Alexander Deiters

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Organization: North Carolina State University
Department: Department of Chemistry
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Co-reporter:James Hemphill
Journal of the American Chemical Society 2013 Volume 135(Issue 28) pp:10512-10518
Publication Date(Web):June 24, 2013
DOI:10.1021/ja404350s
DNA computation can utilize logic gates as modules to create molecular computers with biological inputs. Modular circuits that recognize nucleic acid inputs through strand hybridization activate computation cascades to produce controlled outputs. This allows for the construction of synthetic circuits that can be interfaced with cellular environments. We have engineered oligonucleotide AND gates to respond to specific microRNA (miRNA) inputs in live mammalian cells. Both single and dual-sensing miRNA-based computation devices were synthesized for the cell-specific identification of endogenous miR-21 and miR-122. A logic gate response was observed with miRNA expression regulators, exhibiting molecular recognition of miRNA profile changes. Nucleic acid logic gates that are functional in a cellular environment and recognize endogenous inputs significantly expand the potential of DNA computation to monitor, image, and respond to cell-specific markers.
Co-reporter:Alex Prokup ; James Hemphill
Journal of the American Chemical Society 2012 Volume 134(Issue 8) pp:3810-3815
Publication Date(Web):January 9, 2012
DOI:10.1021/ja210050s
DNA computation is an emerging field that enables the assembly of complex circuits based on defined DNA logic gates. DNA-based logic gates have previously been operated through purely chemical means, controlling logic operations through DNA strands or other biomolecules. Although gates can operate through this manner, it limits temporal and spatial control of DNA-based logic operations. A photochemically controlled AND gate was developed through the incorporation of caged thymidine nucleotides into a DNA-based logic gate. By using light as the logic inputs, both spatial control and temporal control were achieved. In addition, design rules for light-regulated DNA logic gates were derived. A step-response, which can be found in a controller, was demonstrated. Photochemical inputs close the gap between DNA computation and silicon-based electrical circuitry, since light waves can be directly converted into electrical output signals and vice versa. This connection is important for the further development of an interface between DNA logic gates and electronic devices, enabling the connection of biological systems with electrical circuits.
Co-reporter:Jeane M. Govan, Rajendra Uprety, James Hemphill, Mark O. Lively, and Alexander Deiters
ACS Chemical Biology 2012 Volume 7(Issue 7) pp:1247
Publication Date(Web):April 27, 2012
DOI:10.1021/cb300161r
Triplex-forming oligonucleotides (TFOs) are efficient tools to regulate gene expression through the inhibition of transcription. Here, nucleobase-caging technology was applied to the temporal regulation of transcription through light-activated TFOs. Through site-specific incorporation of caged thymidine nucleotides, the TFO:DNA triplex formation is blocked, rendering the TFO inactive. However, after a brief UV irradiation, the caging groups are removed, activating the TFO and leading to the inhibition of transcription. Furthermore, the synthesis and site-specific incorporation of caged deoxycytidine nucleotides within TFO inhibitor sequences was developed, allowing for the light-deactivation of TFO function and thus photochemical activation of gene expression. After UV-induced removal of the caging groups, the TFO forms a DNA dumbbell structure, rendering it inactive, releasing it from the DNA, and activating transcription. These are the first examples of light-regulated TFOs and their application in the photochemical activation and deactivation of gene expression. In addition, hairpin loop structures were found to significantly increase the efficacy of phosphodiester DNA-based TFOs in tissue culture.
Co-reporter:Colleen M. Connelly, Rajendra Uprety, James Hemphill and Alexander Deiters  
Molecular BioSystems 2012 vol. 8(Issue 11) pp:2987-2993
Publication Date(Web):03 Sep 2012
DOI:10.1039/C2MB25175B
MicroRNAs (miRNAs) are small non-coding RNAs that act as post-transcriptional gene regulators and have been shown to regulate many biological processes including embryonal development, cell differentiation, apoptosis, and proliferation. Variations in the expression of certain miRNAs have been linked to a wide range of human diseases – especially cancer – and the diversity of miRNA targets suggests that they are involved in various cellular networks. Several tools have been developed to control the function of individual miRNAs and have been applied to study their biogenesis, biological role, and therapeutic potential; however, common methods lack a precise level of control that allows for the study of miRNA function with high spatial and temporal resolution. Light-activated miRNA antagomirs for mature miR-122 and miR-21 were developed through the site-specific installation of caging groups on the bases of selected nucleotides. Installation of caged nucleotides led to complete inhibition of the antagomir-miRNA hybridization and thus inactivation of antagomir function. The miRNA-inhibitory activity of the caged antagomirs was fully restored upon decaging through a brief UV irradiation. The synthesized antagomirs were applied to the photochemical regulation of miRNA function in mammalian cells. Moreover, spatial control over antagomir activity was obtained in mammalian cells through localized UV exposure. The presented approach enables the precise regulation of miRNA function and miRNA networks with unprecedented spatial and temporal resolution using UV irradiation and can be extended to any miRNA of interest.
