ArticlePlant communications2023
Ribosome profiling reveals the translational landscape and allele-specific translational efficiency in rice.
Article in Plant communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- The hidden sources of spurious fusion transcripts in plants.Genome biology · 2026Article
- Plant Peptides on the Rise: From Historical Insight to Future Applications.Plant biotechnology journal · 2026Review
- Computational prediction-combined proteogenomics unveils widespread non-AUG translation initiation events in plants.Nucleic acids research · 2026Article
- Maize Anther Development Involves Translated Open Reading Frames From 3' Untranslated Regions.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Multi-Tissue Omics Analysis Uncovers Translational Regulation Underlying Complex Traits in Pigs.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Plant non-canonical peptides: From identification to mechanisms.Plant communications · 2026Review
- Integrating Metabolomics and Proteomics to Reveal the Regulatory Network Governing the Natural Variation in Rice Seed Germination Rate.Plants (Basel, Switzerland) · 2026Article
- Translational landscape during seed germination revealed by ribosome profiling.The Plant journal : for cell and molecular biology · 2026Article
- Precision engineering of upstream open reading frames for translational regulation and crop improvement.Frontiers in genome editing · 2026Review
- The 'non-conventional' peptidome: A new layer in plant regulatory mechanisms.Plant communications · 2025Review
- Deciphering the Contribution of TATA Box and 5'UTR to Defense Signaling in Rice Under Blast Infection.Biology · 2025Review
- Identification of Rice LncRNAs and Their Roles in the Rice Blast Resistance Network Using Transcriptome and Translatome.Plants (Basel, Switzerland) · 2025Article
- Transcriptome dynamics and allele-specific regulation underlie wheat heterosis at the anthesis and grain-filling stages.BMC genomics · 2025Article
- Aptamer‑mediated modulation of eEF1 enhances salt stress tolerance in rice.BMC plant biology · 2025Article
- Transcriptomic profiles reveal hormonal regulation of sugar-induced stolon initiation in potato.Scientific reports · 2025Article
- Integrative Multi-Omics Approaches for Identifying and Characterizing Biological Elements in Crop Traits: Current Progress and Future Prospects.International journal of molecular sciences · 2025Review
- Integrative multi-omics analysis reveals the translational landscape of the plant-parasitic nematode Meloidogyne incognita.Communications biology · 2025Article
- Evaluation of Eukaryotic mRNA Coding Potential.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Editing and genome-wide analysis upstream open reading frames contributes to enhancing salt tolerance in tomato.Plant biotechnology journal · 2024Article
- HOT3/eIF5B1 confers Kozak motif-dependent translational control of photosynthesis-associated nuclear genes for chloroplast biogenesis.Nature communications · 2024Article
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Authors and funding
9 authors.
Funding
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Abstract
Translational regulation is a critical step in the process of gene expression and governs the synthesis of proteins from mRNAs. Many studies have revealed translational regulation in plants in response to various environmental stimuli. However, there have been no studies documenting the comprehensive landscape of translational regulation and allele-specific translational efficiency in multiple plant tissues, especially those of rice, a main staple crop that feeds nearly half of the world's population. Here we used RNA sequencing and ribosome profiling data to analyze the transcriptome and translatome of an elite hybrid rice, Shanyou 63 (SY63), and its parental varieties Zhenshan 97 and Minghui 63. The results revealed that gene expression patterns varied more among tissues than among varieties at the transcriptional and translational levels. We identified 3392 upstream open reading frames (uORFs), and the uORF-containing genes were enriched in transcription factors. Only 668 of 13 492 long non-coding RNAs could be translated into peptides. Finally, we discovered numerous genes with allele-specific translational efficiency in SY63 and demonstrated that some cis-regulatory elements may contribute to allelic divergence in translational efficiency. Overall, these findings may improve our understanding of translational regulation in rice and provide information for molecular breeding research.
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