Optogenetic Regulation of Tunable Gene Expression in Yeast Using Photo-Labile Caged Methionine

ACS Chemical Biology

Volumn 11, Issue 10, 2016, Pages 2915-2922

  Kusen, Peter M ^a   Wandrey, Georg ^b   Probst, Christopher ^c   Grünberger, Alexander ^c   Holz, Martina ^a   Meyer Zu Berstenhorst, Sonja ^a   Kohlheyer, Dietrich ^c   Büchs, Jochen ^b   Pietruszka, Jörg ^a,c  

^a HEINRICH HEINE UNIVERSITY   (Germany)

^b RWTH AACHEN UNIVERSITY   (Germany)

^c FORSCHUNGSZENTRUM JÜLICH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

METHIONINE; PHOTOLABILE CAGED METHIONINE; UNCLASSIFIED DRUG;

ARTICLE; AUTOMATION; FLUORESCENCE MICROSCOPY; GENE EXPRESSION REGULATION; GENE REPRESSION; MICROFLUIDICS; NONHUMAN; ONLINE MONITORING; OPTOGENETICS; PRIORITY JOURNAL; PROMOTER REGION; SACCHAROMYCES CEREVISIAE; TIME LAPSE IMAGING; ULTRAVIOLET A RADIATION; FLUORESCENCE; FUNGAL GENE; GENETICS; METABOLISM; ULTRAVIOLET RADIATION;

FLUORESCENCE; GENE EXPRESSION REGULATION, ENZYMOLOGIC; GENES, FUNGAL; METHIONINE; MICROFLUIDICS; OPTOGENETICS; PROMOTER REGIONS, GENETIC; SACCHAROMYCES CEREVISIAE; ULTRAVIOLET RAYS;

EID: 84992176718     PISSN: 15548929     EISSN: 15548937     Source Type: Journal    
DOI: 10.1021/acschembio.6b00462     Document Type: Article

References (45)

