[1] Liu Q, Deiters A. Optochemical control of deoxyoligonucleotide function via a nucleobase-caging approach[J]. Accounts of Chemical Research, 2013, 47(1): 45-55.
[2] Brieke C, Rohrbach F, Mayer G, Heckel A. Light-controlled tools[J]. Angewandte Chemie International Edition, 2012, 51(34): 8446-8476.
[3] Szymański W, Beierle J M, Kistemaker H A, Mayer G, Heckel A. Reversible photocontrol of biological systems by the incorporation of molecular photoswitches[J]. Chemical Reviews, 2013, 113(8): 6114-6178.
[4] Kaplan J H, Forbush B, Hoffman J F.Rapid photolytic release of adenosine 5'-triphosphate from a protected analogue: utilization by the Na: K pump of human red blood cell ghosts[J]. Biochemistry, 1978, 17(10): 1929-1935.
[5] Tang X. Photochemical biology of caged nucleic acids[J]. Photochemistry, 2013, 41: 319-341.
[6] Klán P, Šolomek T, Bochet C G, Blanc A, Givens R, Rubina M, Popik V, Kostikov A, Wirz J. Photoremovable protecting groups in chemistry and biology: reaction mechanisms and efficacy[J]. Chemical Reviews, 2013, 113(1): 119-191.
[7] Szymański W, Beierle J M, Kistemaker H A,Velema W A, Feringa B L. Reversible photocontrol of biological systems by the incorporation of molecular photoswitches[J]. Chemical Reviews, 2013, 113(8): 6114-6178.
[8] Tang X, Zhang J, Sun J, Wang Y, Wu J, Zhang L. Caged nucleotides/nucleosides and their photochemical biology[J]. Organic & Biomolecular Chemistry, 2013, 11(45): 7814-7824.
[9] Vale R D. The molecular motor toolbox for intracellular transport[J]. Cell, 2003, 112(4): 467-480.
[10] Shingyoji C, Nakano I, Inoue Y, Higuchi H. Dynein arms are strain-dependent direction-switching force generators[J]. Cytoskeleton, 2015, 72(8): 388-401.
[11] Maruta T, Kobatake T, Okubo H,Chaen S. Single turnovers of fluorescent ATP bound to bipolar myosin filament during actin filaments sliding[J]. Biophysics, 2013, 9: 13-20.
[12] Damnjanovic B, Apell H J. Role of protons in the pump cycle of KdpFABC investigated by time-resolved kinetic experiments[J]. Biochemistry, 2014, 53(19): 3218-3228.
[13] Sekiguchi H, Nakagawa A, Moriya K,Makabe K, Ichiyanagi K,Nozawa S, Sato T, Adchi S, Kuwajima K, Yohda M, Sasaki Y C. ATP dependent rotational motion of group Ⅱ chaperonin observed by X-ray single molecule tracking[J]. Plos One, 2013, 8(5): e64176.
[14] Artamonov M V, Momotani K, Stevenson A,Trentham D R, Derewenda U, Derewenda U, Derewenda Z S, Read P W, Gutkind J S. Agonist-induced Ca2+, sensitization in smooth muscle[J]. Journal of Biological Chemistry, 2013, 288: 34030-34040.
[15] Bönigk W, Loogen A, Seifert R. An atypical CNG channel activated by a single cGMP molecule controls sperm chemotaxis[J]. Science Signaling, 2009, 2(94): ra68.
[16] Kashikar N D, Alvarez L, Seifert R,Gregor I, Jackie O, Beyermann M, Krause E, Kaupp U B. Temporal sampling, resetting, and adaptation orchestrate gradient sensing in sperm[J]. Journal of Cell Biology, 2012, 198(6): 1075-1091.
[17] Boccaccio A, Menini A. Temporal development of cyclic nucleotide-gated and Ca2+ -activated Cl- currents in isolated mouse olfactory sensory neurons[J]. Journal of Neurophysiology, 2007, 98(1): 153-160.
[18] Ponsioen B, Gloerich M, Ritsma L,Rehmann H, Bos J L, Jalink K. Direct spatial control of epac1 by cyclic AMP[J]. Molecular & Cellular Biology, 2009, 29(10): 2521-2531.
[19] Saegusa Y, Yoshimura K. cAMP controls the balance of the propulsive forces generated by the two flagella of chlamydomonas[J]. Cytoskeleton, 2015, 72(8): 412-421.
