The DOI matches its Crossref record; 48 of the 48 references it cites were found in a registry or an index.
Dynamics of Translation of Single mRNA Molecules In Vivo
Open accessAbstract
Regulation of mRNA translation, the process by which ribosomes decode mRNAs into polypeptides, is used to tune cellular protein levels. Currently, methods for observing the complete process of translation from single mRNAs in vivo are unavailable. Here, we report the long-term (>1 hr) imaging of single mRNAs undergoing hundreds of rounds of translation in live cells, enabling quantitative measurements of ribosome initiation, elongation, and stalling. This approach reveals a surprising heterogeneity in the translation of individual mRNAs within the same cell, including rapid and reversible transitions between a translating and non-translating state. Applying this method to the cell-cycle gene Emi1, we find strong overall repression of translation initiation by specific 5' UTR sequences, but individual mRNA molecules in the same cell can exhibit dramatically different translational efficiencies. The ability to observe translation of single mRNA molecules in live cells provides a powerful tool to study translation regulation.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Global quantification of mammalian gene expression control
Schwanhäusser, B., Busse, D., Li, N., Dittmar, G., Schuchhardt, J., Wolf, J., Chen, W., & Selbach, M. (2011) · Nature · doi:10.1038/nature10098 · Cited by 6,566 · cited 2×
“The level of gene expression is regulated at multiple distinct steps, including transcription, mRNA degradation, and translation (Schwanhäusser et al., 2011).”
BackgroundGenome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling
Ingolia, N. T., Ghaemmaghami, S., Newman, J. R. S., & Weissman, J. S. (2009) · Science · doi:10.1126/science.1168978 · Cited by 3,853
N6-methyladenosine Modulates Messenger RNA Translation Efficiency
Wang, X., Zhao, B. S., Roundtree, I. A., Lu, Z., Han, D., Ma, H., Weng, X., Chen, K., Shi, H., & He, C. (2015) · Cell · doi:10.1016/j.cell.2015.05.014 · Cited by 3,483
Ingolia, N. T., Lareau, L. F., & Weissman, J. S. (2011) · Cell · doi:10.1016/j.cell.2011.10.002 · Cited by 2,187
Computer Control of Microscopes Using µManager
Edelstein, A., Amodaj, N., Hoover, K., Vale, R., & Stuurman, N. (2010) · Current Protocols in Molecular Biology · doi:10.1002/0471142727.mb1420s92 · Cited by 1,670
Self-citationA Protein-Tagging System for Signal Amplification in Gene Expression and Fluorescence Imaging
Tanenbaum, M. E., Gilbert, L. A., Qi, L. S., Weissman, J. S., & Vale, R. D. (2014) · Cell · doi:10.1016/j.cell.2014.09.039 · Cited by 1,580
Self-citationCurrent Protocols in Molecular Biology
(2018) · Current Protocols in Molecular Biology · doi:10.1002/(issn)1934-3647 · Cited by 1,372
Probing Gene Expression in Live Cells, One Protein Molecule at a Time
Yu, J., Xiao, J., Ren, X., Lao, K., & Xie, X. S. (2006) · Science · doi:10.1126/science.1119623 · Cited by 918
Alternative cleavage and polyadenylation: extent, regulation and function
Elkon, R., Ugalde, A. P., & Agami, R. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3482 · Cited by 804
