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<p>The <i>SlIP5P</i> gene family contains a conserved exonuclease endonuclease phosphatase (EEP) domain. This gene family is known to be associated with leaf development in <i>Arabidopsis thaliana</i> however, its role in other developmental and stress responses is not well studied. Additionally, few candidate genes of the gene family were significantly regulated under biotic and mostly in abiotic stress treatment. Further to explore this gene family, we have identified and characterized 18 genes of this family in tomato through an in silico genome-wide study. All the members of this gene family possess conserved sets of motif. Phylogenetic analysis involving different species results five subgroups. <i>SlIP5P</i> genes are expressed mostly in root, leaf, bud and flower as per the data available in Tomato functional genomics database. In this study, we have selected three genes from three different clades of the <i>SlIP5P</i> gene family and checked their expression via qPCR upon salt stress and tomato leaf curl New Delhi virus (ToLCNDV) infection. All the three genes are upregulated under stress. However, among them <i>SlIP5P</i>-11 was significantly regulated by both ToLCNDV infection and salt stress. Altogether, this genome-wide analysis not only revealed a new gene family but also paved a path for further research on its potential targets and regulatory mechanisms in tomato and other plant species.</p>

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Genome-wide identification, characterization and expression analysis of SlIP5P gene family in tomato during tomato leaf curl New Delhi virus infection and salt stress

  • 期刊论文

  • 发表日期：

    2026年3月16日

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  • Debdatta Chatterjee,
  • Sanjib Patra,
  • Jawahar Singh,
  • Arunava Mandal

摘要

The SlIP5P gene family contains a conserved exonuclease endonuclease phosphatase (EEP) domain. This gene family is known to be associated with leaf development in Arabidopsis thaliana however, its role in other developmental and stress responses is not well studied. Additionally, few candidate genes of the gene family were significantly regulated under biotic and mostly in abiotic stress treatment. Further to explore this gene family, we have identified and characterized 18 genes of this family in tomato through an in silico genome-wide study. All the members of this gene family possess conserved sets of motif. Phylogenetic analysis involving different species results five subgroups. SlIP5P genes are expressed mostly in root, leaf, bud and flower as per the data available in Tomato functional genomics database. In this study, we have selected three genes from three different clades of the SlIP5P gene family and checked their expression via qPCR upon salt stress and tomato leaf curl New Delhi virus (ToLCNDV) infection. All the three genes are upregulated under stress. However, among them SlIP5P-11 was significantly regulated by both ToLCNDV infection and salt stress. Altogether, this genome-wide analysis not only revealed a new gene family but also paved a path for further research on its potential targets and regulatory mechanisms in tomato and other plant species.