[20] Olson J P, Banghart M R, Sabatini B L, Ellis-Davies G C. Spectral evolution of a photochemical protecting group for orthogonal two-color uncaging with visible light[J]. Journal of the American Chemical Society, 2013, 135(42): 15948-15954.
[21] Goodwin S, Mcpherson J D, Mccombie W R. Coming of age: ten years of next-generation sequencing technologies[J]. Nature Reviews Genetics, 2016, 17(6): 333-351.
[22] Wu J, Zhang S, Meng Q, Cao H, Li Z, Li X, Shi S, Kim D H, Bi L, Turro N J, Ju J. 3'-O-modified nucleotides as reversible terminators for pyrosequencing[J]. Proceedings of the National Academy of Sciences, 2007, 104(42): 16462-16467.
[23] Wu W,Stupi B P, Litosh V A, Mansouri D, Farley D, Morris S, Metzker S, Metzker M L. Termination of DNA synthesis by N6 -alkylated, not 3'-O-alkylated, photocleavable 2'-deoxyadenosine triphosphates[J]. Nucleic Acids Research, 2007, 35(19): 6339-6349.
[24] Litosh V A, Wu W, Stupi B P, et al. Improved nucleotide selectivity and termination of 3'-OH unblocked reversible terminators by molecular tuning of 2-nitrobenzyl alkylated HOMedU triphosphates[J]. Nucleic Acids Research, 2011, 39(6): e39.
[25] Stupi B P, Li H, Wang J, Wu W, Morris S E, Litosh V A, Muniz J, Hersh M N, Metzker M L. Stereochemistry of benzylic carbon substitution coupled with ring modification of 2-nitrobenzyl groups as key determinants for fast-cleaving reversible terminators[J]. Angewandte Chemie International Edition, 2012, 51(7): 1724-1727.
[26] Gardner A F, Wang J, Wu W,Karouby J, Li H, Stupi B P, Jack W E, Hersh M N, Metzker M L. Rapid incorporation kinetics and improved fidelity of a novel class of 3'-OH unblocked reversible terminators[J]. Nucleic Acids Research, 2012, 40(15): 7404-7415.
[27] Ghosn B, Haselton F R, Gee K R, Monroe W T. Control of DNA hybridization with photocleavable adducts[J]. Photochemistry & Photobiology, 2009, 81(4): 953-959.
[28] Young D D, Lusic H, Lively M O, Yoder J A, Deiters A. Gene silencing in mammalian cells with light-activated antisense agents[J]. Chembiochem, 2008, 9(18): 2937-2940.
[29] Deiters A, Garner R A, Lusic H,Govan J M, Dush M, Nascone-Yoder N M, Yoder J A. Photocagedmorpholino oligomers for the light-regulation of gene function in zebrafish and, xenopus embryos[J]. Journal of the American Chemical Society, 2010, 132(44): 15644-15650.
[30] Connelly C M, Uprety R, Hemphill J, Deiters A. Spatiotemporal control of microRNA function using light-activated antagomirs[J]. Molecular Biosystems, 2012, 8(11): 2987-2993.
[31] Tang X, Swaminathan J, Gewirtz A M, Dmochowski I J. Regulating gene expression in human leukemia cells using light-activated oligodeoxynucleotides[J]. Nucleic Acids Research, 2008, 36(2): 559-569.
[32] Tang X, Maegawa S, Weinberg E S, Dmochowski I J. Regulating gene expression in zebrafish embryos using light-activated, negatively charged peptide nucleic acids[J]. Journal of the American Chemical Society, 2007, 129(36): 11000-11001.
[33] Shestopalov I A, Sinha S, Chen J K. Light-controlled gene silencing in zebrafish embryos[J]. Nature Chemical Biology, 2007, 3(10): 650-651.
[34] Ouyang X, Shestopalov I A, Sinha S, Zheng G, Pitt C L, Li W H, Olson A J, Chen J K. Versatile synthesis and rational design of caged morpholinos[J]. Journal of the American Chemical Society, 2009, 131(37): 13255-13269.
[35] Tang X, Su M, Yu L,Lv C, Wang J, Li Z. Photomodulating RNA cleavage using photolabile circular antisense oligodeoxynucleotides[J]. Nucleic Acids Research, 2010, 38(11): 3848-3855.