Walter, P., & Blobel, G. (1981) · The Journal of cell biology · doi:10.1083/jcb.91.2.557 · Cited by 803
Genome-wide measurement of RNA secondary structure in yeast
Kertesz, M., Wan, Y., Mazor, E., Rinn, J. L., Nutter, R. C., Chang, H. Y., & Segal, E. (2010) · Nature · doi:10.1038/nature09322 · Cited by 765
Spatial regulation of β-actin translation by Src-dependent phosphorylation of ZBP1
Hüttelmaier, S., Zenklusen, D., Lederer, M., Dictenberg, J., Lorenz, M., Meng, X., Bassell, G. J., Condeelis, J., & Singer, R. H. (2005) · Nature · doi:10.1038/nature04115 · Cited by 647
Dynamic visualization of local protein synthesis in hippocampal neurons
Aakalu, G., Smith, W. B., Nguyen, N., Jiang, C., & Schuman, E. M. (2001) · Neuron · doi:10.1016/s0896-6273(01)00295-1 · Cited by 611
Evidence for a Pioneer Round of mRNA Translation
Ishigaki, Y., Li, X., Serin, G., & Maquat, L. E. (2001) · Cell · doi:10.1016/s0092-8674(01)00475-5 · Cited by 582
High-Resolution View of the Yeast Meiotic Program Revealed by Ribosome Profiling
Brar, G. A., Yassour, M., Friedman, N., Regev, A., Ingolia, N. T., & Weissman, J. S. (2012) · Science · doi:10.1126/science.1215110 · Cited by 533
The Central Dogma Decentralized: New Perspectives on RNA Function and Local Translation in Neurons
Holt, C. E., & Schuman, E. M. (2013) · Neuron · doi:10.1016/j.neuron.2013.10.036 · Cited by 525
Following translation by single ribosomes one codon at a time
Wen, J.-D., Lancaster, L., Hodges, C., Zeri, A.-C., Yoshimura, S. H., Noller, H. F., Bustamante, C., & Tinoco, I. (2008) · Nature · doi:10.1038/nature06716 · Cited by 492
Asymmetrical β-actin mRNA translation in growth cones mediates attractive turning to netrin-1
Leung, K.-M., van Horck, F. P., Lin, A. C., Allison, R., Standart, N., & Holt, C. E. (2006) · Nature Neuroscience · doi:10.1038/nn1775 · Cited by 478
Dynamic profiling of the protein life cycle in response to pathogens
Jovanovic, M., Rooney, M. S., Mertins, P., Przybylski, D., Chevrier, N., Satija, R., Rodriguez, E. H., Fields, A. P., Schwartz, S., Raychowdhury, R., et al. (2015) · Science · doi:10.1126/science.1259038 · Cited by 460
Spontaneous Intersubunit Rotation in Single Ribosomes
Cornish, P. V., Ermolenko, D. N., Noller, H. F., & Ha, T. (2008) · Molecular Cell · doi:10.1016/j.molcel.2008.05.004 · Cited by 390
Axonal Protein Synthesis Provides a Mechanism for Localized Regulation at an Intermediate Target
Brittis, P. A., Lu, Q., & Flanagan, J. G. (2002) · Cell · doi:10.1016/s0092-8674(02)00813-9 · Cited by 381
Functional characterization of IRESes by an inhibitor of the RNA helicase eIF4A
Bordeleau, M.-E., Mori, A., Oberer, M., Lindqvist, L., Chard, L. S., Higa, T., Belsham, G. J., Wagner, G., Tanaka, J., & Pelletier, J. (2006) · Nature Chemical Biology · doi:10.1038/nchembio776 · Cited by 366
Translational Pausing Ensures Membrane Targeting and Cytoplasmic Splicing of XBP1u mRNA
Yanagitani, K., Kimata, Y., Kadokura, H., & Kohno, K. (2011) · Science · doi:10.1126/science.1197142 · Cited by 362
Real-Time Imaging of Translation on Single mRNA Transcripts in Live Cells
Wang, C., Han, B., Zhou, R., & Zhuang, X. (2016) · Cell · doi:10.1016/j.cell.2016.04.040 · Cited by 359
Control of mammalian translation by mRNA structure near caps
