ArticleThe Plant journal : for cell and molecular biology2025
Establishing a comprehensive web-based analysis platform for Nicotiana benthamiana genome and transcriptome.
Article in The Plant journal : for cell and molecular biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- The F-box Containing Bacterial Effector RipG6 Destabilizes a Receptor-Like Cytoplasmic Kinase Involved in Plant Immune Signaling.The plant pathology journal · 2026Article
- The Recognition of YopJ Family Effectors Depends on ZAR1/JIM2 Immune Complex in Nicotiana benthamiana.Molecular plant pathology · 2026Article
- Protocol for triggering plant gene silencing by viral delivery of short RNA.STAR protocols · 2025Article
- Recovery of RNA-dependent RNA polymerase 6 gene-knockout phenotypes in Nicotiana benthamiana via in vivo generation of inverted repeat construct of the trans-acting short interference RNA3 sequence.The Plant journal : for cell and molecular biology · 2025Article
- Nicotiana benthamiana VASCULAR-RELATED NAC-DOMAIN7-2 (NbVND7-2) has a role in xylem formation during interfamily grafting.Journal of experimental botany · 2025Article
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16 authors.
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Abstract
Nicotiana benthamiana has long served as a crucial plant material extensively used in plant physiology research, particularly in the field of plant pathology, because of its high susceptibility to plant viruses. Additionally, it serves as a production platform to test vaccines and other valuable substances. Among its approximately 3.1 Gb genome, 57 583 genes have been annotated within a 61 Mb region. We created a comprehensive and easy-to-use platform to use transcriptomes for modern annotation. These tools allow to visualize gene expression profiles, draw molecular evolutionary phylogenetic trees of gene families, perform functional enrichment analyses, and facilitate output downloads. To demonstrate their utility, we analyzed the gene expression profiles of enzymes within the nicotine biosynthesis pathway, a secondary metabolic pathway characteristic of the Nicotiana genus. Using the developed tool, expression profiles of the nicotine biosynthesis pathway genes were generated. The expression patterns of eight gene groups in the pathway were strongly expressed in the roots and weakly expressed in leaves and flowers of N. benthamiana. The results were consistent with the established gene expression profiles in Nicotiana tabacum and provided insights into gene family composition and expression trends. The compilation of this database tool can facilitate genetic analysis of N. benthamiana in the future.
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