Paper Roundup – September 2014

  • A simple Airy beam light sheet microscope based on a tilted cylindrical lens. [1]
  • Simple illumination for phase contrast microscopy based on a ring of LEDs. [2]
  • A protocol for constructing a TIRF microscope that uses micromirrors placed under the objective for positioning the TIRF bea.m [3]
  • Use of small molecule dye binding tags (CLIP, SNAP, etc.) for rapid labeling (30 min) of whole mount Drosophila brains and mouse brain sections. [4]
  • An optimized Dronpa variant for two-color PALM imaging with PAmCherry1. [5]
  • A set of new red-shifted fluorescent proteins for detection under 633 nm excitation; however they are not that bright. [6]
  • An interesting paper studying the effect of weak dimerization between fluorescent proteins on the dynamic range of FRET probes [7]
  • A photoswitchable long Stokes shift protein. It is initially excited at 445 nm and emits at 621 nm; photoswitching converts it to a red form that is excited at 573 nm and emits at 621 nm. It is not very bright, but is sufficiently different from existing photoswitchable FPs that it may be of interest. [8]
  • A structure of the fluorescent RNA tag, Spinach, along with a smaller version, Baby Spinach [9]
  • Another paper on imaging in the IR with carbon nanotubes [10]
  • The Histochemical Society’s standards of practice for vaildating immunohistochemical data [11]

References

  1. Z. Yang, M. Prokopas, J. Nylk, C. Coll-Lladó, F.J. Gunn-Moore, D.E.K. Ferrier, T. Vettenburg, and K. Dholakia, "A compact Airy beam light sheet microscope with a tilted cylindrical lens", Biomedical Optics Express, vol. 5, pp. 3434, 2014. http://dx.doi.org/10.1364/BOE.5.003434
  2. K.F. WEBB, "Condenser-free contrast methods for transmitted-light microscopy", Journal of Microscopy, vol. 257, pp. 8-22, 2014. http://dx.doi.org/10.1111/jmi.12181
  3. J. Larson, M. Kirk, E.A. Drier, W. O'Brien, J.F. MacKay, L.J. Friedman, and A.A. Hoskins, "Design and construction of a multiwavelength, micromirror total internal reflectance fluorescence microscope", Nature Protocols, vol. 9, pp. 2317-2328, 2014. http://dx.doi.org/10.1038/nprot.2014.155
  4. J. Kohl, J. Ng, S. Cachero, E. Ciabatti, M. Dolan, B. Sutcliffe, A. Tozer, S. Ruehle, D. Krueger, S. Frechter, T. Branco, M. Tripodi, and G.S.X.E. Jefferis, "Ultrafast tissue staining with chemical tags", Proceedings of the National Academy of Sciences, vol. 111, pp. E3805-E3814, 2014. http://dx.doi.org/10.1073/pnas.1411087111
  5. A.B. Rosenbloom, S. Lee, M. To, A. Lee, J.Y. Shin, and C. Bustamante, "Optimized two-color super resolution imaging of Drp1 during mitochondrial fission with a slow-switching Dronpa variant", Proceedings of the National Academy of Sciences, vol. 111, pp. 13093-13098, 2014. http://dx.doi.org/10.1073/pnas.1320044111
  6. U. Schoetz, N.C. Deliolanis, D. Ng, J. Pauli, U. Resch-Genger, E. Kühn, S. Heuer, W. Beisker, R.W. Köster, H. Zitzelsberger, and R.B. Caldwell, "Usefulness of a Darwinian System in a Biotechnological Application: Evolution of Optical Window Fluorescent Protein Variants under Selective Pressure", PLoS ONE, vol. 9, pp. e107069, 2014. http://dx.doi.org/10.1371/journal.pone.0107069
  7. L.H. Lindenburg, M. Malisauskas, T. Sips, L. van Oppen, S.P.W. Wijnands, S.F.J. van de Graaf, and M. Merkx, "Quantifying Stickiness: Thermodynamic Characterization of Intramolecular Domain Interactions To Guide the Design of Förster Resonance Energy Transfer Sensors", Biochemistry, vol. 53, pp. 6370-6381, 2014. http://dx.doi.org/10.1021/bi500433j
  8. K. Piatkevich, B. English, V. Malashkevich, H. Xiao, S. Almo, R. Singer, and V. Verkhusha, "Photoswitchable Red Fluorescent Protein with a Large Stokes Shift", Chemistry & Biology, vol. 21, pp. 1402-1414, 2014. http://dx.doi.org/10.1016/j.chembiol.2014.08.010
  9. K.D. Warner, M.C. Chen, W. Song, R.L. Strack, A. Thorn, S.R. Jaffrey, and A.R. Ferré-D'Amaré, "Structural basis for activity of highly efficient RNA mimics of green fluorescent protein", Nature Structural & Molecular Biology, vol. 21, pp. 658-663, 2014. http://dx.doi.org/10.1038/nsmb.2865
  10. D. Ghosh, A.F. Bagley, Y.J. Na, M.J. Birrer, S.N. Bhatia, and A.M. Belcher, "Deep, noninvasive imaging and surgical guidance of submillimeter tumors using targeted M13-stabilized single-walled carbon nanotubes", Proceedings of the National Academy of Sciences, vol. 111, pp. 13948-13953, 2014. http://dx.doi.org/10.1073/pnas.1400821111
  11. S.M. Hewitt, D.G. Baskin, C.W. Frevert, W.L. Stahl, and E. Rosa-Molinar, "Controls for Immunohistochemistry", Journal of Histochemistry & Cytochemistry, vol. 62, pp. 693-697, 2014. http://dx.doi.org/10.1369/0022155414545224