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<p>Sweet sorghum can be negatively affected by sorghum mosaic virus (SrMV). The application of microRNAs (miRNAs) is a novel approach for antiviral defense in host plants. Herein, an in silico analysis was performed, and the molecular interaction of SrMV and sorghum-encoded miRNAs was determined through the identification of the host miRNAs which can target the viral RNA leading to possible antiviral defense. Moreover, the molecular pathways activated by the miRNA-targeted genes were characterized. The results showed that 24 miRNA targets are located on the viral genome inhibiting the sequences by cleavage and translational mechanisms. Also, the putative structures and entropic properties of the miRNAs were determined. Moreover, the miRNAs could target five open reading frames (<i>P1</i>, <i>HC-Pro</i>, <i>NIa</i>, <i>NIb</i>, and <i>CP</i>) located on the viral genome. Interestingly, a non-coding region of the viral genome, i.e., untranslated regions at the 5’ terminus, was targeted by two miRNAs. Twelve host genes involved in biotic stress were targeted by the miRNAs. Gene ontology (GO) analysis showed that 4123 host genes were targeted by the miRNAs. GO enrichment exhibited that these genes are involved in 307,196 biochemical pathways in the host. Thirty biochemical pathways were found to be significantly enriched among which were defense-related pathways including kinase activity, phosphorylation, ATP binding, coiled-coil, and nucleotide binding. It can be concluded that the sorghum-originated miRNAs can target different genomic regions of SrMV and regulate the defense-related host genes as well. These data can be used in the production of resistant sorghum plants challenged by SrMV.</p>

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Computational Analysis of microRNAs in Sweet Sorghum (Sorghum bicolor) Infected by Sorghum Mosaic Virus

  • 期刊论文

  • 发表日期：

    2025年6月17日

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  • Mohamad Ghodoum Parizipour,
  • Aminallah Tahmasebi,
  • Amir Ghaffar Shahriari

摘要

Sweet sorghum can be negatively affected by sorghum mosaic virus (SrMV). The application of microRNAs (miRNAs) is a novel approach for antiviral defense in host plants. Herein, an in silico analysis was performed, and the molecular interaction of SrMV and sorghum-encoded miRNAs was determined through the identification of the host miRNAs which can target the viral RNA leading to possible antiviral defense. Moreover, the molecular pathways activated by the miRNA-targeted genes were characterized. The results showed that 24 miRNA targets are located on the viral genome inhibiting the sequences by cleavage and translational mechanisms. Also, the putative structures and entropic properties of the miRNAs were determined. Moreover, the miRNAs could target five open reading frames (P1, HC-Pro, NIa, NIb, and CP) located on the viral genome. Interestingly, a non-coding region of the viral genome, i.e., untranslated regions at the 5’ terminus, was targeted by two miRNAs. Twelve host genes involved in biotic stress were targeted by the miRNAs. Gene ontology (GO) analysis showed that 4123 host genes were targeted by the miRNAs. GO enrichment exhibited that these genes are involved in 307,196 biochemical pathways in the host. Thirty biochemical pathways were found to be significantly enriched among which were defense-related pathways including kinase activity, phosphorylation, ATP binding, coiled-coil, and nucleotide binding. It can be concluded that the sorghum-originated miRNAs can target different genomic regions of SrMV and regulate the defense-related host genes as well. These data can be used in the production of resistant sorghum plants challenged by SrMV.