Journal of the American Chemical Society
Page 8 of 10
(
3) Lehn, J. M., Toward self-organization and complex matter.
Science 2002, 295, 2400-2403.
4) Zhang, D. Y.; Winfree, E., Control of DNA Strand Displacement
Kinetics Using Toehold Exchange. J. Am. Chem. Soc. 2009, 131, 17303-
7314.
5) Srinivas, N.; Ouldridge, T. E.; Sulc, P.; Schaeffer, J. M.; Yurke, B.;
(24) Chang, D. L.; Kim, K. T.; Lindberg, E.; Winssinger, N.,
Accelerating Turnover Frequency in Nucleic Acid Templated
Reactions. Bioconj. Chem. 2018, 29, 158-163.
1
2
3
4
5
6
7
8
9
1
1
1
1
1
1
1
1
1
1
2
2
2
2
2
2
2
2
2
2
3
3
3
3
3
3
3
3
3
3
4
4
4
4
4
4
4
4
4
4
5
5
5
5
5
5
5
5
5
5
6
(
(25) Velema, W. A.; Kool, E. T., Fluorogenic Templated Reaction
Cascades for RNA Detection. J. Am. Chem. Soc. 2017, 139, 5405-5411.
(26) Chang, D.; Lindberg, E.; Winssinger, N., Critical Analysis of
Rate Constants and Turnover Frequency in Nucleic Acid-Templated
Reactions: Reaching Terminal Velocity. J. Am. Chem. Soc. 2017, 139,
1444-1447.
(27) Holtzer, L.; Oleinich, I.; Anzola, M.; Lindberg, E.; Sadhu, K. K.;
Gonzalez-Gaitan, M.; Winssinger, N., Nucleic Acid Templated
Chemical Reaction in a Live Vertebrate. ACS Cent. Sci. 2016, 2, 394-
400.
(28) Lindberg, E.; Angerani, S.; Anzola, M.; Winssinger, N.,
Luciferase-induced photoreductive uncaging of small-molecule
effectors. Nat. Commun. 2018, 9.
(29) Anzola, M.; Winssinger, N., Turn On of a Ruthenium(II)
Photocatalyst by DNA-Templated Ligation. Chem. Eur. J. 2019, 25, 334-
342.
1
(
Louis, A. A.; Doye, J. P.; Winfree, E., On the biophysics and kinetics of
toehold-mediated DNA strand displacement. Nucleic Acids Res. 2013,
4
1, 10641-58.
6) Zhang, D. Y.; Seelig, G., Dynamic DNA nanotechnology using
(
strand-displacement reactions. Nat. Chem. 2011, 3, 103-113.
(7) Zhang, D. Y.; Turberfield, A. J.; Yurke, B.; Winfree, E.,
Engineering entropy-driven reactions and networks catalyzed by
DNA. Science 2007, 318, 1121-5.
0
1
2
3
4
5
6
7
8
9
0
1
2
3
4
5
6
7
8
9
0
1
2
3
4
5
6
7
8
9
0
1
2
3
4
5
6
7
8
9
0
1
2
3
4
5
6
7
8
9
0
(
8) Yin, P.; Choi, H. M. T.; Calvert, C. R.; Pierce, N. A., Programming
biomolecular self-assembly pathways. Nature 2008, 451, 318-324.
(9) Qian, L.; Winfree, E., Scaling up digital circuit computation with
DNA strand displacement cascades. Science 2011, 332, 1196-201.
(
10) Krishnan, Y.; Simmel, F. C., Nucleic acid based molecular
devices. Angew. Chem. Int. Ed. Engl. 2011, 50, 3124-56.
11) Wang, F.; Lu, C. H.; Willner, I., From cascaded catalytic nucleic
(30) Angerani, S.; Winssinger, N., Visible Light Photoredox Catalysis
Using Ruthenium Complexes in Chemical Biology. Chem. Eur. J. 2019,
25, 6661-6672.
