ArticlePloS one2016
Identification of Interactions in the NMD Complex Using Proximity-Dependent Biotinylation (BioID).
Article in PloS one, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
23 citing papers in PubMed, 35 citations in OpenAlex.
- The rice DEAD-box RNA helicase OseIF4AIIa associates with the CCR4-NOT complex and exhibits stress-responsive expression.Molecular biology reports · 2026Article
- YTHDF2 facilitates aggresome formation via UPF1 in an mNature communications · 2023Article
- Analysis of Ku70 S155 Phospho-Specific BioID2 Interactome Identifies Ku Association with TRIP12 in Response to DNA Damage.International journal of molecular sciences · 2023Article
- Proximity Mapping of CCP6 Reveals Its Association with Centrosome Organization and Cilium Assembly.International journal of molecular sciences · 2023Article
- NMD is required for timely cell fate transitions by fine-tuning gene expression and regulating translation.Genes & development · 2022Article
- Article
- The human DEAD-box helicase DDX3X as a regulator of mRNA translation.Frontiers in cell and developmental biology · 2022Review
- The comprehensive interactomes of human adenosine RNA methyltransferases and demethylases reveal distinct functional and regulatory features.Nucleic acids research · 2021Article
- Article
- Structure-Mediated RNA Decay by UPF1 and G3BP1.Molecular cell · 2020Article
- eIF4A2 drives repression of translation at initiation by Ccr4-Not through purine-rich motifs in the 5'UTR.Genome biology · 2019Article
- UPF1/SMG7-dependent microRNA-mediated gene regulation.Nature communications · 2019Article
- DEAD-box helicase eIF4A2 inhibits CNOT7 deadenylation activity.Nucleic acids research · 2019Article
- Analysis of biological networks in the endothelium with biomimetic microsystem platform.American journal of physiology. Lung cellular and molecular physiology · 2019Article
- Eukaryotic translation initiation factor 4AII contributes to microRNA-122 regulation of hepatitis C virus replication.Nucleic acids research · 2018Article
- Proximity labeling: spatially resolved proteomic mapping for neurobiology.Current opinion in neurobiology · 2018Review
- An AP-MS- and BioID-compatible MAC-tag enables comprehensive mapping of protein interactions and subcellular localizations.Nature communications · 2018Article
- C. elegans SUP-46, an HNRNPM family RNA-binding protein that prevents paternally-mediated epigenetic sterility.BMC biology · 2017Article
- Nonsense in the testis: multiple roles for nonsense-mediated decay revealed in male reproduction.Biology of reproduction · 2017Review
- Synapse biology in the 'circuit-age'-paths toward molecular connectomics.Current opinion in neurobiology · 2017Review
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Proximity-dependent trans-biotinylation by the Escherichia coli biotin ligase BirA mutant R118G (BirA*) allows stringent streptavidin affinity purification of proximal proteins. This so-called BioID method provides an alternative to the widely used co-immunoprecipitation (co-IP) to identify protein-protein interactions. Here, we used BioID, on its own and combined with co-IP, to identify proteins involved in nonsense-mediated mRNA decay (NMD), a post-transcriptional mRNA turnover pathway that targets mRNAs that fail to terminate translation properly. In particular, we expressed BirA* fused to the well characterized NMD factors UPF1, UPF2 and SMG5 and detected by liquid chromatography-coupled tandem mass spectrometry (LC-MS/MS) the streptavidin-purified biotinylated proteins. While the identified already known interactors confirmed the usefulness of BioID, we also found new potentially important interactors that have escaped previous detection by co-IP, presumably because they associate only weakly and/or very transiently with the NMD machinery. Our results suggest that SMG5 only transiently contacts the UPF1-UPF2-UPF3 complex and that it provides a physical link to the decapping complex. In addition, BioID revealed among others CRKL and EIF4A2 as putative novel transient interactors with NMD factors, but whether or not they have a function in NMD remains to be elucidated.
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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.