Rigumula Wu, Aruni P. K. K. Karunanayake Mudiyanselage, Fatemeh Shafiei, Bin Zhao, Yousef Bagheri, Qikun Yu, Kathleen McAuliffe, Kewei Ren and Mingxu You

Angew Chem Int Ed, 2019, 58, 18271
DOI: 10.1002/anie.201911799

Ribozyme-Based Transfer RNA Switches for Post-transcriptional Control of Amino Acid Identity in Protein Synthesis

Athanasios Saragliadis and Jörg S. Hartig

J. Am. Chem. Soc., 2013, 135, 8222
DOI: 10.1021/ja311107p

Monitoring the expression level of coding and non-coding RNAs using a TetR inducing aptamer tag

Johannes Meitert, Ronny Aram, Katharina Wiesemann, Julia E. Weigand and Beatrix Suess

Bioorganic & Medicinal Chemistry, 2013, 21, 6233
DOI: 10.1016/j.bmc.2013.07.035

RNA‐Schalter

Alexander Wittmann and Beatrix Süß

Biologie in unserer Zeit, 2012, 42, 159
DOI: 10.1002/biuz.201210477

The Establishment of a Tobramycin-Responsive Whole-Cell Micro-Biosensor Based on an Artificial Ribozyme Switch

Zhenzhen Wang, Jiawen Cheng, Guimin Dai, Xiaoqi Sun, Xueli Yin and Yuanyuan Zhang

Life, 2023, 13, 1553
DOI: 10.3390/life13071553

Dynamic nuclear polarization of nucleic acid with endogenously bound manganese

Patricia Wenk, Monu Kaushik, Diane Richter, Marc Vogel, Beatrix Suess and Björn Corzilius

J Biomol NMR, 2015, 63, 97
DOI: 10.1007/s10858-015-9972-1

Trans-acting aptazyme for conditional gene knockdown in eukaryotic cells

Shan Zhou, Meiyi Chen, Yi Yuan, Yan Xu, Qinlin Pu, Xilei Ai, Shuai Liu, Feng Du, Xin Huang, Juan Dong, Xin Cui and Zhuo Tang

Molecular Therapy - Nucleic Acids, 2023, 33, 367
DOI: 10.1016/j.omtn.2023.07.014

Synthetic Riboswitches: From Plug and Pray toward Plug and Play

Maja Etzel and Mario Mörl

Biochemistry, 2017, 56, 1181
DOI: 10.1021/acs.biochem.6b01218

Toehold-mediated strand displacement to measure released product from self-cleaving ribozymes

Jay Bhakti Kapadia, Nawwaf Kharma, Alen Nellikulam Davis, Nicolas Kamel and Jonathan Perreault

RNA, 2022, 28, 263
DOI: 10.1261/rna.078823.121

Riboswitches, from cognition to transformation

Jingdong Xu, Junyuan Hou, Mengnan Ding, Zhiwen Wang and Tao Chen

Synthetic and Systems Biotechnology, 2023, 8, 357
DOI: 10.1016/j.synbio.2023.05.008

Conditional control of suicide gene expression in tumor cells with theophylline-responsive ribozyme

Y Zhang, J Wang, H Cheng, Y Sun, M Liu, Z Wu and R Pei

Gene Ther, 2017, 24, 84
DOI: 10.1038/gt.2016.78

Synthetic RNA–protein modules integrated with native translation mechanisms to control gene expression in malaria parasites

Suresh M. Ganesan, Alejandra Falla, Stephen J. Goldfless, Armiyaw S. Nasamu and Jacquin C. Niles

Nat Commun, 2016, 7
DOI: 10.1038/ncomms10727

Twister ribozymes as highly versatile expression platforms for artificial riboswitches

Michele Felletti, Julia Stifel, Lena A. Wurmthaler, Sophie Geiger and Jörg S. Hartig

Nat Commun, 2016, 7
DOI: 10.1038/ncomms12834

Genetically Encoded Ratiometric RNA‐Based Sensors for Quantitative Imaging of Small Molecules in Living Cells

