Synthetic biology: applying biological circuits beyond novel therapies

Integrative Biology (United Kingdom)

Volumn 8, Issue 4, 2016, Pages 409-430

  Dobrin, Anton ^a   Saxena, Pratik ^a   Fussenegger, Martin ^a,b  

^a ETH ZURICH   (Switzerland)

^b UNIVERSITY OF BASEL   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL MODEL; CELL SCREENING; GENOMICS; HUMAN; INFORMATION SCIENCE; KINETICS; LIGHT; NONHUMAN; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; RADIOFREQUENCY RADIATION; REVIEW; SYNTHETIC BIOLOGY; ANIMAL; CHEMISTRY; GENE EXPRESSION REGULATION; GENE REGULATORY NETWORK; GENETIC ENGINEERING; GENOME; MOUSE; OSCILLOMETRY; PROCEDURES; RNA SPLICING; SIGNAL TRANSDUCTION;

DNA; LIGAND; RNA;

ANIMALS; DNA; GENE EXPRESSION REGULATION; GENE REGULATORY NETWORKS; GENETIC ENGINEERING; GENOME; HUMANS; KINETICS; LIGANDS; LIGHT; MICE; OSCILLOMETRY; RNA; RNA SPLICING; SIGNAL TRANSDUCTION; SYNTHETIC BIOLOGY;

EID: 85015140020     PISSN: 17579694     EISSN: 17579708     Source Type: Journal    
DOI: 10.1039/c5ib00263j     Document Type: Review

References (134)