Co-reporter:Jeane M. Govan;Andrew L. McIver;Chad Riggsbee ;Dr. Alexer Deiters
Angewandte Chemie 2012 Volume 124( Issue 36) pp:9200-9204
Publication Date(Web):
DOI:10.1002/ange.201203222
Co-reporter:Jeane M. Govan;Andrew L. McIver;Chad Riggsbee ;Dr. Alexer Deiters
Angewandte Chemie International Edition 2012 Volume 51( Issue 36) pp:9066-9070
Publication Date(Web):
DOI:10.1002/anie.201203222
Co-reporter:Jeane M. Govan ; Mark O. Lively
Journal of the American Chemical Society 2011 Volume 133(Issue 33) pp:13176-13182
Publication Date(Web):July 15, 2011
DOI:10.1021/ja204980v
DNA decoys have been developed for the inhibition of transcriptional regulation of gene expression. However, the present methodology lacks the spatial and temporal control of gene expression that is commonly found in nature. Here, we report the application of photoremovable protecting groups on nucleobases of nuclear factor κB (NF-κB) DNA decoys to regulate NF-κB-driven transcription of secreted alkaline phosphatase using light as an external control element. The NF-κB family of proteins is comprised of important eukaryotic transcription factors that regulate a wide range of cellular processes and are involved in immune response, development, cellular growth, and cell death. Several diseases, including cancer, arthritis, chronic inflammation, asthma, neurodegenerative diseases, and heart disease, have been linked to constitutively active NF-κB. Through the direct incorporation of caging groups into an NF-κB decoy, we were able to disrupt DNA:DNA hybridization and inhibit the binding of the transcription factor to the DNA decoy until UV irradiation removed the caging groups and restored the activity of the oligonucleotide. Excellent light-switching behavior of transcriptional regulation was observed. This is the first example of a caged DNA decoy for the photochemical regulation of gene expression in mammalian cells and represents an important addition to the toolbox of light-controlled gene regulatory agents.
Co-reporter:Chungjung Chou, Rajendra Uprety, Lloyd Davis, Jason W. Chin and Alexander Deiters  
Chemical Science 2011 vol. 2(Issue 3) pp:480-483
Publication Date(Web):01 Dec 2010
DOI:10.1039/C0SC00373E
Photocrosslinking is an important approach that allows discovery and detailed investigation of protein–protein, protein–oligonucleotide, and protein–small molecule interactions with high temporal and spatial resolution. A major limitation to the universal application of this methodology is the site-specific introduction of efficient aliphatic photocrosslinking probes into proteins of interest. Here, we report a novel aliphatic diazirine amino acid and its genetically encoded, site-specific incorporation into proteins in bacterial and mammalian cells. Furthermore, we demonstrate efficient photocrosslinking of a test proteinin vitro and in vivo.
Co-reporter:Yan Zou, Qingyang Liu, and Alexander Deiters
Organic Letters 2011 Volume 13(Issue 16) pp:4352-4355
Publication Date(Web):July 15, 2011
DOI:10.1021/ol201682k
A highly convergent synthesis of the pyridine core of the thiopeptide antibiotic cyclothiazomycin has been developed based on a [2 + 2 + 2] cyclotrimerization key step. The regioselective assembly of the heterocyclic center of this important class of antibiotics takes advantage of a temporary silicon tether and the ruthenium-catalyzed cyclotrimerization reaction of a diyne and an electron-poor thiazole nitrile.
