Advances in Fluorescence Labeling Strategies for Dynamic Cellular Imaging

Overview

Journal Nat Chem Biol

Specialties Biochemistry
Biology
Chemistry

Date 2014 Jun 18

PMID 24937069

Citations 136

Authors

Kevin M Dean

Amy E Palmer

Affiliations

Soon will be listed here.

Abstract

Synergistic advances in optical physics, probe design, molecular biology, labeling techniques and computational analysis have propelled fluorescence imaging into new realms of spatiotemporal resolution and sensitivity. This review aims to discuss advances in fluorescent probes and live-cell labeling strategies, two areas that remain pivotal for future advances in imaging technology. Fluorescent protein- and bio-orthogonal-based methods for protein and RNA imaging are discussed as well as emerging bioengineering techniques that enable their expression at specific genomic loci (for example, CRISPR and TALENs). Important attributes that contribute to the success of each technique are emphasized, providing a guideline for future advances in dynamic live-cell imaging.

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References

Saar B, Freudiger C, Reichman J, Stanley C, Holtom G, Xie X . Video-rate molecular imaging in vivo with stimulated Raman scattering. Science. 2010; 330(6009):1368-70. PMC: 3462359. DOI: 10.1126/science.1197236. View

Mali P, Esvelt K, Church G . Cas9 as a versatile tool for engineering biology. Nat Methods. 2013; 10(10):957-63. PMC: 4051438. DOI: 10.1038/nmeth.2649. View

Piatkevich K, Subach F, Verkhusha V . Far-red light photoactivatable near-infrared fluorescent proteins engineered from a bacterial phytochrome. Nat Commun. 2013; 4:2153. PMC: 3749836. DOI: 10.1038/ncomms3153. View

Adam V, Carpentier P, Violot S, Lelimousin M, Darnault C, Nienhaus G . Structural basis of X-ray-induced transient photobleaching in a photoactivatable green fluorescent protein. J Am Chem Soc. 2009; 131(50):18063-5. DOI: 10.1021/ja907296v. View

Shaner N, Lin M, McKeown M, Steinbach P, Hazelwood K, Davidson M . Improving the photostability of bright monomeric orange and red fluorescent proteins. Nat Methods. 2008; 5(6):545-51. PMC: 2853173. DOI: 10.1038/nmeth.1209. View

Boch J, Scholze H, Schornack S, Landgraf A, Hahn S, Kay S . Breaking the code of DNA binding specificity of TAL-type III effectors. Science. 2009; 326(5959):1509-12. DOI: 10.1126/science.1178811. View

Mamin H, Kim M, Sherwood M, Rettner C, Ohno K, Awschalom D . Nanoscale nuclear magnetic resonance with a nitrogen-vacancy spin sensor. Science. 2013; 339(6119):557-60. DOI: 10.1126/science.1231540. View

Livet J, Weissman T, Kang H, Draft R, Lu J, Bennis R . Transgenic strategies for combinatorial expression of fluorescent proteins in the nervous system. Nature. 2007; 450(7166):56-62. DOI: 10.1038/nature06293. View

Prifti E, Reymond L, Umebayashi M, Hovius R, Riezman H, Johnsson K . A fluorogenic probe for SNAP-tagged plasma membrane proteins based on the solvatochromic molecule Nile Red. ACS Chem Biol. 2014; 9(3):606-12. DOI: 10.1021/cb400819c. View

10.

Hao N, Budnik B, Gunawardena J, OShea E . Tunable signal processing through modular control of transcription factor translocation. Science. 2013; 339(6118):460-4. PMC: 3746486. DOI: 10.1126/science.1227299. View

11.

Dean K, Lubbeck J, Binder J, Schwall L, Jimenez R, Palmer A . Analysis of red-fluorescent proteins provides insight into dark-state conversion and photodegradation. Biophys J. 2011; 101(4):961-9. PMC: 3175071. DOI: 10.1016/j.bpj.2011.06.055. View

12.

Liu D, Phipps W, Loh K, Howarth M, Ting A . Quantum dot targeting with lipoic acid ligase and HaloTag for single-molecule imaging on living cells. ACS Nano. 2012; 6(12):11080-7. PMC: 3528850. DOI: 10.1021/nn304793z. View

13.

Subach F, Malashkevich V, Zencheck W, Xiao H, Filonov G, Almo S . Photoactivation mechanism of PAmCherry based on crystal structures of the protein in the dark and fluorescent states. Proc Natl Acad Sci U S A. 2009; 106(50):21097-102. PMC: 2795494. DOI: 10.1073/pnas.0909204106. View

14.

Fatica A, Bozzoni I . Long non-coding RNAs: new players in cell differentiation and development. Nat Rev Genet. 2013; 15(1):7-21. DOI: 10.1038/nrg3606. View

15.

Lukinavicius G, Umezawa K, Olivier N, Honigmann A, Yang G, Plass T . A near-infrared fluorophore for live-cell super-resolution microscopy of cellular proteins. Nat Chem. 2013; 5(2):132-9. DOI: 10.1038/nchem.1546. View

16.

Shu X, Royant A, Lin M, Aguilera T, Lev-Ram V, Steinbach P . Mammalian expression of infrared fluorescent proteins engineered from a bacterial phytochrome. Science. 2009; 324(5928):804-7. PMC: 2763207. DOI: 10.1126/science.1168683. View

17.

Tyagi S, Kramer F . Molecular beacons: probes that fluoresce upon hybridization. Nat Biotechnol. 1996; 14(3):303-8. DOI: 10.1038/nbt0396-303. View

18.

Stennett E, Ciuba M, Levitus M . Photophysical processes in single molecule organic fluorescent probes. Chem Soc Rev. 2013; 43(4):1057-75. DOI: 10.1039/c3cs60211g. View

19.

Vogelsang J, Kasper R, Steinhauer C, Person B, Heilemann M, Sauer M . A reducing and oxidizing system minimizes photobleaching and blinking of fluorescent dyes. Angew Chem Int Ed Engl. 2008; 47(29):5465-9. DOI: 10.1002/anie.200801518. View

20.

Sunbul M, Jaschke A . Contact-mediated quenching for RNA imaging in bacteria with a fluorophore-binding aptamer. Angew Chem Int Ed Engl. 2013; 52(50):13401-4. DOI: 10.1002/anie.201306622. View