1. D. A. Malyshev F. E. Romesberg The Expanded Genetic Alphabet Angew. Chem., Int. Ed. 2015 11930 11944
2. H. Mou Z. Kennedy D. G. Anderson H. Yin W. Xue Precision cancer mouse models through genome editing with CRISPR-Cas9 Genome Med. 2015 7 53
3. P. Cahan H. Li S. A. Morris E. Lummertz da Rocha G. Q. Daley J. J. Collins CellNet: network biology applied to stem cell engineering Cell 2014 158 4 903 915
4. C. J. Bashor A. A. Horwitz S. G. Peisajovich W. A. Lim Rewiring cells: synthetic biology as a tool to interrogate the organizational principles of living systems Annu. Rev. Biophys. 2010 39 515 537
5. D. G. Gibson J. C. Venter Synthetic biology: Construction of a yeast chromosome Nature 2014 509 168 169
6. M. K. Jensen J. D. Keasling Recent applications of synthetic biology tools for yeast metabolic engineering FEMS Yeast Res. 2014 10.1111/1567-1364.12185
7. R. Kojima D. Aubel M. Fussenegger Novel theranostic agents for next-generation personalized medicine: small molecules, nanoparticles, and engineered mammalian cells Curr. Opin. Chem. Biol. 2015 28 29 38
8. M. Sadelain CAR therapy: the CD19 paradigm J. Clin. Invest. 2015 125 9 3392 3400
9. V. Haellman M. Fussenegger Synthetic biology - toward therapeutic solutions J. Mol. Biol. 2015 10.1016/j.jmb.2015.08.020
10. D. E. Cameron C. J. Bashor J. J. Collins A brief history of synthetic biology Nat. Rev. Microbiol. 2014 12 381 390
11. D. Chakravarti W. W. Wong Synthetic biology in cell-based cancer immunotherapy Trends Biotechnol. 2015 33 8 449 461
12. G. Orive E. Santos D. Poncelet R. M. Hernandez J. L. Pedraz L. U. Wahlberg et al., Cell encapsulation: technical and clinical advances Trends Pharmacol. Sci. 2015 36 8 537 546
13. W. Bacchus M. Fussenegger The use of light for engineered control and reprogramming of cellular functions Curr. Opin. Biotechnol. 2012 23 5 695 702
14. M. Gossen H. Bujard Tight control of gene expression in mammalian cells by tetracycline-responsive promoters Proc. Natl. Acad. Sci. U. S. A. 1992 89 5547 5551
15. K. Müller R. Engesser S. Metzger S. Schulz M. M. Kämpf M. Busacker et al., A red/far-red light-responsive bi-stable toggle switch to control gene expression in mammalian cells Nucleic Acids Res. 2013 41 e77
16. D. B. Forger C. S. Peskin A detailed predictive model of the mammalian circadian clock Proc. Natl. Acad. Sci. U. S. A. 2003 100 14806 14811
17. Q. Huang C. Gong J. Li Z. Zhuo Y. Chen J. Wang et al., Distance and helical phase dependence of synergistic transcription activation in cis -regulatory module PLoS One 2012 7 e31198
18. N. A. Hathaway O. Bell C. Hodges E. L. Miller D. S. Neel G. R. Crabtree Dynamics and memory of heterochromatin in living cells Cell 2012 149 1447 1460
19. F. Farzadfard S. D. Perli T. K. Lu Tunable and Multifunctional Eukaryotic Transcription Factors Based on CRISPR/Cas ACS Synth. Biol. 2013 604 613
20. D. Pearce W. Matsui J. N. Miner K. R. Yamamoto Glucocorticoid receptor transcriptional activity determined by spacing of receptor and nonreceptor DNA sites J. Biol. Chem. 1998 273 46 30081 30085
21. J. R. Nevins Transcriptional activation by viral regulatory proteins Trends Biochem. Sci. 1991 16 435 439
22. S. Konermann M. D. Brigham A. E. Trevino J. Joung O. O. Abudayyeh C. Barcena et al., Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex Nature 2015 583 588
23. S. J. Culler K. G. Hoff C. D. Smolke Reprogramming cellular behavior with RNA controllers responsive to endogenous proteins Science 2010 330 1251 1255
24. M. R. Schlabach J. K. Hu M. Li S. J. Elledge Synthetic design of strong promoters Proc. Natl. Acad. Sci. U. S. A. 2010 107 2538 2543
25. B. C. Heng D. Aubel M. Fussenegger An overview of the diverse roles of G-protein coupled receptors (GPCRs) in the pathophysiology of various human diseases Biotechnol. Adv. 2013 31 1676 1694
26. M. W. Covert T. H. Leung J. E. Gaston D. Baltimore Achieving stability of lipopolysaccharide-induced NF-kappaB activation Science 2005 309 1854 1857
27. R. D. Airan K. R. Thompson L. E. Fenno H. Bernstein K. Deisseroth Temporally precise in vivo control of intracellular signalling Nature 2009 458 1025 1029
28. R. J. Bloom S. M. Winkler C. D. Smolke A quantitative framework for the forward design of synthetic miRNA circuits Nat. Methods 2014 11 1147 1153
