ArticleBMC genomics2017
Ribosome profiling reveals translational regulation of mammalian cells in response to hypoxic stress.
Article in BMC genomics, 2017. 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, 27 citations in OpenAlex.
- Hypoxia-mediated regulation of mRNA metabolism: from transcription to stability.Cell communication and signaling : CCS · 2025Review
- Article
- RNA G-quadruplexes and stress: emerging mechanisms and functions.Trends in cell biology · 2024Review
- Ribosome Profiling and RNA Sequencing Reveal Translation and Transcription Regulation under Acute Heat Stress in Rainbow Trout (International journal of molecular sciences · 2024Article
- RiboGalaxy: A Galaxy-based Web Platform for Ribosome Profiling Data Processing - 2023 Update.Journal of molecular biology · 2023Article
- Executable Network Models of Integrated Multiomics Data.Journal of proteome research · 2023Article
- MDM2 inhibitors, nutlin-3a and navtemadelin, retain efficacy in human and mouse cancer cells cultured in hypoxia.Scientific reports · 2023Article
- Ciliogenesis requires sphingolipid-dependent membrane and axoneme interaction.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Ribosome Profiling Reveals Genome-Wide Cellular Translational Regulation inFoods (Basel, Switzerland) · 2022Article
- Translational control in cell ageing: an update.Biochemical Society transactions · 2021Review
- Article
- EPAS1 and VEGFA gene variants are related to the symptoms of acute mountain sickness in Chinese Han population: a cross-sectional study.Military Medical Research · 2020Article
- Genomic and physiological resilience in extreme environments are associated with a secure attachment style.Translational psychiatry · 2020Article
- Functional Translatome Proteomics Reveal Converging and Dose-Dependent Regulation by mTORC1 and eIF2α.Molecular cell · 2020Article
- Insights Into Translatomics in the Nervous System.Frontiers in genetics · 2020Review
- Multimapping confounds ribosome profiling analysis: A case-study of the Hsp90 molecular chaperone.Proteins · 2020Article
- Translational and transcriptional responses in human primary hepatocytes under hypoxia.American journal of physiology. Gastrointestinal and liver physiology · 2019Article
- ALFA: annotation landscape for aligned reads.BMC genomics · 2019Article
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundRetinal pigment epithelium (RPE) cells transfer oxygen and nutrients from choroid to the neural retina. Reduced oxygen to RPE perturbs development and functions of blood vessels in retina. Previous efforts of genome-wide studies have been largely focused on transcriptional changes of cells in response to hypoxia. Recently developed ribosome profiling provides an opportunity to study genome-wide translational changes. To gain systemic insights into the transcriptional and translational regulation of cellular in response to hypoxic stress, we used simultaneous RNA sequencing and ribosome profiling on an RPE cells line, ARPE-19, under hypoxia condition.
resultsBoth HIF-1α and EPAS1 (HIF-2α) proteins were stabilized in ARPE-19 under hypoxic stress treatment at 1 h, 2 h and 4 h. Analysis of simultaneous RNA sequencing and ribosome profiling data showed genome-wide gene expression changes at both transcriptional and translational levels. Comparative analysis of ribosome profiling and RNA-seq data revealed that hypoxia induced changes of more genes at the translational than the transcriptional levels. Ribosomes densities at 5' untranslated region (UTR) significantly increased under hypoxic stress. Interestingly, the increase in ribosome densities at 5' UTR is positively correlated with the presence of upstream open reading frames (uORFs) in the 5' UTR of mRNAs.
conclusionOur results characterized translational profiles of mRNAs for a RPE cell line in response to hypoxia. In particular, uORFs play important roles in the regulation of translation efficiency by affecting ribosomes loading onto mRNAs. This study provides the first attempt to understand translational response of mammalian cells under hypoxic condition.
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