(
acids to enzyme-DNA nanostructures: controlling reactivity, sensing,
logic operations, and assembly of complex structures. Chem. Rev.
(31) Mooren, F. C.; Geada, M. M.; Singh, J.; Stoll, R.; Beil, W.;
Domschke, W., Effects of extracellular Mg2+ concentration on
intracellular signalling and acid secretion in rat gastric parietal cells.
Biochim. Biophys. Acta 1997, 1358, 279-88.
(32) Farruggia, G.; Castiglioni, S.; Sargenti, A.; Marraccini, C.;
Cazzaniga, A.; Merolle, L.; Iotti, S.; Cappadone, C.; Maier, J. A. M.,
Effects of supplementation with different Mg salts in cells: is there a
clue? Magnesium Res. 2014, 27, 25-33.
(33) Mewes, A.; Langer, G.; de Nooijer, L. J.; Bijma, J.; Reichart, G. J.,
Effect of different seawater Mg(2 +) concentrations on calcification in
two benthic foraminifers. Mar. Micropaleontol. 2014, 113, 56-64.
(34) Kim, W. J.; Akaike, T.; Maruyama, A., DNA strand exchange
stimulated by spontaneous complex formation with cationic comb-
type copolymer. J. Am. Chem. Soc. 2002, 124, 12676-12677.
(35) Dragulescu-Andrasi, A.; Rapireddy, S.; Frezza, B. M.; Gayathri,
C.; Gil, R. R.; Ly, D. H., A simple gamma-backbone modification
preorganizes peptide nucleic acid into a helical structure. J. Am. Chem.
Soc. 2006, 128, 10258-10267.
(36) Chouikhi, D.; Ciobanu, M.; Zambaldo, C.; Duplan, V.;
Barluenga, S.; Winssinger, N., Expanding the Scope of PNA-Encoded
Synthesis (PES): Mtt-Protected PNA Fully Orthogonal to Fmoc
Chemistry and a Broad Array of Robust Diversity-Generating
Reactions. Chem. Eur. J. 2012, 18, 12698-12704.
(37) Wiebke, E. A.; Grieshop, N. A.; Loehrer, P. J.; Eckert, G. J.;
Sidner, R. A., Antitumor effects of 5-fluorouracil on human colon
cancer cell lines: antagonism by levamisole. J. Surg. Res. 2003, 111, 63-
69.
(38) Flis, S.; Splwinski, J., Inhibitory effects of 5-fluorouracil and
oxaliplatin on human colorectal cancer cell survival are synergistically
enhanced by sulindac sulfide. Anticancer Res. 2009, 29, 435-441.
(39) Tong, J.; Xie, G.; He, J.; Li, J.; Pan, F.; Liang, H., Synergistic
antitumor effect of dichloroacetate in combination with 5-fluorouracil
in colorectal cancer. J. Biomed. Biotechnol. 2011, 2011, 740564.
(40) Violette, S.; Poulain, L.; Dussaulx, E.; Pepin, D.; Faussat, A. M.;
Chambaz, J.; Lacorte, J. M.; Staedel, C.; Lesuffleur, T., Resistance of
colon cancer cells to long-term 5-fluorouracil exposure is correlated
to the relative level of Bcl-2 and Bcl-X(L) in addition to Bax and p53
status. Int. J. Cancer 2002, 98, 498-504.
(41) Touil, Y.; Igoudjil, W.; Corvaisier, M.; Dessein, A. F.;
Vandomme, J.; Monte, D.; Stechly, L.; Skrypek, N.; Langlois, C.; Grard,
G.; Millet, G.; Leteurtre, E.; Dumont, P.; Truant, S.; Pruvot, F. R.;
Hebbar, M.; Fan, F.; Ellis, L. M.; Formstecher, P.; Van Seuningen, I.;
Gespach, C.; Polakowska, R.; Huet, G., Colon cancer cells escape 5FU
chemotherapy-induced cell death by entering stemness and
quiescence associated with the c-Yes/YAP axis. Clin. Cancer Res. 2014,
20, 837-846.