29. G. Barnea W. Strapps G. Herrada Y. Berman J. Ong B. Kloss et al., The genetic design of signaling cascades to record receptor activation Proc. Natl. Acad. Sci. U. S. A. 2008 105 64 69
30. B. P. Kramer A. U. Viretta M. Daoud-El-Baba D. Aubel W. Weber M. Fussenegger An engineered epigenetic transgene switch in mammalian cells Nat. Biotechnol. 2004 22 867 870
31. W. Weber B. P. Kramer M. Fussenegger A genetic time-delay circuitry in mammalian cells Biotechnol. Bioeng. 2007 98 894 902
32. M. Tigges T. T Marquez-Lago J. Stelling M. Fussenegger A tunable synthetic mammalian oscillator Nature 2009 457 309 312
33. M. Tigges N. Dénervaud D. Greber J. Stelling M. Fussenegger A synthetic low-frequency mammalian oscillator Nucleic Acids Res. 2010 38 2702 2711
34. M. Leisner L. Bleris J. Lohmueller Z. Xie Y. Benenson Rationally designed logic integration of regulatory signals in mammalian cells Nat. Nanotechnol. 2010 5 666 670
35. D. Greber M. Fussenegger An engineered mammalian band-pass network Nucleic Acids Res. 2010 38 e174
36. W. Bacchus M. Lang M. D El-Baba W. Weber J. Stelling M. Fussenegger Synthetic two-way communication between mammalian cells Nat. Biotechnol. 2012 30 991 996
37. W. Weber J. Stelling M. Rimann B. Keller M. Daoud-El Baba C. C. Weber et al., A synthetic time-delay circuit in mammalian cells and mice Proc. Natl. Acad. Sci. U. S. A. 2007 104 2643 2648
38. B. P. Kramer M. Fussenegger Hysteresis in a synthetic mammalian gene network Proc. Natl. Acad. Sci. U. S. A. 2005 102 9517 9522
39. I. A. Swinburne D. G. Miguez D. Landgraf P. A. Silver Intron length increases oscillatory periods of gene expression in animal cells Genes Dev. 2008 22 2342 2346
40. C. S. Heffner C. Herbert Pratt R. P. Babiuk Y. Sharma S. F. Rockwood L. R. Donahue et al., Supporting conditional mouse mutagenesis with a comprehensive cre characterization resource Nat. Commun. 2012 3 1218
41. E. P. Consortium E. Birney J. A. Stamatoyannopoulos A. Dutta R. Guigo T. R. Gingeras et al., Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project Nature 2007 447 7146 799 816
42. B. D. Brown B. Gentner A. Cantore S. Colleoni M. Amendola A. Zingale et al., Endogenous microRNA can be broadly exploited to regulate transgene expression according to tissue, lineage and differentiation state Nat. Biotechnol. 2007 25 1457 1467
43. N. Saki S. Abroun M. Soleimani S. Hajizamani M. Shahjahani R. E. Kast et al., Involvement of MicroRNA in T-Cell Differentiation and Malignancy Int. J. Hematol. Oncol. Stem Cell Res. 2015 9 1 33 49
44. H. H. Pua K. M. Ansel MicroRNA regulation of allergic inflammation and asthma Curr. Opin. Immunol. 2015 36 101 108
45. Y. He J. Lin D. Kong M. Huang C. Xu T. K. Kim et al., Current State of Circulating MicroRNAs as Cancer Biomarkers Clin. Chem. 2015 61 9 1138 1155
46. S. Kashida T. Inoue H. Saito Three-dimensionally designed protein-responsive RNA devices for cell signaling regulation Nucleic Acids Res. 2012 40 9369 9378
47. C. L. Beisel Y. Y. Chen S. J. Culler K. G. Hoff C. D. Smolke Design of small molecule-responsive microRNAs based on structural requirements for Drosha processing Nucleic Acids Res. 2011 39 2981 2994
48. M. C. Wehr S. Galinski M. J. Rossner Monitoring G protein-coupled receptor activation using the protein fragment complementation technique split TEV Methods Mol. Biol. 2015 1272 107 118
49. C.-K. Zhao Q. Yin S.-Y. Li A high-throughput screening system for G-protein-coupled receptors using β-lactamase enzyme complementation technology Acta Pharmacol. Sin. 2010 31 1618 1624
50. T. Kim M. Folcher G. Charpin-El Hamri M. Fussenegger A synthetic cGMP-sensitive gene switch providing Viagra(®)-controlled gene expression in mammalian cells and mice Metab. Eng. 2015 29 169 179
51. K. Rössger G. Charpin-El Hamri M. Fussenegger Reward-based hypertension control by a synthetic brain-dopamine interface Proc. Natl. Acad. Sci. U. S. A. 2013 110 18150 18155
52. D. Ausländer B. Eggerschwiler C. Kemmer B. Geering S. Ausländer M. Fussenegger A designer cell-based histamine-specific human allergy profiler Nat. Commun. 2014 5 4408
53. WHO. CDR-TB: Extensively drug-resistant tuberculosis 2008 [cited 2015 09/21], available from: http://www.who.int/tb/challenges/mdr/xdr/en/