Babendure, J. R., Babendure, J. L., Ding, J.-H., & Tsien, R. Y. (2006) · RNA · doi:10.1261/rna.2309906 · Cited by 339
Coupling of Ribosomal L1 Stalk and tRNA Dynamics during Translation Elongation
Fei, J., Kosuri, P., MacDougall, D. D., & Gonzalez, R. L. (2008) · Molecular Cell · doi:10.1016/j.molcel.2008.03.012 · Cited by 316
The exon junction complex as a node of post-transcriptional networks
Hir, H. L., Saulière, J., & Wang, Z. (2016) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2015.7 · Cited by 288
Activity- and mTOR-dependent suppression of Kv1.1 channel mRNA translation in dendrites
Raab-Graham, K. F., Haddick, P. C. G., Jan, Y. N., & Jan, L. Y. (2006) · Science · doi:10.1126/science.1131693 · Cited by 267
An RNA biosensor for imaging the first round of translation from single cells to living animals
Halstead, J. M., Lionnet, T., Wilbertz, J. H., Wippich, F., Ephrussi, A., Singer, R. H., & Chao, J. A. (2015) · Science · doi:10.1126/science.aaa3380 · Cited by 266
Structural basis for the coevolution of a viral RNA–protein complex
Chao, J. A., Patskovsky, Y., Almo, S. C., & Singer, R. H. (2008) · Nature Structural & Molecular Biology · doi:10.1038/nsmb1327 · Cited by 265
N6-methyladenosine in mRNA disrupts tRNA selection and translation-elongation dynamics
Choi, J., Ieong, K.-W., Demirci, H., Chen, J., Petrov, A., Prabhakar, A., O'Leary, S. E., Dominissini, D., Rechavi, G., Soltis, S. M., et al. (2016) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.3148 · Cited by 258
Quality control by the ribosome following peptide bond formation
Zaher, H. S., & Green, R. (2009) · Nature · doi:10.1038/nature07582 · Cited by 224
On the Relationship of Protein and mRNA Dynamics in Vertebrate Embryonic Development
Peshkin, L., Wühr, M., Pearl, E., Haas, W., Freeman, R. M., Gerhart, J. C., Klein, A. M., Horb, M., Gygi, S. P., & Kirschner, M. W. (2015) · Developmental Cell · doi:10.1016/j.devcel.2015.10.010 · Cited by 219
An Active Role for the Ribosome in Determining the Fate of Oxidized mRNA
Simms, C. L., Hudson, B. H., Mosior, J. W., Rangwala, A. S., & Zaher, H. S. (2014) · Cell Reports · doi:10.1016/j.celrep.2014.10.042 · Cited by 213
The Translational Landscape of the Mammalian Cell Cycle
Stumpf, C. R., Moreno, M. V., Olshen, A. B., Taylor, B. S., & Ruggero, D. (2013) · Molecular Cell · doi:10.1016/j.molcel.2013.09.018 · Cited by 207
Regulation of mRNA translation during mitosis
Tanenbaum, M. E., Stern-Ginossar, N., Weissman, J. S., & Vale, R. D. (2015) · eLife · doi:10.7554/elife.07957 · Cited by 198
Self-citationTanenbaum, M. E., Macurek, L., van der Vaart, B., Galli, M., Akhmanova, A., & Medema, R. H. (2011) · Current Biology · doi:10.1016/j.cub.2011.07.017 · Cited by 148
Self-citationMapping translation 'hot-spots' in live cells by tracking single molecules of mRNA and ribosomes
Katz, Z., English, B. P., Lionnet, T., Yoon, Y. J., Ioannidis, N. M., Ovryn, B., Bathe, M., & Singer, R. H. (2016) · eLife · doi:10.7554/elife.10415 · Cited by 140
Rojas-Durán, M. F., & Gilbert, W. V. (2012) · RNA · doi:10.1261/rna.035865.112 · Cited by 126
Visualization of mRNA translation in living cells
Rodriguez, A. J., Shenoy, S. M., Singer, R. H., & Condeelis, J. S. (2006) · The Journal of Cell Biology · doi:10.1083/jcb.200512137 · Cited by 122
