Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

  • News & Views
  • Published:

Catch me if you can: trapping scanning ribosomes in their footsteps

Subjects

Ribosome profiling provides a snapshot of the mRNA positions of all elongating ribosomes in the cell. A new powerful enhancement of the technique, translation complex profile sequencing (TCP–seq), extends this mapping to scanning ribosomal complexes. In addition to its usefulness as a tool for studying the regulation of translation initiation, TCP–seq provides specific and powerful signatures of bona fide translation.

This is a preview of subscription content, access via your institution

Access options

Buy this article

Prices may be subject to local taxes which are calculated during checkout

Figure 1: Footprints of translation revealed by TCP–seq.

References

  1. Kozak, M. Cell 15, 1109–1123 (1978).

    Article  CAS  Google Scholar 

  2. Archer, S.K., Shirokikh, N.E., Beilharz, T.H. & Preiss, T. Nature http://dx.doi.org/10.1038/nature18647 (2016).

  3. Ingolia, N.T., Ghaemmaghami, S., Newman, J.R. & Weissman, J.S. Science 324, 218–223 (2009).

    Article  CAS  Google Scholar 

  4. Llácer, J.L. et al. Mol. Cell 59, 399–412 (2015).

    Article  Google Scholar 

  5. Luna, R.E. et al. Cell Rep. 1, 689–702 (2012).

    Article  CAS  Google Scholar 

  6. Lomakin, I.B. & Steitz, T.A. Nature 500, 307–311 (2013).

    Article  CAS  Google Scholar 

  7. Fernández, I.S. et al. Science 342, 1240585 (2013).

    Article  Google Scholar 

  8. Yamamoto, H. et al. Nat. Struct. Mol. Biol. 21, 721–727 (2014).

    Article  CAS  Google Scholar 

  9. Lareau, L.F., Hite, D.H., Hogan, G.J. & Brown, P.O. eLife 3, e01257 (2014).

    Article  Google Scholar 

  10. Ingolia, N.T., Lareau, L.F. & Weissman, J.S. Cell 147, 789–802 (2011).

    Article  CAS  Google Scholar 

  11. Chew, G.L. et al. Development 140, 2828–2834 (2013).

    Article  CAS  Google Scholar 

  12. Guttman, M., Russell, P., Ingolia, N.T., Weissman, J.S. & Lander, E.S. Cell 154, 240–251 (2013).

    Article  CAS  Google Scholar 

  13. Ingolia, N.T. et al. Cell Rep. 8, 1365–1379 (2014).

    Article  CAS  Google Scholar 

  14. Gao, X. et al. Nat. Methods 12, 147–153 (2015).

    Article  CAS  Google Scholar 

  15. Fritsch, C. et al. Genome Res. 22, 2208–2218 (2012).

    Article  CAS  Google Scholar 

  16. Michel, A.M., Andreev, D.E. & Baranov, P.V. BMC Bioinformatics 15, 380 (2014).

    Article  Google Scholar 

  17. Gerashchenko, M.V. & Gladyshev, V.N. Nucleic Acids Res. 42, e134 (2014).

    Article  Google Scholar 

  18. Hussmann, J.A., Patchett, S., Johnson, A., Sawyer, S. & Press, W.H. PLoS Genet. 11, e1005732 (2015).

    Article  Google Scholar 

  19. Raj, A. et al. eLife 5, e13328 (2016).

    Article  Google Scholar 

  20. Fields, A.P. et al. Mol. Cell 60, 816–827 (2015).

    Article  CAS  Google Scholar 

  21. Duncan, C.D. & Mata, J. Nat. Struct. Mol. Biol. 21, 641–647 (2014).

    Article  CAS  Google Scholar 

  22. Bazzini, A.A. et al. EMBO J. 33, 981–993 (2014).

    Article  CAS  Google Scholar 

  23. Aspden, J.L. et al. eLife 3, e03528 (2014).

    Article  Google Scholar 

  24. Andreev, D.E. et al. Genome Biol. 16, 90 (2015).

    Article  Google Scholar 

  25. Andreev, D.E. et al. eLife 4, e03971 (2015).

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Pavel V Baranov.

Ethics declarations

Competing interests

The authors declare no competing financial interests.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Baranov, P., Loughran, G. Catch me if you can: trapping scanning ribosomes in their footsteps. Nat Struct Mol Biol 23, 703–704 (2016). https://doi.org/10.1038/nsmb.3256

Download citation

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1038/nsmb.3256

This article is cited by

Search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing