ArticleNucleic acids research2013
Hyper conserved elements in vertebrate mRNA 3'-UTRs reveal a translational network of RNA-binding proteins controlled by HuR.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 37 citations in OpenAlex.
- Characterizing highly conserved fragments in 3'UTRs via statistical and transfer learning approaches.NAR genomics and bioinformatics · 2026Article
- Non-coding RNAs and neuroinflammation: implications for neurological disorders.Experimental biology and medicine (Maywood, N.J.) · 2024Review
- Rare and common variant discovery by whole-genome sequencing of 101 Thoroughbred racehorses.Scientific reports · 2021Article
- Nutlin-Induced Apoptosis Is Specified by a Translation Program Regulated by PCBP2 and DHX30.Cell reports · 2020Article
- Hyperconserved Elements in Human 5'UTRs Shape Essential Post-transcriptional Regulatory Networks.Frontiers in molecular biosciences · 2020Article
- Article
- Inherited disorders of cobalamin metabolism disrupt nucleocytoplasmic transport of mRNA through impaired methylation/phosphorylation of ELAVL1/HuR.Nucleic acids research · 2018Article
- Handshakes and Fights: The Regulatory Interplay of RNA-Binding Proteins.Frontiers in molecular biosciences · 2017Review
- DynaMIT: the dynamic motif integration toolkit.Nucleic acids research · 2016Article
- A Bioinformatics Approach to Prioritize Single Nucleotide Polymorphisms in TLRs Signaling Pathway Genes.International journal of molecular and cellular medicine · 2016Article
- Rice MEL2, the RNA recognition motif (RRM) protein, binds in vitro to meiosis-expressed genes containing U-rich RNA consensus sequences in the 3'-UTR.Plant molecular biology · 2015Article
- Hu antigen R (HuR) is a positive regulator of the RNA-binding proteins TDP-43 and FUS/TLS: implications for amyotrophic lateral sclerosis.The Journal of biological chemistry · 2014Article
- Convergent evolution of IL-6 in two leporids (Oryctolagus and Pentalagus) originated an extended protein.Immunogenetics · 2014Article
- Conserved regions of the DMD 3' UTR regulate translation and mRNA abundance in cultured myotubes.Neuromuscular disorders : NMD · 2014Article
- Noncoding RNA and its associated proteins as regulatory elements of the immune system.Nature immunology · 2014Review
- Chimeric NP non coding regions between type A and C influenza viruses reveal their role in translation regulation.PloS one · 2014Article
- AURA 2: Empowering discovery of post-transcriptional networks.Translation (Austin, Tex.) · 2014Article
- Adaptive and maladaptive expression of the mRNA regulatory protein HuR.World journal of biological chemistry · 2013Review
- A novel high throughput biochemical assay to evaluate the HuR protein-RNA complex formation.PloS one · 2013Article
Corrections and comments
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Little is known regarding the post-transcriptional networks that control gene expression in eukaryotes. Additionally, we still need to understand how these networks evolve, and the relative role played in them by their sequence-dependent regulatory factors, non-coding RNAs (ncRNAs) and RNA-binding proteins (RBPs). Here, we used an approach that relied on both phylogenetic sequence sharing and conservation in the whole mapped 3'-untranslated regions (3'-UTRs) of vertebrate species to gain knowledge on core post-transcriptional networks. The identified human hyper conserved elements (HCEs) were predicted to be preferred binding sites for RBPs and not for ncRNAs, namely microRNAs and long ncRNAs. We found that the HCE map identified a well-known network that post-transcriptionally regulates histone mRNAs. We were then able to discover and experimentally confirm a translational network composed of RNA Recognition Motif (RRM)-type RBP mRNAs that are positively controlled by HuR, another RRM-type RBP. HuR shows a preference for these RBP mRNAs bound in stem-loop motifs, confirming its role as a 'regulator of regulators'. Analysis of the transcriptome-wide HCE distribution revealed a profile of prevalently small clusters separated by unconserved intercluster RNA stretches, which predicts the formation of discrete small ribonucleoprotein complexes in the 3'-UTRs.
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Registered trials
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.