Rigumula Wu, Aruni P. K. K. Karunanayake Mudiyanselage, Fatemeh Shafiei, Bin Zhao, Yousef Bagheri, Qikun Yu, Kathleen McAuliffe, Kewei Ren and Mingxu You

Angewandte Chemie, 2019, 131, 18439
DOI: 10.1002/ange.201911799

Aptamers, Riboswitches, and Ribozymes in S. cerevisiae Synthetic Biology

Huanhuan Ge and Mario Andrea Marchisio

Life, 2021, 11, 248
DOI: 10.3390/life11030248

Controlling Mammalian Gene Expression by Allosteric Hepatitis Delta Virus Ribozymes

Yoko Nomura, Linlin Zhou, Anh Miu and Yohei Yokobayashi

ACS Synth. Biol., 2013, 2, 684
DOI: 10.1021/sb400037a

Generation and selection of ribozyme variants with potential application in protein engineering and synthetic biology

Darko Balke, Claudia Wichert, Bettina Appel and Sabine Müller

Appl Microbiol Biotechnol, 2014, 98, 3389
DOI: 10.1007/s00253-014-5528-7

Riboswitches for Controlled Expression of Therapeutic Transgenes Delivered by Adeno-Associated Viral Vectors

Zachary J. Tickner and Michael Farzan

Pharmaceuticals, 2021, 14, 554
DOI: 10.3390/ph14060554

Tapping the potential of synthetic riboswitches: reviewing the versatility of the tetracycline aptamer

Daniel Kelvin and Beatrix Suess

RNA Biology, 2023, 20, 457
DOI: 10.1080/15476286.2023.2234732

Engineering and In Vivo Applications of Riboswitches

Zachary F. Hallberg, Yichi Su, Rebekah Z. Kitto and Ming C. Hammond

Annu. Rev. Biochem., 2017, 86, 515
DOI: 10.1146/annurev-biochem-060815-014628

Opportunities in the design and application of RNA for gene expression control

Maureen McKeague, Remus S. Wong and Christina D. Smolke

Nucleic Acids Res, 2016, 44, 2987
DOI: 10.1093/nar/gkw151

Conditional Control of Mammalian Gene Expression by Tetracycline-Dependent Hammerhead Ribozymes

Kim Beilstein, Alexander Wittmann, Manuel Grez and Beatrix Suess

ACS Synth. Biol., 2015, 4, 526
DOI: 10.1021/sb500270h

Neomycin-dependent hammerhead ribozymes for the direct control of gene expression in Saccharomyces cerevisiae

Monika Sack, Julia Stifel, Stefan G. Kreft, Elke Deuerling and Jörg S. Hartig

Methods, 2019, 161, 35
DOI: 10.1016/j.ymeth.2019.01.004

Riboswitch engineering — making the all-important second and third steps

Christian Berens and Beatrix Suess

Current Opinion in Biotechnology, 2015, 31, 10
DOI: 10.1016/j.copbio.2014.07.014

Synthetic riboswitches for external regulation of genes transferred by replication-deficient and oncolytic adenoviruses

Patrick Ketzer, Simon F. Haas, Sarah Engelhardt, Jörg S. Hartig and Dirk M. Nettelbeck

Nucleic Acids Research, 2012, 40, e167
DOI: 10.1093/nar/gks734

Ratiometric Fluorogenic RNA-Based Sensors for Imaging Live-Cell Dynamics of Small Molecules

Rigumula Wu, Aruni P.K.K. Karunanayake Mudiyanselage, Kewei Ren, Zhining Sun, Qian Tian, Bin Zhao, Yousef Bagheri, David Lutati, Puspam Keshri and Mingxu You

ACS Appl. Bio Mater., 2020, 3, 2633
DOI: 10.1021/acsabm.9b01237

Ribozyme-Based Aminoglycoside Switches of Gene Expression Engineered by Genetic Selection in S. cerevisiae