Co-reporter:Michael K. Dush, Andrew L. McIver, Meredith A. Parr, Douglas D. Young, Julie Fisher, Donna R. Newman, Philip L. Sannes, Marlene L. Hauck, Alexander Deiters, Nanette Nascone-Yoder
Chemistry & Biology 2011 Volume 18(Issue 2) pp:252-263
Publication Date(Web):25 February 2011
DOI:10.1016/j.chembiol.2010.12.008
Disruptions of anatomical left-right asymmetry result in life-threatening heterotaxic birth defects in vital organs. We performed a small molecule screen for left-right asymmetry phenotypes in Xenopus embryos and discovered a pyridine analog, heterotaxin, which disrupts both cardiovascular and digestive organ laterality and inhibits TGF-β-dependent left-right asymmetric gene expression. Heterotaxin analogs also perturb vascular development, melanogenesis, cell migration, and adhesion, and indirectly inhibit the phosphorylation of an intracellular mediator of TGF-β signaling. This combined phenotypic profile identifies these compounds as a class of TGF-β signaling inhibitors. Notably, heterotaxin analogs also possess highly desirable antitumor properties, inhibiting epithelial-mesenchymal transition, angiogenesis, and tumor cell proliferation in mammalian systems. Our results suggest that assessing multiple organ, tissue, cellular, and molecular parameters in a whole organism context is a valuable strategy for identifying the mechanism of action of bioactive compounds.Graphical AbstractFigure optionsDownload full-size imageDownload high-quality image (263 K)Download as PowerPoint slideHighlights► 2,4,6-substituted pyridines disrupt left-right asymmetry in Xenopus embryos ► Pyridine compounds induce multiple TGFβ-dependent organ and cellular phenotypes ► Pyridine compounds inhibit both Smad2- and non-Smad-dependent TGFβ-signaling events ► Pyridine compounds inhibit EMT, angiogenesis, and mammalian tumor cell proliferation
Co-reporter:Jeane M. Govan, Andrew L. McIver, and Alexander Deiters
Bioconjugate Chemistry 2011 Volume 22(Issue 10) pp:2136
Publication Date(Web):September 20, 2011
DOI:10.1021/bc200411n
Oligonucleotides are effective tools for the regulation of gene expression in cell culture and model organisms, most importantly through antisense mechanisms. Due to the inherent instability of DNA antisense agents, various modifications have been introduced to increase the efficacy of oligonucleotides, including phosphorothioate DNA, locked nucleic acids, peptide nucleic acids, and others. Here, we present antisense agent stabilization through conjugation of a poly(ethylene glycol) (PEG) group to a DNA oligonucleotide. By employing a photocleavable linker between the PEG group and the antisense agent, we were able to achieve light-induced deactivation of antisense activity. The bioconjugated PEG group provides stability to the DNA antisense agent without affecting its native function of silencing gene expression via RNase H-catalyzed mRNA degradation. Once irradiated with UV light of 365 nm, the PEG group is cleaved from the antisense agent leaving the DNA unprotected and open for degradation by endogenous nucleases, thereby restoring gene expression. By using a photocleavable PEG group (PhotoPEG), antisense activity can be regulated with high spatial and temporal resolution, paving the way for precise regulation of gene expression in biological systems.
Co-reporter:Laura Gardner, Yan Zou, Alexandria Mara, T. Ashton Cropp and Alexander Deiters  
Molecular BioSystems 2011 vol. 7(Issue 9) pp:2554-2557
Publication Date(Web):22 Jul 2011
DOI:10.1039/C1MB05166K
Bacterial cells control resistance to the macrolide antibiotic erythromycin using the MphR(A) repressor protein. Erythromycin binds to MphR(A), causing release of the PmphR promoter, activating expression of the 2′-phosphotransferase Mph(A). We engineered the MphR(A)/promoter system to, in conjunction with a light-activatable derivative of erythromycin, enable photochemical activation of gene expression in E. coli. We applied this photochemical gene switch to the construction of a light-triggered logic gate, a light-controlled band-pass filter, as well as spatial and temporal control of gene expression.
Co-reporter:Yan Zou;Haisheng Lin;Paul A. Maggard ;Alexer Deiters
European Journal of Organic Chemistry 2011 Volume 2011( Issue 22) pp:4154-4159
Publication Date(Web):
DOI:10.1002/ejoc.201100399

Abstract

A new tetranuclear copper(I)–pyridazine (pda)/rhenate hybrid has been synthesized under hydrothermal conditions and structurally characterized by X-ray crystallography. The activity of this catalyst, as well as its dissociation into mononuclear species, was investigated in homogeneous C–N arylation reactions. A variety of N-arylamides and -azoles were synthesized in good to excellent yields, revealing the effect of polynuclear versus mononuclear Cu complexation in this type of coupling reaction.

