ArticlePLoS genetics2021
Functional and transcriptional profiling of non-coding RNAs in yeast reveal context-dependent phenotypes and in trans effects on the protein regulatory network.
Article in PLoS genetics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 32 citations in OpenAlex.
- Genome-wide discovery and phenotyping of non-coding transcripts in A. fumigatus reveals lncRNAs with a role in antifungal drug sensitivity.Nature communications · 2026Article
- Identification and Functions of lncRNAs in Fungi.Non-coding RNA · 2025Review
- Functional analysis and transcriptional profiling of non-coding RNAs in yeast.The Biochemical journal · 2025Review
- Multi-Omics Analysis Reveals Impacts of LincRNA Deletion on Yeast Protein Synthesis.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Saccharomyces Genome Database: advances in genome annotation, expanded biochemical pathways, and other key enhancements.Genetics · 2025Article
- Exploring adaptation routes to cold temperatures in the Saccharomyces genus.PLoS genetics · 2025Article
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- Identification and functional analysis of growth rate associated long non-coding RNAs inComputational and structural biotechnology journal · 2025Article
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- Discovering the hidden function in fungal genomes.Nature communications · 2024Review
- Review
- Integrative Analysis of the Ethanol Tolerance ofInternational journal of molecular sciences · 2023Article
- Eisosome disruption by noncoding RNA deletion increases protein secretion in yeast.PNAS nexus · 2022Article
- LncRNAs of Saccharomyces cerevisiae bypass the cell cycle arrest imposed by ethanol stress.PLoS computational biology · 2022Article
- Ribosomal RNA 2'-Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Article
- The long non-coding RNA landscape of Candida yeast pathogens.Nature communications · 2021Article
- Advances in Non-Coding RNA Sequencing.Non-coding RNA · 2021Review
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
Abstract
Non-coding RNAs (ncRNAs), including the more recently identified Stable Unannotated Transcripts (SUTs) and Cryptic Unstable Transcripts (CUTs), are increasingly being shown to play pivotal roles in the transcriptional and post-transcriptional regulation of genes in eukaryotes. Here, we carried out a large-scale screening of ncRNAs in Saccharomyces cerevisiae, and provide evidence for SUT and CUT function. Phenotypic data on 372 ncRNA deletion strains in 23 different growth conditions were collected, identifying ncRNAs responsible for significant cellular fitness changes. Transcriptome profiles were assembled for 18 haploid ncRNA deletion mutants and 2 essential ncRNA heterozygous deletants. Guided by the resulting RNA-seq data we analysed the genome-wide dysregulation of protein coding genes and non-coding transcripts. Novel functional ncRNAs, SUT125, SUT126, SUT035 and SUT532 that act in trans by modulating transcription factors were identified. Furthermore, we described the impact of SUTs and CUTs in modulating coding gene expression in response to different environmental conditions, regulating important biological process such as respiration (SUT125, SUT126, SUT035, SUT432), steroid biosynthesis (CUT494, SUT053, SUT468) or rRNA processing (SUT075 and snR30). Overall, these data capture and integrate the regulatory and phenotypic network of ncRNAs and protein-coding genes, providing genome-wide evidence of the impact of ncRNAs on cellular homeostasis.
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