1. Drepper, T., Krauss, U., Meyer zu Berstenhorst, S., Pietruszka, J., and Jaeger, K.-E. (2011) Lights on and action! Controlling microbial gene expression by light Appl. Microbiol. Biotechnol. 90, 23-40 10.1007/s00253-011-3141-6
2. Motta-Mena, L. B., Reade, A., Mallory, M. J., Glantz, S., Weiner, O. D., Lynch, K. W., and Gardner, K. H. (2014) An optogenetic gene expression system with rapid activation and deactivation kinetics Nat. Chem. Biol. 10, 196-202 10.1038/nchembio.1430
3. Fournier, L., Gauron, C., Xu, L., Aujard, I., Le Saux, T., Gagey-Eilstein, N., Maurin, S., Dubruille, S., Baudin, J.-B., Bensimon, D., Volovitch, M., Vriz, S., and Jullien, L. (2013) A Blue-Absorbing Photolabile Protecting Group for in Vivo Chromatically Orthogonal Photoactivation ACS Chem. Biol. 8, 1528-1536 10.1021/cb400178m
4. Mayer, G. and Heckel, A. (2006) Biologically Active Molecules with a "Light Switch" Angew. Chem., Int. Ed. 45, 4900-4921 10.1002/anie.200600387
5. Brieke, C., Rohrbach, F., Gottschalk, A., Mayer, G., and Heckel, A. (2012) Light-Controlled Tools Angew. Chem., Int. Ed. 51, 8446-8476 10.1002/anie.201202134
6. Young, D. D. and Deiters, A. (2007) Photochemical control of biological processes Org. Biomol. Chem. 5, 999-1005 10.1039/B616410M
7. Ellis-Davies, G. C. R. (2007) Caged compounds: photorelease technology for control of cellular chemistry and physiology Nat. Methods 4, 619-628 10.1038/nmeth1072
8. Cambridge, S. B., Geissler, D., Keller, S., and Cürten, B. (2006) A Caged Doxycycline Analogue for Photoactivated Gene Expression Angew. Chem., Int. Ed. 45, 2229-2231 10.1002/anie.200503339
9. Hayashi, K., Hashimoto, K., Kusaka, N., Yamazoe, A., Fukaki, H., Tasaka, M., and Nozaki, H. (2006) Caged gene-inducer spatially and temporally controls gene expression and plant development in transgenic Arabidopsis plant Bioorg. Med. Chem. Lett. 16, 2470-2474 10.1016/j.bmcl.2006.01.103
10. Tsien, R. Y. and Zucker, R. S. (1986) Control of cytoplasmic calcium with photolabile tetracarboxylate 2-nitrobenzhydrol chelators Biophys. J. 50, 843-853 10.1016/S0006-3495(86)83525-1
11. Adams, S. R. and Tsien, R. Y. (1993) Controlling Cell Chemistry with Caged Compounds Annu. Rev. Physiol. 55, 755-784 10.1146/annurev.ph.55.030193.003543
12. Lin, W., Albanese, C., Pestell, R. G., and Lawrence, D. S. (2002) Spatially Discrete, Light-Driven Protein Expression Chem. Biol. 9, 1347-1353 10.1016/S1074-5521(02)00288-0
13. Cruz, F. G., Koh, J. T., and Link, K. H. (2000) Light-Activated Gene Expression J. Am. Chem. Soc. 122, 8777-8778 10.1021/ja001804h
14. Fracassi, C., Postiglione, L., Fiore, G., and di Bernardo, D. (2015) Automatic control of gene expression in mammalian cells ACS Synth. Biol. 5, 296 10.1021/acssynbio.5b00141
15. Wandrey, G., Bier, C., Binder, D., Hoffmann, K., Jaeger, K.-E., Pietruszka, J., Drepper, T., and Büchs, J. (2016) Light-induced gene expression with photocaged IPTG for induction profiling in a high-throughput screening system Microb. Cell Fact. 15, 63 10.1186/s12934-016-0461-3
16. Shimizu-Sato, S., Huq, E., Tepperman, J. M., and Quail, P. H. (2002) A light-switchable gene promoter system Nat. Biotechnol. 20, 1041-1044 10.1038/nbt734
17. Lee, H., Larson, D. R., and Lawrence, D. S. (2009) Illuminating the Chemistry of Life: Design, Synthesis, and Applications of "Caged" and Related Photoresponsive Compounds ACS Chem. Biol. 4, 409-427 10.1021/cb900036s
18. Shi, Y. and Koh, J. T. (2004) Light-Activated Transcription and Repression by Using Photocaged SERMs ChemBioChem 5, 788-796 10.1002/cbic.200300823
19. Sorokina, O., Kapus, A., Terecskei, K., Dixon, L. E., Kozma-Bognar, L., Nagy, F., and Millar, A. J. (2009) A switchable light-input, light-output system modelled and constructed in yeast J. Biol. Eng. 3, 15 10.1186/1754-1611-3-15
20. Yazawa, M., Sadaghiani, A. M., Hsueh, B., and Dolmetsch, R. E. (2009) Induction of protein-protein interactions in live cells using light Nat. Biotechnol. 27, 941-945 10.1038/nbt.1569
21. Kennedy, M. J., Hughes, R. M., Peteya, L. A., Schwartz, J. W., Ehlers, M. D., and Tucker, C. L. (2010) Rapid blue-light-mediated induction of protein interactions in living cells Nat. Methods 7, 973-975 10.1038/nmeth.1524
22. Melendez, J., Patel, M., Oakes, B. L., Xu, P., Morton, P., and McClean, M. N. (2014) Real-time optogenetic control of intracellular protein concentration in microbial cell cultures Integr. Biol. 6, 366-372 10.1039/c3ib40102b
23. Levskaya, A., Weiner, O. D., Lim, W. A., and Voigt, C. A. (2009) Spatiotemporal control of cell signalling using a light-switchable protein interaction Nature 461, 997-1001 10.1038/nature08446