Co-reporter:Dr. Chungjung Chou ;Dr. Alexer Deiters
Angewandte Chemie 2011 Volume 123( Issue 30) pp:6971-6974
Publication Date(Web):
DOI:10.1002/ange.201101157
Co-reporter:Dr. Chungjung Chou ;Dr. Alexer Deiters
Angewandte Chemie International Edition 2011 Volume 50( Issue 30) pp:6839-6842
Publication Date(Web):
DOI:10.1002/anie.201101157
Co-reporter:Alexander Deiters ; R. Aaron Garner ; Hrvoje Lusic ; Jeane M. Govan ; Mike Dush ; Nanette M. Nascone-Yoder ;Jeffrey A. Yoder
Journal of the American Chemical Society 2010 Volume 132(Issue 44) pp:15644-15650
Publication Date(Web):October 20, 2010
DOI:10.1021/ja1053863
Morpholino oligonucleotides, or morpholinos, have emerged as powerful antisense reagents for evaluating gene function in both in vitro and in vivo contexts. However, the constitutive activity of these reagents limits their utility for applications that require spatiotemporal control, such as tissue-specific gene disruptions in embryos. Here we report a novel and efficient synthetic route for incorporating photocaged monomeric building blocks directly into morpholino oligomers and demonstrate the utility of these caged morpholinos in the light-activated control of gene function in both cell culture and living embryos. We demonstrate that a caged morpholino that targets enhanced green fluorescent protein (EGFP) disrupts EGFP production only after exposure to UV light in both transfected cells and living zebrafish (Danio rerio) and Xenopus frog embryos. Finally, we show that a caged morpholino targeting chordin, a zebrafish gene that yields a distinct phenotype when functionally disrupted by conventional morpholinos, elicits a chordin phenotype in a UV-dependent manner. Our results suggest that photocaged morpholinos are readily synthesized and highly efficacious tools for light-activated spatiotemporal control of gene expression in multiple contexts.
Co-reporter:Arnaud Gautier ; Duy P. Nguyen ; Hrvoje Lusic ; Wenlin An ; Alexander Deiters ;Jason W. Chin
Journal of the American Chemical Society 2010 Volume 132(Issue 12) pp:4086-4088
Publication Date(Web):March 10, 2010
DOI:10.1021/ja910688s
Precise photochemical control of protein function can be achieved through the site-specific introduction of caging groups. Chemical and enzymatic methods, including in vitro translation and chemical ligation, have been used to photocage proteins in vitro. These methods have been extended to allow the introduction of caged proteins into cells by permeabilization or microinjection, but cellular delivery remains challenging. Since lysine residues are key determinants for nuclear localization sequences, the target of key post-translational modifications (including ubiquitination, methylation, and acetylation), and key residues in many important enzyme active sites, we were interested in photocaging lysine to control protein localization, post-translational modification, and enzymatic activity. Photochemical control of these important functions mediated by lysine residues in proteins has not previously been demonstrated in living cells. Here we synthesized 1 and evolved a pyrrolysyl-tRNA synthetase/tRNA pair to genetically encode the incorporation of this amino acid in response to an amber codon in mammalian cells. To exemplify the utility of this amino acid, we caged the nuclear localization sequences (NLSs) of nucleoplasmin and the tumor suppressor p53 in human cells, thus mislocalizing the proteins in the cytosol. We triggered protein nuclear import with a pulse of light, allowing us to directly quantify the kinetics of nuclear import.
Co-reporter:Douglas D. Young ; Mark O. Lively
Journal of the American Chemical Society 2010 Volume 132(Issue 17) pp:6183-6193
Publication Date(Web):April 14, 2010
DOI:10.1021/ja100710j
The photochemical regulation of biological systems represents a very precise means of achieving high-resolution control over gene expression in both a spatial and a temporal fashion. DNAzymes are enzymatically active deoxyoligonucleotides that enable the site-specific cleavage of RNA and have been used in a variety of in vitro applications. We have previously reported the photochemical activation of DNAzymes and antisense agents through the preparation of a caged DNA phosphoramidite and its site-specific incorporation into oligonucleotides. The presence of the caging group disrupts either DNA:RNA hybridization or catalytic activity until removed via a brief irradiation with UV light. Here, we are expanding this concept by investigating the photochemical deactivation of DNAzymes and antisense agents. Moreover, we report the application of light-activated and light-deactivated antisense agents to the regulation of gene function in mammalian cells. This represents the first example of gene silencing antisense agents that can be turned on and turned off in mammalian tissue culture.
Co-reporter:Douglas D. Young ; Colleen M. Connelly ; Christoph Grohmann
Journal of the American Chemical Society 2010 Volume 132(Issue 23) pp:7976-7981
Publication Date(Web):May 19, 2010
DOI:10.1021/ja910275u
MicroRNAs are a recently discovered new class of important endogenous regulators of gene function. Aberrant regulation of microRNAs has been linked to various human diseases, most importantly cancer. Small molecule intervention of microRNA misregulation has the potential to provide new therapeutic approaches to such diseases. Here, we report the first small molecule inhibitors and activators of the liver-specific microRNA miR-122. This microRNA is the most abundant microRNA in the liver and is involved in hepatocellular carcinoma development and hepatitis C virus (HCV) infection. Our small molecule inhibitors reduce viral replication in liver cells and represent a new approach to the treatment of HCV infections. Moreover, small molecule activation of miR-122 in liver cancer cells selectively induced apoptosis through caspase activation, thus having implications in cancer chemotherapy. In addition to providing a new approach for the development of therapeutics, small molecule modifiers of miR-122 function are unique tools for exploring miR-122 biogenesis.
