences in domesticated and wild Capsicum species. In this study, we used high-throughput sequencing to analyze the miRNA content at three developmental stages (flower, small fruit, and middle fruit) from two cultivated (C. baccatum and C. annuum) and two wild (C. chacoense and C. eximium) pepper species. This analysis revealed 22 known and 27 novel miRNAs differentially expressed across species and tissues. A number of stage- and species-specific miRNAs were identified, and Gene Ontology terms were assigned to 138 genes targeted by the miRNAs. Most Gene Ontology terms were for the categories “genetic information processing”, “signaling and cellular processes”, “amino acid metabolism”, and “carbohydrate metabolism”. Enriched KEGG analysis revealed the pathways amino acids, sugar and nucleotide metabolism, starch and sucrose metabolism, and fructose-mannose metabolism among the principal ones regulated by miRNAs during pepper fruit ripening. We predicted miRNA–target gene interactions regulating flowering time and fruit development, including miR156/157 with SPL genes, miR159 with GaMYB proteins, miR160 with ARF genes, miR172 with AP2-like transcription factors, and miR408 with CLAVATA1 gene across the different Capsicum species. In addition, novel miRNAs play an important role in regulating interactions potentially controlling plant pathogen defense and fruit quality via fructokinase, alpha-L-arabinofuranosidase, and aromatic and neutral amino acid transporter. Overall, the small RNA-sequencing results from this study represent valuable information that provides a solid foundation for uncovering the miRNA-mediated mechanisms of flower and fruit development between domesticated and wild Capsicum species.

中文翻译：

鉴定的miRNA及其靶标涉及驯化和野生辣椒品种的花和果实发育

MicroRNA（miRNA）是基因活性转录后阶段的调节物，据报道在模型植物物种的花和果实发育中起着核心作用。然而，关于它们在驯化和野生辣椒品种中的作用和差异知之甚少。在这项研究中，我们采用高通量测序，以三个发育阶段（花，小果和水果中）miRNA的内容从两个栽培（分析风铃辣椒和辣椒）和两个野生（C. chacoense和Ç eximium）的辣椒品种。这项分析揭示了22种已知的miRNA和27种新颖的miRNA在物种和组织中差异表达。鉴定了许多阶段和物种特异性的miRNA，并将基因本体学术语分配给了miRNA靶向的138个基因。大多数基因本体论术语都用于“遗传信息处理”，“信号和细胞过程”，“氨基酸代谢”和“碳水化合物代谢”类别。丰富的KEGG分析揭示了辣椒果实成熟期间miRNA调控的主要途径中的氨基酸，糖和核苷酸代谢，淀粉和蔗糖代谢以及果糖-甘露糖代谢途径。我们预测了调控开花时间和果实发育的miRNA-靶基因相互作用，包括带有SPL的miR156 / 157基因，miR159与GAMYB蛋白，miR160与ARF基因，miR172 AP2具有类似的转录因子，并与miR408 CLAVATA1跨不同基因辣椒品种。此外，新型miRNA通过果糖激酶，α-L-阿拉伯呋喃糖苷酶以及芳香族和中性氨基酸转运蛋白，在调节可能控制植物病原体防御和果实品质的相互作用中发挥重要作用。总体而言，这项研究的小RNA测序结果代表了有价值的信息，为揭示miRNA介导的驯化和野生辣椒品种之间的花和果实发育机制提供了坚实的基础。