24. Tabor, J. J., Levskaya, A., and Voigt, C. A. (2011) Multichromatic Control of Gene Expression in Escherichia coli J. Mol. Biol. 405, 315-324 10.1016/j.jmb.2010.10.038
25. Ohlendorf, R., Vidavski, R. R., Eldar, A., Moffat, K., and Möglich, A. (2012) From Dusk till Dawn: One-Plasmid Systems for Light-Regulated Gene Expression J. Mol. Biol. 416, 534-542 10.1016/j.jmb.2012.01.001
26. Kaplan, J. H., Forbush, B., and Hoffman, J. F. (1978) Rapid photolytic release of adenosine 5′-triphosphate from a protected analog: utilization by the sodium:potassium pump of human red blood cell ghosts Biochemistry 17, 1929-1935 10.1021/bi00603a020
27. Binder, D., Bier, C., Grünberger, A., Drobietz, D., Hage-Hülsmann, J., Wandrey, G., Büchs, J., Kohlheyer, D., Loeschcke, A., Wiechert, W., Jaeger, K.-E., Pietruszka, J., and Drepper, T. (2016) Photocaged Arabinose: A Novel Optogenetic Switch for Rapid and Gradual Control of Microbial Gene Expression ChemBioChem 17, 296-299 10.1002/cbic.201500609
28. Binder, D., Grünberger, A., Loeschcke, A., Probst, C., Bier, C., Pietruszka, J., Wiechert, W., Kohlheyer, D., Jaeger, K.-E., and Drepper, T. (2014) Light-responsive control of bacterial gene expression: precise triggering of the lac promoter activity using photocaged IPTG Integr. Biol. 6, 755-765 10.1039/C4IB00027G
29. Young, D. D. and Deiters, A. (2007) Photochemical Activation of Protein Expression in Bacterial Cells Angew. Chem., Int. Ed. 46, 4290-4292 10.1002/anie.200700057
30. Milias-Argeitis, A., Summers, S., Stewart-Ornstein, J., Zuleta, I., Pincus, D., El-Samad, H., Khammash, M., and Lygeros, J. (2011) In silico feedback for in vivo regulation of a gene expression circuit Nat. Biotechnol. 29, 1114-1116 10.1038/nbt.2018
31. San Miguel, V., Bochet, C. G., and del Campo, A. (2011) Wavelength-Selective Caged Surfaces: How Many Functional Levels Are Possible? J. Am. Chem. Soc. 133, 5380-5388 10.1021/ja110572j
32. Priestman, M. A., Sun, L., and Lawrence, D. S. (2011) Dual Wavelength Photoactivation of cAMP- and cGMP-Dependent Protein Kinase Signaling Pathways ACS Chem. Biol. 6, 377-384 10.1021/cb100398e
33. Klán, P., Šolomek, T., Bochet, C. G., Blanc, A., Givens, R., Rubina, M., Popik, V., Kostikov, A., and Wirz, J. (2013) Photoremovable Protecting Groups in Chemistry and Biology: Reaction Mechanisms and Efficacy Chem. Rev. 113, 119-191 10.1021/cr300177k
34. Solow, S. P., Sengbusch, J., and Laird, M. W. (2005) Heterologous protein production from the inducible MET25 promoter in Saccharomyces cerevisiae Biotechnol. Prog. 21, 617-620 10.1021/bp049916q
35. Shin, D.-S. and Lee, Y.-S. (2009) Synthesis of Pentafluorophenyl Esters of Nitroveratryloxycarbonyl-Protected Amino Acids Synlett 2009, 3307-3310 10.1055/s-0029-1218369
36. Chen, S., Fahmi, N. E., Nangreave, R. C., Mehellou, Y., and Hecht, S. M. (2012) Synthesis of pdCpAs and transfer RNAs activated with thiothreonine and derivatives. Bioorg Bioorg. Med. Chem. 20, 2679-2689 10.1016/j.bmc.2012.02.024
37. Amit, B., Zehavi, U., and Patchornik, A. (1974) Photosensitive Protecting Groups-A Review Isr. J. Chem. 12, 103-113 10.1002/ijch.197400011
38. Schupp, H., Wong, W. K., and Schnabel, W. (1987) Mechanistic studies of the photorearrangement of o-nitrobenzyl esters J. Photochem. 36, 85-97 10.1016/0047-2670(87)87064-8
39. Il'ichev, Y. V., Schwörer, M. A., and Wirz, J. (2004) Photochemical Reaction Mechanisms of 2-Nitrobenzyl Compounds: Methyl Ethers and Caged ATP J. Am. Chem. Soc. 126, 4581-4595 10.1021/ja039071z
40. Grünberger, A., Probst, C., Helfrich, S., Nanda, A., Stute, B., Wiechert, W., von Lieres, E., Nöh, K., Frunzke, J., and Kohlheyer, D. (2015) Spatiotemporal microbial single-cell analysis using a high-throughput microfluidics cultivation platform Cytometry, Part A 87, 1101-1115 10.1002/cyto.a.22779
41. Raser, J. M. and O'Shea, E. K. (2004) Control of Stochasticity in Eukaryotic Gene Expression Science 304, 1811-1814 10.1126/science.1098641
42. Avery, S. V. (2006) Microbial cell individuality and the underlying sources of heterogeneity Nat. Rev. Microbiol. 4, 577-587 10.1038/nrmicro1460
43. Levy, S. F., Ziv, N., and Siegal, M. L. (2012) Bet Hedging in Yeast by Heterogeneous, Age-Correlated Expression of a Stress Protectant PLoS Biol. 10, e1001325 10.1371/journal.pbio.1001325
44. Gordon, A., Colman-Lerner, A., Chin, T. E., Benjamin, K. R., Yu, R. C., and Brent, R. (2007) Single-cell quantification of molecules and rates using open-source microscope-based cytometry Nat. Methods 4, 175-181 10.1038/nmeth1008
45. Feil, R., Brocard, J., Mascrez, B., LeMeur, M., Metzger, D., and Chambon, P. (1996) Ligand-activated site-specific recombination in mice Proc. Natl. Acad. Sci. U. S. A. 93, 10887-10890 10.1073/pnas.93.20.10887