Co-reporter:Andrei V. Karginov ; Yan Zou ; David Shirvanyants ; Pradeep Kota ; Nikolay V. Dokholyan ; Douglas D. Young ; Klaus M. Hahn
Journal of the American Chemical Society 2010 Volume 133(Issue 3) pp:420-423
Publication Date(Web):December 16, 2010
DOI:10.1021/ja109630v
We developed a new system for light-induced protein dimerization in living cells using a photocaged analogue of rapamycin together with an engineered rapamycin binding domain. Using focal adhesion kinase as a target, we demonstrated successful light-mediated regulation of protein interaction and localization in living cells. Modification of this approach enabled light-triggered activation of a protein kinase and initiation of kinase-induced phenotypic changes in vivo.
Co-reporter:Andrew L. McIver and Alexander Deiters
Organic Letters 2010 Volume 12(Issue 6) pp:1288-1291
Publication Date(Web):February 23, 2010
DOI:10.1021/ol100177u
A facile approach to tricyclic alkaloid core structures was developed by sequencing a pyridine-forming [2 + 2 + 2] cyclotrimerization reaction with an intramolecular nucleophilic substitution. This methodology enabled the facile assembly of the spiroindolinone framework of citrinadins A and B, and cyclopiamine B.
Co-reporter:Wesleigh E. Georgianna, Hrvoje Lusic, Andrew L. McIver and Alexander Deiters
Bioconjugate Chemistry 2010 Volume 21(Issue 8) pp:1404
Publication Date(Web):July 22, 2010
DOI:10.1021/bc100084n
PEGylation is commonly employed to enhance the pharmacokinetic properties of proteins, but it can interfere with natural protein function. Protein activity can thus be abrogated through PEGylation, and a controllable means to remove the polyethylene glycol (PEG) group from the protein is desirable. As such, light affords a unique control over biomolecules through the application of photosensitive groups. Herein, we report the synthesis of a photocleavable PEG reagent (PhotoPEG) and its application to the light-regulation of enzyme activity.
Co-reporter:Bryan J. Wilkins, Samuel Marionni, Douglas D. Young, Jia Liu, Yan Wang, Martino L. Di Salvo, Alexander Deiters and T. Ashton Cropp
Biochemistry 2010 Volume 49(Issue 8) pp:
Publication Date(Web):February 5, 2010
DOI:10.1021/bi100013s
Fluorinated analogues of tyrosine can be used to manipulate the electronic environments of protein active sites. The ability to selectively mutate tyrosine residues to fluorotyrosines is limited, however, and can currently only be achieved through the total synthesis of proteins. As a general solution to this problem, we genetically encoded the unnatural amino acids o-nitrobenzyl-2-fluorotyrosine, -3-fluorotyrosine, and -2,6-difluorotyrosine in Escherichia coli. These amino acids are disguised from recognition by the endogenous protein biosynthetic machinery, effectively preventing global incorporation of fluorotyrosine into proteins.
Co-reporter:Alexander Deiters
The AAPS Journal 2010 Volume 12( Issue 1) pp:51-60
Publication Date(Web):2010 March
DOI:10.1208/s12248-009-9159-3
Recently, the RNA interference (RNAi) pathway has become the target of small molecule inhibitors and activators. RNAi has been well established as a research tool in the sequence-specific silencing of genes in eukaryotic cells and organisms by using exogenous, small, double-stranded RNA molecules of approximately 20 nucleotides. Moreover, a recently discovered post-transcriptional gene regulatory mechanism employs microRNAs (miRNAs), a class of endogenously expressed small RNA molecules, which are processed via the RNAi pathway. The chemical modulation of RNAi has important therapeutic relevance, because a wide range of miRNAs has been linked to a variety of human diseases, especially cancer. Thus, the activation of tumor-suppressive miRNAs and the inhibition of oncogenic miRNAs by small molecules have the potential to provide a fundamentally new approach for the development of cancer therapeutics.
Co-reporter:Chungjung Chou Dr.;Douglas D. Young Dr. ;Alexer Deiters Dr.