[36] Wang Y, Wu L, Wang P,Lv C, Yang Z, Tang X. Manipulation of gene expression in zebrafish using caged circular morpholino oligomers[J]. Nucleic Acids Research, 2012, 40(21): 11155-11162.
[37] Wu L, Wang Y, Wu J,Lv C, Wang J, Tang X. Caged circular antisense oligonucleotides for photomodulation of RNA digestion and gene expression in cells[J]. Nucleic Acids Research, 2013, 41(1): 677-686.
[38] Yamazoe S, Liu Q, Mcquade L E, Deiters A, Chen J K. Sequential gene silencing using wavelength-selective caged morpholino oligonucleotides[J]. Angewandte Chemie International Edition, 2014, 53(38): 10114-10118.
[39] Shah S, Rangarajan S, Friedman S H. Light-activated RNA interference[J]. Angewandte Chemie International Edition, 2005, 44(9): 1328-1332.
[40] Shah S, Jain P K, Kala A,Karunakaran D, Friedman S H. Light-activated RNA interference using double-stranded siRNA precursors modified using a remarkable regiospecificity ofdiazo-based photolabile groups[J]. Nucleic Acids Research, 2009, 37(13): 4508-4517.
[41] Chiu Y L, Rana T M. RNAi in Human Cells: Basic Structural and Functional Features of Small Interfering RNA[J]. Molecular Cell, 2002, 10(3): 549-561.
[42] Nguyen Q N, Chavli R V, Marques J T, Conrad P G, Wang D, He W, Belisle B E, Zhang A, Pastor L M, Witney F R, Morris M, Heitz F, Divita G, Williams B R, McMaster G K. Light controllable siRNAs regulate gene suppression and phenotypes in cells[J]. Biochimica Et Biophysica Acta Biomembranes, 2006, 1758(3): 394-403.
[43] Shah S, Friedman S H. Tolerance of RNA interference toward modifications of the 5' antisense phosphate of small interfering RNA[J]. Oligonucleotides, 2007, 17(1): 35-43.
[44] Jain P K, Shah S, Friedman S H. Patterning of gene expression using new photolabile groups applied to light activated RNAi[J]. Journal of the American Chemical Society, 2010, 133(3): 440-446.
[45] Ji Y, Yang J, Wu L, Yu L, Tang X.Photochemical regulation of gene expression using caged siRNAs with single terminal vitamin E modification[J]. Angewandte Chemie International Edition, 2016, 55(6): 2152-2156.
[46] Mikat V, Heckel A. Light-dependent RNA interference with nucleobase-caged siRNAs[J]. RNA, 2007, 13(12): 2341-2347.
[47] Govan J M, Young D D, Lusic H, Liu Q, Lively M O, Deiters A. Optochemical control of RNA interference in mammalian cells[J]. Nucleic Acids Research, 2013, 41(22): 10518-10528.
[48] Braun G B, Pallaoro A, Wu G, Missirlis D, Zasadzinski J A, Tirrell M, Reich N O. Laser-activated gene silencing via gold nanoshell-siRNA conjugates[J]. ACS Nano, 2009, 3(7): 2007-2015.
[49] Huang X, Hu Q, Braun G B, Pallaoro A, Morales D P, Zasadzinski J, Clegg D O, Reich N O. Light-activated RNA interference in human embryonic stem cells[J]. Biomaterials, 2015, 63: 70-79.
[50] Yang Y, Liu F, Liu X, Xing B. NIR light controlled photorelease of siRNA and its targeted intracellular delivery based on upconversion nanoparticles[J]. Nanoscale, 2012, 5(1): 231-238.
[51] Meyer A, Mokhir A. RNA interference controlled by light of variable wavelength[J]. Angewandte Chemie International Edition, 2014, 53(47): 12840-12843.
[52] Hemphill J, Borchardt E K, Brown K, Asokan A, Deiters A. Optical control of CRISPR/Cas9 gene editing[J]. Journal of the American Chemical Society, 2015, 137(17): 5642-5645.
[53] Nihongaki Y, Yamamoto S, Kawano F, Suzuki H, Sato M. CRISPR-Cas9-based photoactivatable transcription system[J]. Chemistry & Biology, 2015, 22(2): 169-174.
[54] Jain P K, Ramanan V, Schepers A G, Dalvie N S, Panda A, Fleming H E, Bhatia. Development of light-activated CRISPR using guide RNAs with photocleavable protectors[J]. Angewandte Chemie International Edition, 2016, 55(40): 12628-12632.