Benedikt Klauser, Janina Atanasov, Lena K. Siewert and Jörg S. Hartig

ACS Synth. Biol., 2015, 4, 516
DOI: 10.1021/sb500062p

Engineered riboswitches: Expanding researchers' toolbox with synthetic RNA regulators

Alexander Wittmann and Beatrix Suess

FEBS Letters, 2012, 586, 2076
DOI: 10.1016/j.febslet.2012.02.038

RNA Switches for Synthetic Biology

Calvin M. Schmidt and Christina D. Smolke

Cold Spring Harb Perspect Biol, 2019, 11, a032532
DOI: 10.1101/cshperspect.a032532

Aptamers in RNA-based switches of gene expression

Maike Spöring, Monika Finke and Jörg S Hartig

Current Opinion in Biotechnology, 2020, 63, 34
DOI: 10.1016/j.copbio.2019.11.008

Rational design of aptazyme riboswitches for efficient control of gene expression in mammalian cells

Guocai Zhong, Haimin Wang, Charles C Bailey, Guangping Gao and Michael Farzan

eLife, 2016, 5
DOI: 10.7554/eLife.18858

A high-throughput, quantitative cell-based screen for efficient tailoring of RNA device activity

Joe C. Liang, Andrew L. Chang, Andrew B. Kennedy and Christina D. Smolke

Nucleic Acids Research, 2012, 40, e154
DOI: 10.1093/nar/gks636

Contemporary Tools for Regulating Gene Expression in Bacteria

Ross Kent and Neil Dixon

Trends in Biotechnology, 2020, 38, 316
DOI: 10.1016/j.tibtech.2019.09.007

Riboswitching with ciprofloxacin—development and characterization of a novel RNA regulator

Florian Groher, Cristina Bofill-Bosch, Christopher Schneider, Johannes Braun, Sven Jager, Katharina Geißler, Kay Hamacher and Beatrix Suess

Nucleic Acids Research, 2018, 46, 2121
DOI: 10.1093/nar/gkx1319

Systematic Evaluation of Genetic and Environmental Factors Affecting Performance of Translational Riboswitches

R. Kent and N. Dixon

ACS Synth. Biol., 2019, 8, 884
DOI: 10.1021/acssynbio.9b00017

Highly motif- and organism-dependent effects of naturally occurring hammerhead ribozyme sequences on gene expression

Lena A. Wurmthaler, Benedikt Klauser and Jörg S. Hartig

RNA Biology, 2018, 15, 231
DOI: 10.1080/15476286.2017.1397870

An engineered small RNA-mediated genetic switch based on a ribozyme expression platform

Benedikt Klauser and Jörg S. Hartig

Nucleic Acids Research, 2013, 41, 5542
DOI: 10.1093/nar/gkt253

A small, portable RNA device for the control of exon skipping in mammalian cells

Marc Vogel, Julia E Weigand, Britta Kluge, Manuel Grez and Beatrix Suess

Nucleic Acids Research, 2018, 46, e48
DOI: 10.1093/nar/gky062

Expanding the toolbox of synthetic riboswitches with guanine-dependent aptazymes

Julia Stifel, Maike Spöring and Jörg Steffen Hartig

Synthetic Biology, 2019, 4
DOI: 10.1093/synbio/ysy022

Metabolite-binding ribozymes

Arati Ramesh and Wade C. Winkler

Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, 2014, 1839, 989
DOI: 10.1016/j.bbagrm.2014.04.015

Recent advances in developing and applying biosensors for synthetic biology

Krysten A Jones, Julia Zinkus-Boltz and Bryan C Dickinson

Nano Futures, 2019, 3, 042002
DOI: 10.1088/2399-1984/ab4b78

Massively parallel RNA device engineering in mammalian cells with RNA-Seq

Joy S. Xiang, Matias Kaplan, Peter Dykstra, Michaela Hinks, Maureen McKeague and Christina D. Smolke