ChemBioChem 2010 Volume 11( Issue 7) pp:972-977
Publication Date(Web):
DOI:10.1002/cbic.201000041

Abstract

A light-activatable bacteriophage T7 RNA polymerase (T7RNAP) has been generated through the site-specific introduction of a photocaged tyrosine residue at the crucial position Tyr639 within the active site of the enzyme. The photocaged tyrosine disrupts polymerase activity by blocking the incoming nucleotide from reaching the active site of the enzyme. However, a brief irradiation with nonphototoxic UV light of 365 nm removes the ortho-nitrobenzyl caging group from Tyr639 and restores the RNA polymerase activity of T7RNAP. The complete orthogonality of T7RNAP to all endogenous RNA polymerases in pro- and eukaryotic systems allowed for the photochemical activation of gene expression in bacterial and mammalian cells. Specifically, E. coli cells were engineered to produce photocaged T7RNAP in the presence of a GFP reporter gene under the control of a T7 promoter. UV irradiation of these cells led to the spatiotemporal activation of GFP expression. In an analogous fashion, caged T7RNAP was transfected into human embryonic kidney (HEK293T) cells. Irradiation with UV light led to the activation of T7RNAP, thereby inducing RNA polymerization and expression of a luciferase reporter gene in tissue culture. The ability to achieve spatiotemporal regulation of orthogonal RNA synthesis enables the precise dissection and manipulation of a wide range of cellular events, including gene function.

Co-reporter:Wesleigh E. Georgianna ;Alexer Deiters Dr.
ChemBioChem 2010 Volume 11( Issue 3) pp:301-303
Publication Date(Web):
DOI:10.1002/cbic.200900754
Co-reporter:Alexer Deiters Dr.
ChemBioChem 2010 Volume 11( Issue 1) pp:47-53
Publication Date(Web):
DOI:10.1002/cbic.200900529
Co-reporter:Duy P. Nguyen ; Hrvoje Lusic ; Heinz Neumann ; Prashant B. Kapadnis ; Alexander Deiters ;Jason W. Chin
Journal of the American Chemical Society 2009 Volume 131(Issue 25) pp:8720-8721
Publication Date(Web):June 10, 2009
DOI:10.1021/ja900553w
We demonstrate that an orthogonal Methanosarcina barkeri MS pyrrolysyl-tRNA synthetase/tRNACUA pair directs the efficient, site-specific incorporation of N6-[(2-propynyloxy)carbonyl]-l-lysine, containing a carbon−carbon triple bond, and N6-[(2-azidoethoxy)carbonyl]-l-lysine, containing an azido group, into recombinant proteins in Escherichia coli. Proteins containing the alkyne functional group are labeled with an azido biotin and an azido fluorophore, via copper catalyzed [3+2] cycloaddtion reactions, to produce the corresponding triazoles in good yield. The methods reported are useful for the site-specific labeling of recombinant proteins and may be combined with mutually orthogonal methods of introducing unnatural amino acids into proteins as well as with chemically orthogonal methods of protein labeling. This should allow the site specific incorporation of multiple distinct probes into proteins and the control of protein topology and structure by intramolecular orthogonal conjugation reactions.
Co-reporter:Douglas D. Young, R. Aaron Garner, Jeffrey A. Yoder and Alexander Deiters  
Chemical Communications 2009 (Issue 5) pp:568-570
Publication Date(Web):02 Dec 2008
DOI:10.1039/B819375D
A ribozyme based gene control element enabled the spatio-temporal regulation of gene function in mammalian cell culture with light.
Co-reporter:Wesleigh F. Edwards, Douglas D. Young and Alexander Deiters
ACS Chemical Biology 2009 Volume 4(Issue 6) pp:441
Publication Date(Web):May 4, 2009
DOI:10.1021/cb900041s
Cre recombinase catalyzes DNA exchange between two conserved lox recognition sites. The enzyme has extensive biological application, from basic cloning to engineering knock-out and knock-in organisms. Widespread use of Cre is due to its simplicity and effectiveness, but the enzyme and the recombination event remain difficult to control with high precision. To obtain such control we report the installation of a light-responsive o-nitrobenzyl caging group directly in the catalytic site of Cre, inhibiting its activity. Prior to irradiation, caged Cre is completely inactive, as demonstrated both in vitro and in mammalian cell culture. Exposure to non-damaging UVA light removes the caging group and restores recombinase activity. Tight spatio-temporal control over DNA recombination is thereby achieved.
Co-reporter:Wesleigh F. Edwards, Douglas D. Young and Alexander Deiters  
Organic & Biomolecular Chemistry 2009 vol. 7(Issue 12) pp:2506-2508
Publication Date(Web):01 May 2009
DOI:10.1039/B903609A
The effect of microwave irradiation on DNA/DNA hybridization has been studied under controlled power and temperature conditions. It was discovered that microwave irradiation led to the melting of double-stranded deoxyoligonucleotides well below their thermal melting temperature and independent of the length of the deoxyoligonucleotides. These observations indicate a specific interaction of microwaves with DNA, and have important implications in the chemical or enzymatic processing of DNA under microwave heating.
Co-reporter:Chungjung Chou Dr.;DouglasD. Young Dr. ;Alexer Deiters Dr.