[55] Ting R, Lermer L, Perrin D M. Triggering DNAzymes with light: a photoactive C8 thioether-linked adenosine[J]. Journal of the American Chemical Society, 2004, 126(126): 12720-12721.
[56] Lusic H, Young D D, Lively M O,Deiters A. Photochemical DNA activation[J]. Organic Letters, 2007, 9(10): 1903-1906.
[57] Young D D, Lively M O, Deiters A. Activation and deactivation of DNAzyme and antisense function with light for the photochemical regulation of gene expression in mammalian cells[J]. Journal of the American Chemical Society, 2010, 132(17): 6183-6193.
[58] Richards J L, Seward G K, Wang Y H,Dmochowski I J. Turning the 10-23 DNAzymeon and off with light[J].Chembiochem, 2010, 11(3): 320-324.
[59] Vinkenborg J L, Karnowski N, Famulok M. Aptamers for allosteric regulation[J]. Nature Chemical Biology, 2011, 7(8): 519-527.
[60] Mayer G, Kröck L, Mikat V, Engeser M, Heckel. Light-induced formation of G-quadruplex DNA secondary structures[J]. Chembiochem, 2005, 6(11): 1966-1970.
[61] Buff M C, Schäfer F, Wulffen B, Müller J, Pötzsch B, Heckel A, Mayer G. Dependence of aptamer activity on opposed terminal extensions: improvement of light-regulation efficiency[J]. Nucleic Acids Research, 2010, 38(6): 2111-2118.
[62] Wang X, Feng M, Xiao L, Tong A, Xiang Y. Postsynthetic modification of DNA phosphodiester backbone for photocagedDNAzyme[J]. ACS Chemical Biology, 2016, 11(2): 444-451.
[63] Feng M, Ruan Z, Shang J, Xiao L, Tong A, Xiang Y. Photocaged G-quadruplexDNAzyme andaptamer by postsynthetic modification on phosphodiester backbone[J]. Bioconjugate Chemistry, 2016, 28(2): 549-555.
[64] Tian T, Song Y, Wang J, Fu B, He Z, Xu X, Li A, Zhou X, Wang S, Zhou X. Small-molecule-triggered and light-controlled reversible regulation of enzymatic activity[J]. Journal of the American Chemical Society, 2016, 138(3): 955-961.
[65] Wang X, Huang J, Zhou Y, Yan S, Weng X, Wu X, Deng M, Zhou X. Conformational switching of G-quadruplex DNA by photoregulation[J]. Angewandte Chemie International Edition, 2010, 49(31): 5305-5309.
[66] Bergen A, Rudiuk S, Morel M, Saux T L, Ihmeis H, Baigl D. Photodependent melting of unmodified DNA using a photosensitive intercalator: a new and generic tool for photoreversible assembly of DNA nanostructures at constant temperature[J]. Nano Letters, 2015, 16(1): 773-780.
[67] Seyfried P, Eiden L, Grebenovsky N, Mayer G, Heckel A. Photo-tethers for the (multi-)cyclic, conformational caging of long oligonucleotides[J]. Angewandte Chemie, 2016, 56(1): 359-363.
[68] Schlee M, Hartmann G. Discriminating self from non-self in nucleic acid sensing[J]. Nature Reviews Immunology, 2016, 16(9): 566-580.
[69] Govan J M, Young D D, Lively M O, Deiters A. Optically triggered immune response through photocaged oligonucleotides[J]. Tetrahedron Letters, 2015, 56(23): 3639-3642.
[70] Ando H, Furuta T, Tsien R Y, Okamoto H. Photo-mediated gene activation using caged RNA/DNA in zebrafish embryos.[J]. Nature Genetics, 2001, 28(4): 317-325.
[71] Ando H, Furuta T, Okamoto H. Photo-mediated gene activation by using caged mRNA in zebrafish embryos[J]. Methods in Cell Biology, 2004, 77(77): 159-171.
[72] Kamiya Y, Takagi T, Ooi H, Ito H, Liang X, Asanuma H. Synthetic gene involving azobenzene-tethered T7 promoter for the photocontrol of gene expression by visible light[J]. ACS Synthetic Biology, 2015, 4(4): 365-370.
[73] Hemphill J, Govan J, Uprety R, Tsang M, Deiters A. Site-specific promoter caging enables optochemical gene activation in cells and animals[J]. Journal of the American Chemical Society, 2014, 136(19): 7152-7158. |