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Key message <p><b>This study analyzed the transcriptome, proteome and ubiquitylome of ToBRFV-infected tomato plants and verified the antiviral roles of </b><Emphasis Type="BoldItalic">SlCHS, SlPAO, and SlCCoAOMT</Emphasis><b> in tomato plants through TRV-VIGS assays.</b></p> Abstract <p><i>Tomato brown rugose fruit virus</i> (ToBRFV) infection causes leaf mottling and fruit wrinkling, significantly affecting tomato quality. Understanding the mechanisms of tomato plants in combating ToBRFV infection is fundamental to the development of effective strategies for viral disease control and management. To investigate the effects of ToBRFV infection on the gene regulatory network of tomato plants, we performed transcriptome, proteome and ubiquitylome sequencing on ToBRFV-infected tomato plants. A total of 874 differentially expressed genes (DEGs) and 675 differentially expressed proteins (DEPs) were identified. Most of them were involved in hormone signal transduction, MAPK signaling pathway, flavonoid biosynthesis, arginine and proline metabolism, and phenylalanine metabolism, and some of these proteins were modified by ubiquitination. Furthermore, virus-induced gene silencing (VIGS) assays revealed that silencing <i>SlCCoAOMT</i> or <i>SlCHS</i>, two flavonoid biosynthesis-related genes, enhanced tomato resistance to ToBRFV infection, while silencing <i>SlPAO</i>, an arginine and proline metabolism-related gene, promoted ToBRFV infection. These results reveal the key regulatory networks of tomato in response to ToBRFV infection, and identify <i>SlCCoAOMT</i>, <i>SlCHS</i> and <i>SlPAO</i> as potential candidate genes for disease-resistant breeding.</p>

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Integrated multi-omics analyses elucidate the key regulatory networks in response to Tomato brown rugose fruit virus infection in Solanum lycopersicum L.

  • 期刊论文

  • 发表日期：

    2026年3月25日

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  • Huiyan Guo,
  • Xue Dong,
  • Yue Wang,
  • Qingtao Ge,
  • Yimin Tan,
  • Jiaxing Zhang,
  • Xueqing Zhuang,
  • Zhiping Wang,
  • Mengnan An,
  • Zihao Xia,
  • Xueqing Yang,
  • Yuanhua Wu

摘要

Key message

This study analyzed the transcriptome, proteome and ubiquitylome of ToBRFV-infected tomato plants and verified the antiviral roles of SlCHS, SlPAO, and SlCCoAOMT in tomato plants through TRV-VIGS assays.

Abstract

Tomato brown rugose fruit virus (ToBRFV) infection causes leaf mottling and fruit wrinkling, significantly affecting tomato quality. Understanding the mechanisms of tomato plants in combating ToBRFV infection is fundamental to the development of effective strategies for viral disease control and management. To investigate the effects of ToBRFV infection on the gene regulatory network of tomato plants, we performed transcriptome, proteome and ubiquitylome sequencing on ToBRFV-infected tomato plants. A total of 874 differentially expressed genes (DEGs) and 675 differentially expressed proteins (DEPs) were identified. Most of them were involved in hormone signal transduction, MAPK signaling pathway, flavonoid biosynthesis, arginine and proline metabolism, and phenylalanine metabolism, and some of these proteins were modified by ubiquitination. Furthermore, virus-induced gene silencing (VIGS) assays revealed that silencing SlCCoAOMT or SlCHS, two flavonoid biosynthesis-related genes, enhanced tomato resistance to ToBRFV infection, while silencing SlPAO, an arginine and proline metabolism-related gene, promoted ToBRFV infection. These results reveal the key regulatory networks of tomato in response to ToBRFV infection, and identify SlCCoAOMT, SlCHS and SlPAO as potential candidate genes for disease-resistant breeding.