Quantifying Protein-mRNA Interactions in Single Live Cells
Wu, B., Buxbaum, A. R., Katz, Z., Yoon, Y. J., & Singer, R. H. (2015) · Cell · doi:10.1016/j.cell.2015.05.054 · Cited by 97
Gupta, I., Clauder‐Münster, S., Klaus, B., Järvelin, A. I., Aiyar, R. S., Benes, V., Wilkening, S., Huber, W., Pelechano, V., & Steinmetz, L. M. (2014) · Molecular Systems Biology · doi:10.1002/msb.135068 · Cited by 95
Mukherjee, C., Patil, D. P., Kennedy, B. A., Bakthavachalu, B., Bundschuh, R. A., & Schoenberg, D. R. (2012) · Cell Reports · doi:10.1016/j.celrep.2012.07.011 · Cited by 89
Regulating translation of maternal messages: multiple repression mechanisms
Vardy, L. A., & Orr‐Weaver, T. L. (2007) · Trends in Cell Biology · doi:10.1016/j.tcb.2007.09.002 · Cited by 77
mRNA pseudoknot structures can act as ribosomal roadblocks
Tholstrup, J., Oddershede, L. B., & Sørensen, M. A. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkr686 · Cited by 76
Unraveling the dynamics of ribosome translocation
Chen, J., Tsai, A., O’Leary, S. E., Petrov, A. N., & Puglisi, J. D. (2012) · Current Opinion in Structural Biology · doi:10.1016/j.sbi.2012.09.004 · Cited by 69
Single-molecule imaging of translational output from individual RNA granules in neurons
Tatavarty, V., Ifrim, M. F., Levin, M. K., Korza, G., Barbarese, E., Yu, J. H., & Carson, J. H. (2012) · Molecular Biology of the Cell · doi:10.1091/mbc.e11-07-0622 · Cited by 67
Parallel measurement of dynamic changes in translation rates in single cells
Han, K., Jaimovich, A., Dey, G., Ruggero, D., Meyuhas, O., Sonenberg, N., & Meyer, T. (2013) · Nature Methods · doi:10.1038/nmeth.2729 · Cited by 57
Cited by
Codon optimality, bias and usage in translation and mRNA decay
Hanson, G., & Coller, J. (2018) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2017.91 · Cited by 825
The mammalian ribo-interactome reveals ribosome functional diversity and heterogeneity
Simsek, D., Tiu, G. C., Flynn, R. A., Byeon, G. W., Leppek, K., Xu, A. F., Chang, H. Y., & Barna, M. (2017) · Cell · doi:10.1016/j.cell.2017.05.022 · Cited by 439
Visualizing RNA dynamics in live cells with bright and stable fluorescent RNAs
Chen, X., Zhang, D., Su, N., Bao, B., Xie, X., Zuo, F., Yang, L., Wang, H., Jiang, L., Lin, Q., et al. (2019) · Nature Biotechnology · doi:10.1038/s41587-019-0249-1 · Cited by 394
Intracellular mRNA transport and localized translation
Das, S., Vera, M., Gandin, V., Singer, R. H., & Tutucci, E. (2021) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-021-00356-8 · Cited by 382
Tailoring mRNA Vaccine to Balance Innate/Adaptive Immune Response
Linares-Fernández, S., Lacroix, C., Exposito, J.-Y., & Verrier, B. (2020) · Trends in Molecular Medicine · doi:10.1016/j.molmed.2019.10.002 · Cited by 376
Metadata
- Authors
- Yan, X., Hoek, T. A., Vale, R. D., & Tanenbaum, M. E.
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2016-05
- Volume
- 165
- Issue
- 4
- Pages
- 976-989
- ISSN
- 0092-8674 (ISSN-L)
- OpenAlex
- W2346811503
- Cited by
- 490
- References
- 48
- FWCI
- 24.53
- Type
- journal article
- Language
- en
- Open access
- hybrid
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