Angewandte Chemie 2009 Volume 121( Issue 32) pp:6064-6067
Publication Date(Web):
DOI:10.1002/ange.200901115
Co-reporter:Douglas D. Young Dr.;Jeane M. Govan;Mark O. Lively ;Alexer Deiters
ChemBioChem 2009 Volume 10( Issue 10) pp:1612-1616
Publication Date(Web):
DOI:10.1002/cbic.200900090
Co-reporter:Chungjung Chou Dr.;DouglasD. Young Dr. ;Alexer Deiters Dr.
Angewandte Chemie International Edition 2009 Volume 48( Issue 32) pp:5950-5953
Publication Date(Web):
DOI:10.1002/anie.200901115
Co-reporter:Andrew McIver, Douglas D. Young and Alexander Deiters  
Chemical Communications 2008 (Issue 39) pp:4750-4752
Publication Date(Web):27 Aug 2008
DOI:10.1039/B811068A
A convergent and flexible synthesis of substituted triphenylenes, azatriphenylenes, and the cytotoxic alkaloids dehydrotylophorine and tylophorine has been developed.
Co-reporter:Douglas D. Young, Wesleigh F. Edwards, Hrvoje Lusic, Mark O. Lively and Alexander Deiters  
Chemical Communications 2008 (Issue 4) pp:462-464
Publication Date(Web):14 Nov 2007
DOI:10.1039/B715152G
Photochemical control of the polymerase chain reaction has been achieved through the incorporation of light-triggered nucleotides into DNA.
Co-reporter:Lakshminath Sripada, Jesse A. Teske and Alexander Deiters  
Organic & Biomolecular Chemistry 2008 vol. 6(Issue 2) pp:263-265
Publication Date(Web):03 Dec 2007
DOI:10.1039/B716519F
A concise synthesis of phenanthridines via a microwave-assisted [2+2+2] cyclotrimerization reaction has been developed.
Co-reporter:Hrvoje Lusic, Mark O. Lively and Alexander Deiters  
Molecular BioSystems 2008 vol. 4(Issue 6) pp:508-511
Publication Date(Web):08 Apr 2008
DOI:10.1039/B800166A
Photochemical activation of a deoxyribozyme with peroxidase activity was achieved by the synthesis and incorporation of a caged deoxyguanosine.
Co-reporter:Douglas D. Young ;Alexer Deiters Dr.
ChemBioChem 2008 Volume 9( Issue 8) pp:1225-1228
Publication Date(Web):
DOI:10.1002/cbic.200800051
Co-reporter:Douglas D. Young;Hrvoje Lusic;Mark O. Lively ;Jeffrey A. Yoder ;Alexer Deiters
ChemBioChem 2008 Volume 9( Issue 18) pp:2937-2940
Publication Date(Web):
DOI:10.1002/cbic.200800627
Co-reporter:Kiranmai Gumireddy Dr.;DouglasD. Young;Xin Xiong Dr.;JohnB. Hogenesch Dr.;Qihong Huang Dr.;Alexer Deiters Dr.
Angewandte Chemie International Edition 2008 Volume 47( Issue 39) pp:7482-7484
Publication Date(Web):
DOI:10.1002/anie.200801555
Co-reporter:Douglas D. Young and Alexander Deiters  
Organic & Biomolecular Chemistry 2007 vol. 5(Issue 7) pp:999-1005
Publication Date(Web):20 Dec 2006
DOI:10.1039/B616410M
Photochemical regulation of biological processes offers a high level of control to study intracellular mechanisms with unprecedented spatial and temporal resolution. This report summarizes the advances made in recent years, focusing predominantly on the in vivo regulation of gene function using irradiation with UV light. The majority of the described applications entail the utilization of photocaging groups installed either on a small molecule modulator of biomolecular function or directly on a biological macromolecule itself.
Co-reporter:Douglas D. Young;Alexer Deiters  Dr.
Angewandte Chemie International Edition 2007 Volume 46(Issue 27) pp:
Publication Date(Web):25 MAY 2007
DOI:10.1002/anie.200700802

Microwave-ready heterocycles: Cobalt-catalyzed [2+2+2] cyclotrimerization of nitrile derivatives with diynes anchored to a solid support under microwave irradiation provides a universal approach to pyridine, pyridone, and iminopyridine products. The reaction is completely chemo- and regioselective, and the products are obtained in excellent yield and high purity.

Co-reporter:Douglas D. Young;Alexer Deiters  Dr.
Angewandte Chemie International Edition 2007 Volume 46(Issue 23) pp:
Publication Date(Web):25 APR 2007
DOI:10.1002/anie.200700057

Turning genes on with light: Photochemical control of gene expression is a versatile tool for the elucidation of biological processes and the programming of new biological functions. Activation of protein expression in prokaryotic cells through light irradiation is achieved through a photocaged small molecule. Spatiotemporal regulation of the lac operon was obtained through the application of a photocaged isopropyl-β-D-thiogalactopyranoside derivative.

