ArticleBMC genomics2008
Conserved upstream open reading frames in higher plants.
Article in BMC genomics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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38 citing papers in PubMed, 78 citations in OpenAlex.
- An investigation of the dual mechanism of uORF-mediated regulation of GGP1 expression and the effects on drought stress in cotton.Plant physiology · 2026Article
- RNA processing/modifying enzymes play key roles in the response to thermospermine in Arabidopsis thaliana.The Plant journal : for cell and molecular biology · 2025Article
- Recent advances in improving yield and immunity through transcription factor engineering.Journal of integrative plant biology · 2025Review
- Combining AI and new genomic techniques to 'fine-tune' plants: challenges in risk assessment.Frontiers in plant science · 2025Article
- Discovery of a conserved translationally repressive upstream open reading frame within the iron-deficiency response regulator IDEF2.BMC plant biology · 2024Article
- Tuning plant phenotypes by precise, graded downregulation of gene expression.Nature biotechnology · 2023Article
- The identification of conserved sequence features of co-translationally decayed mRNAs and upstream open reading frames in angiosperm transcriptomes.Plant direct · 2023Article
- Identification of short open reading frames in plant genomes.Frontiers in plant science · 2023Review
- Plants utilise ancient conserved peptide upstream open reading frames in stress-responsive translational regulation.Plant, cell & environment · 2022Article
- Dissection of a rice OsMac1 mRNA 5' UTR to uncover regulatory elements that are responsible for its efficient translation.PloS one · 2021Article
- Conserved Upstream Open Reading Frame Nascent Peptides That Control Translation.Annual review of genetics · 2020Review
- Exhaustive identification of conserved upstream open reading frames with potential translational regulatory functions from animal genomes.Scientific reports · 2020Article
- uORFs: ImportantInternational journal of molecular sciences · 2020Review
- Dynamics of transcription-translation coordination tune bacterial indole signaling.Nature chemical biology · 2020Article
- Comprehensive genome-wide identification of angiosperm upstream ORFs with peptide sequences conserved in various taxonomic ranges using a novel pipeline, ESUCA.BMC genomics · 2020Article
- uORFlight: a vehicle toward uORF-mediated translational regulation mechanisms in eukaryotes.Database : the journal of biological databases and curation · 2020Article
- Metabolite Control of Translation by Conserved Peptide uORFs: The Ribosome as a Metabolite Multisensor.Plant physiology · 2020Article
- Genome-wide identification and characterization of the GDP-L-galactose phosphorylase gene family in bread wheat.BMC plant biology · 2019Article
- Novel pipeline identifies new upstream ORFs and non-AUG initiating main ORFs with conserved amino acid sequences in the 5' leader of mRNAs inRNA (New York, N.Y.) · 2019Article
- Complexity and Conservation of Thermospermine-Responsive uORFs ofFrontiers in plant science · 2019Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundUpstream open reading frames (uORFs) can down-regulate the translation of the main open reading frame (mORF) through two broad mechanisms: ribosomal stalling and reducing reinitiation efficiency. In distantly related plants, such as rice and Arabidopsis, it has been found that conserved uORFs are rare in these transcriptomes with approximately 100 loci. It is unclear how prevalent conserved uORFs are in closely related plants.
resultsWe used a homology-based approach to identify conserved uORFs in five cereals (monocots) that could potentially regulate translation. Our approach used a modified reciprocal best hit method to identify putative orthologous sequences that were then analysed by a comparative R-nomics program called uORFSCAN to find conserved uORFs.
conclusionThis research identified new genes that may be controlled at the level of translation by conserved uORFs. We report that conserved uORFs are rare (<150 loci contain them) in cereal transcriptomes, are generally short (less than 100 nt), highly conserved (50% median amino acid sequence similarity), position independent in their 5'-UTRs, and their start codon context and the usage of rare codons for translation does not appear to be important.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.