Nat Commun, 2019, 10
DOI: 10.1038/s41467-019-12334-y

High-throughput cellular RNA device engineering

Brent Townshend, Andrew B Kennedy, Joy S Xiang and Christina D Smolke

Nat Methods, 2015, 12, 989
DOI: 10.1038/nmeth.3486

Engineering modular ‘ON’ RNA switches using biological components

Pablo Ceres, Jeremiah J. Trausch and Robert T. Batey

Nucleic Acids Research, 2013, 41, 10449
DOI: 10.1093/nar/gkt787

Ribo-attenuators: novel elements for reliable and modular riboswitch engineering

Thomas Folliard, Barbara Mertins, Harrison Steel, Thomas P. Prescott, Thomas Newport, Christopher W. Jones, George Wadhams, Travis Bayer, Judith P. Armitage, Antonis Papachristodoulou and Lynn J. Rothschild

Sci Rep, 2017, 7
DOI: 10.1038/s41598-017-04093-x

Riboswitch-mediated Attenuation of Transgene Cytotoxicity Increases Adeno-associated Virus Vector Yields in HEK-293 Cells

Benjamin Strobel, Benedikt Klauser, Jörg S Hartig, Thorsten Lamla, Florian Gantner and Sebastian Kreuz

Molecular Therapy, 2015, 23, 1582
DOI: 10.1038/mt.2015.123

Catalytic RNA, ribozyme, and its applications in synthetic biology

Soyeon V. Park, Jae-Seong Yang, Hyesung Jo, Byunghwa Kang, Seung Soo Oh and Gyoo Yeol Jung

Biotechnology Advances, 2019, 37, 107452
DOI: 10.1016/j.biotechadv.2019.107452

Artificial riboswitches for gene expression and replication control of DNA and RNA viruses

Patrick Ketzer, Johanna K. Kaufmann, Sarah Engelhardt, Sascha Bossow, Christof von Kalle, Jörg S. Hartig, Guy Ungerechts and Dirk M. Nettelbeck

Proc. Natl. Acad. Sci. U.S.A., 2014, 111
DOI: 10.1073/pnas.1318563111

Engineering of ribozyme-based riboswitches for mammalian cells

Markus Wieland, David Ausländer and Martin Fussenegger

Methods, 2012, 56, 351
DOI: 10.1016/j.ymeth.2012.01.005

Synthetic riboswitches — A tool comes of age

Florian Groher and Beatrix Suess

Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, 2014, 1839, 964
DOI: 10.1016/j.bbagrm.2014.05.005

Small synthetic molecule-stabilized RNA pseudoknot as an activator for –1 ribosomal frameshifting

Saki Matsumoto, Neva Caliskan, Marina V Rodnina, Asako Murata and Kazuhiko Nakatani

Nucleic Acids Research, 2018, 46, 8079
DOI: 10.1093/nar/gky689

Ligand‐dependent ribozymes

Michele Felletti and Jörg S. Hartig

WIREs RNA, 2017, 8
DOI: 10.1002/wrna.1395

High-throughput identification of synthetic riboswitches by barcode-free amplicon-sequencing in human cells

Benjamin Strobel, Maike Spöring, Holger Klein, Dragica Blazevic, Werner Rust, Sergi Sayols, Jörg S. Hartig and Sebastian Kreuz

Nat Commun, 2020, 11
DOI: 10.1038/s41467-020-14491-x

A general design strategy for protein-responsive riboswitches in mammalian cells

Simon Ausländer, Pascal Stücheli, Charlotte Rehm, David Ausländer, Jörg S Hartig and Martin Fussenegger

Nat Methods, 2014, 11, 1154
DOI: 10.1038/nmeth.3136

Engineering a ribozyme cleavage-induced split fluorescent aptamer complementation assay

Simon Ausländer, David Fuchs, Samuel Hürlemann, David Ausländer and Martin Fussenegger

Nucleic Acids Res, 2016, 44, e94
DOI: 10.1093/nar/gkw117