Co-reporter:Ramesh S. Senaiar, Douglas D. Young and Alexander Deiters  
Chemical Communications 2006 (Issue 12) pp:1313-1315
Publication Date(Web):13 Feb 2006
DOI:10.1039/B515901F
The formation of pyridines via a crossed [2 + 2 + 2] cycloaddition has been achieved on a solid-support for the first time.
Co-reporter:Douglas D. Young, Wesleigh F. Edwards, Hrvoje Lusic, Mark O. Lively and Alexander Deiters
Chemical Communications 2008(Issue 4) pp:NaN464-464
Publication Date(Web):2007/11/14
DOI:10.1039/B715152G
Photochemical control of the polymerase chain reaction has been achieved through the incorporation of light-triggered nucleotides into DNA.
Co-reporter:Lakshminath Sripada, Jesse A. Teske and Alexander Deiters
Organic & Biomolecular Chemistry 2008 - vol. 6(Issue 2) pp:NaN265-265
Publication Date(Web):2007/12/03
DOI:10.1039/B716519F
A concise synthesis of phenanthridines via a microwave-assisted [2+2+2] cyclotrimerization reaction has been developed.
Co-reporter:Andrew McIver, Douglas D. Young and Alexander Deiters
Chemical Communications 2008(Issue 39) pp:NaN4752-4752
Publication Date(Web):2008/08/27
DOI:10.1039/B811068A
A convergent and flexible synthesis of substituted triphenylenes, azatriphenylenes, and the cytotoxic alkaloids dehydrotylophorine and tylophorine has been developed.
Co-reporter:Wesleigh F. Edwards, Douglas D. Young and Alexander Deiters
Organic & Biomolecular Chemistry 2009 - vol. 7(Issue 12) pp:NaN2508-2508
Publication Date(Web):2009/05/01
DOI:10.1039/B903609A
The effect of microwave irradiation on DNA/DNA hybridization has been studied under controlled power and temperature conditions. It was discovered that microwave irradiation led to the melting of double-stranded deoxyoligonucleotides well below their thermal melting temperature and independent of the length of the deoxyoligonucleotides. These observations indicate a specific interaction of microwaves with DNA, and have important implications in the chemical or enzymatic processing of DNA under microwave heating.
Co-reporter:Douglas D. Young and Alexander Deiters
Organic & Biomolecular Chemistry 2007 - vol. 5(Issue 7) pp:NaN1005-1005
Publication Date(Web):2006/12/20
DOI:10.1039/B616410M
Photochemical regulation of biological processes offers a high level of control to study intracellular mechanisms with unprecedented spatial and temporal resolution. This report summarizes the advances made in recent years, focusing predominantly on the in vivo regulation of gene function using irradiation with UV light. The majority of the described applications entail the utilization of photocaging groups installed either on a small molecule modulator of biomolecular function or directly on a biological macromolecule itself.
Co-reporter:Chungjung Chou, Rajendra Uprety, Lloyd Davis, Jason W. Chin and Alexander Deiters
Chemical Science (2010-Present) 2011 - vol. 2(Issue 3) pp:NaN483-483
Publication Date(Web):2010/12/01
DOI:10.1039/C0SC00373E
Photocrosslinking is an important approach that allows discovery and detailed investigation of protein–protein, protein–oligonucleotide, and protein–small molecule interactions with high temporal and spatial resolution. A major limitation to the universal application of this methodology is the site-specific introduction of efficient aliphatic photocrosslinking probes into proteins of interest. Here, we report a novel aliphatic diazirine amino acid and its genetically encoded, site-specific incorporation into proteins in bacterial and mammalian cells. Furthermore, we demonstrate efficient photocrosslinking of a test proteinin vitro and in vivo.
Co-reporter:Douglas D. Young, R. Aaron Garner, Jeffrey A. Yoder and Alexander Deiters
Chemical Communications 2009(Issue 5) pp:NaN570-570
Publication Date(Web):2008/12/02
DOI:10.1039/B819375D
A ribozyme based gene control element enabled the spatio-temporal regulation of gene function in mammalian cell culture with light.
D-Homocysteine, N-[(1,1-dimethylethoxy)carbonyl]-
L-Homocysteine, N-[(1,1-dimethylethoxy)carbonyl]-, methyl ester
L-Lysine, N2-[(1,1-dimethylethoxy)carbonyl]-N6-(1-oxo-4-pentenyl)-
L-Lysine, N6-[(3R)-1,5-didehydro-3-methyl-D-prolyl]-
Carbonochloridic acid, (1R,2S)-2-(1-methyl-1-phenylethyl)cyclohexylester
Pyridine, 2-[(tributylstannyl)methyl]-