2
014, 114, 2881-941.
12) Wu, C. C.; Cansiz, S.; Zhang, L. Q.; Teng, I. T.; Qiu, L. P.; Li, J.;
(
Liu, Y.; Zhou, C. S.; Hu, R.; Zhang, T.; Cui, C.; Cui, L.; Tan, W. H., A
Nonenzymatic Hairpin DNA Cascade Reaction Provides High Signal
Gain of mRNA Imaging inside Live Cells. J. Am. Chem. Soc. 2015, 137,
4
900-4903.
13) Morihiro, K.; Ankenbruck, N.; Lukasak, B.; Deiters, A., Small
(
Molecule Release and Activation through DNA Computing. J. Am.
Chem. Soc. 2017, 139, 13909-13915.
(14) Sun, X.; Wei, B.; Guo, Y.; Xiao, S.; Li, X.; Yao, D.; Yin, X.; Liu, S.;
Liang, H., A Scalable "Junction Substrate" to Engineer Robust DNA
Circuits. J. Am. Chem. Soc. 2018, 140, 9979-9985.
(
15) Simmel, F. C.; Yurke, B.; Singh, H. R., Principles and
Applications of Nucleic Acid Strand Displacement Reactions. Chem.
Rev. 2019, 119, 6326-6369 .
(16) Gorska, K.; Winssinger, N., Reactions Templated by Nucleic
Acids: More Ways to Translate Oligonucleotide-Based Instructions
into Emerging Function. Angew. Chem. Int. Ed. Engl. 2013, 52, 6820-
6843.
(
17) Di Pisa, M.; Seitz, O., Nucleic Acid Templated Reactions for
Chemical Biology. ChemMedChem 2017, 12, 872-882.
(18) Benenson, Y.; Gil, B.; Ben-Dor, U.; Adar, R.; Shapiro, E., An
autonomous molecular computer for logical control of gene
expression. Nature 2004, 429, 423-429.
(
19) Rothlingshofer, M.; Gorska, K.; Winssinger, N., Nucleic Acid-
Templated Energy Transfer Leading to a Photorelease Reaction and
its Application to a System Displaying a Nonlinear Response. J. Am.
Chem. Soc. 2011, 133, 18110-18113.
(
20) Mitchell, P. S.; Parkin, R. K.; Kroh, E. M.; Fritz, B. R.; Wyman,
S. K.; Pogosova-Agadjanyan, E. L.; Peterson, A.; Noteboom, J.;
O'Briant, K. C.; Allen, A.; Lin, D. W.; Urban, N.; Drescher, C. W.;
Knudsen, B. S.; Stirewalt, D. L.; Gentleman, R.; Vessella, R. L.; Nelson,
P. S.; Martin, D. B.; Tewari, M., Circulating microRNAs as stable
blood-based markers for cancer detection. Proc. Natl. Acad. Sci. USA
2
008, 105, 10513-10518.
21) Dong, H. F.; Lei, J. P.; Ding, L.; Wen, Y. Q.; Ju, H. X.; Zhang, X.
(
J., MicroRNA: Function, Detection, and Bioanalysis. Chem. Rev. 2013,
113, 6207-6233.
(
22) Fish, L.; Zhang, S.; Yu, J. X.; Culbertson, B.; Zhou, A. Y.; Goga,
A.; Goodarzi, H., Cancer cells exploit an orphan RNA to drive
metastatic progression. Nat. Med. 2018, 24, 1743-1751.
(
23) Umu, S. U.; Langseth, H.; Bucher-Johannessen, C.; Fromm, B.;
Keller, A.; Meese, E.; Lauritzen, M.; Leithaug, M.; Lyle, R.; Rounge, T.
B., A comprehensive profile of circulating RNAs in human serum. RNA
Biol. 2018, 15, 242-250.
8
ACS Paragon Plus Environment