54. W. Weber R. Schoenmakers B. Keller M. Gitzinger T. Grau M. Daoud-El Baba et al., A synthetic mammalian gene circuit reveals antituberculosis compounds Proc. Natl. Acad. Sci. U. S. A. 2008 105 9994 9998
55. M. Wieland M. Müller A. Kyburz P. Heissig S. Wekenmann F. Stolz et al., Engineered UV-A light-responsive gene expression system for measuring sun cream efficacy in mammalian cell culture J. Biotechnol. 2014 189 150 153
56. J. Hayles P. Nurse A review of mitosis in the fission yeast Schizosaccharomyces pombe Exp. Cell Res. 1989 184 2 273 286
57. Consortium IMP, International Mouse Phenotyping Consortium 2015, available from: https://www.mousephenotype.org/
58. M. Gossen S. Freundlieb G. Bender G. Müller W. Hillen H. Bujard Transcriptional activation by tetracyclines in mammalian cells Science 1995 268 1766 1769
59. N. Moullan L. Mouchiroud X. Wang D. Ryu G. Williams Evan A. Mottis et al., Tetracyclines Disturb Mitochondrial Function across Eukaryotic Models: A Call for Caution in Biomedical Research Cell Rep. 2015 10 1681 1691
60. F. Lescroart S. Chabab X. Lin S. Rulands C. Paulissen A. Rodolosse et al., Early lineage restriction in temporally distinct populations of Mesp1 progenitors during mammalian heart development Nat. Cell Biol. 2014 16 9 829 840
61. M. Karlsson W. Weber M. Fussenegger De novo design and construction of an inducible gene expression system in mammalian cells Methods Enzymol. 2011 497 239 253
62. F. Jacob J. Monod On the Regulation of Gene Activity Cold Spring Harbor Symp. Quant. Biol. 1961 26 193 211
63. R. F. Ryan D. C. Schultz K. Ayyanathan P. B. Singh J. R. Friedman W. J. Fredericks et al., KAP-1 Corepressor Protein Interacts and Colocalizes with Heterochromatic and Euchromatic HP1 Proteins: a Potential Role for Kruppel-Associated Box-Zinc Finger Proteins in Heterochromatin-Mediated Gene Silencing Mol. Cell. Biol. 1999 19 4366 4378
64. M. Gitzinger C. Kemmer D. A. Fluri M. D El-Baba W. Weber M. Fussenegger The food additive vanillic acid controls transgene expression in mammalian cells and mice Nucleic Acids Res. 2012 40 e37
65. H. Wang H. Ye M. Xie M. Daoud El-Baba M. Fussenegger Cosmetics-triggered percutaneous remote control of transgene expression in mice Nucleic Acids Res. 2015 43 e91
66. S. Raman N. Taylor N. Genuth S. Fields G. M. Church Engineering allostery Trends Genet. 2014 30 521 528
67. Y. Y. Chen M. C. Jensen C. D. Smolke Genetic control of mammalian T-cell proliferation with synthetic RNA regulatory systems Proc. Natl. Acad. Sci. U. S. A. 2010 107 8531 8536
68. K. Y. Wei C. D. Smolke Engineering dynamic cell cycle control with synthetic small molecule-responsive RNA devices J. Biol. Eng. 2015 9 21
69. M. Wieland D. Ausländer M. Fussenegger Engineering of ribozyme-based riboswitches for mammalian cells Methods 2012 56 351 357
70. M. C. Wehr R. Laage U. Bolz T. M. Fischer S. Grünewald S. Scheek et al., Monitoring regulated protein-protein interactions using split TEV Nat. Methods 2006 3 985 993
71. R. R. Martel J. Klicius S. Galet Inhibition of the immune response by rapamycin, a new antifungal antibiotic Can. J. Physiol. Pharmacol. 1977 55 1 48 51
72. T. Clackson W. Yang L. W. Rozamus M. Hatada J. F. Amara C. T. Rollins et al., Redesigning an FKBP-ligand interface to generate chemical dimerizers with novel specificity Proc. Natl. Acad. Sci. U. S. A. 1998 95 10437 10442
73. K. C. Straathof M. A. Pulè P. Yotnda G. Dotti E. F. Vanin M. K. Brenner et al., An inducible caspase 9 safety switch for T-cell therapy Blood 2005 105 4247 4254
74. A. Di Stasi S.-K. Tey G. Dotti Y. Fujita A. Kennedy-Nasser C. Martinez et al., Inducible Apoptosis as a Safety Switch for Adoptive Cell Therapy N. Engl. J. Med. 2011 365 1673 1683
75. C. Y. Wu K. T. Roybal E. M. Puchner J. Onuffer W. A. Lim Remote control of therapeutic T cells through a small molecule-gated chimeric receptor Science 2015 10.1126/science.aab4077
76. S. Dong S. C. Rogan B. L. Roth Directed molecular evolution of DREADDs: a generic approach to creating next-generation RASSLs Nat. Protoc. 2010 5 561 573
77. J.-M. Kim J. Hwa P. Garriga P. J. Reeves U. L. RajBhandary H. G. Khorana Light-driven activation of beta 2-adrenergic receptor signaling by a chimeric rhodopsin containing the beta 2-adrenergic receptor cytoplasmic loops Biochemistry 2005 44 2284 2292
78. T. Bruegmann D. Malan M. Hesse T. Beiert C. J. Fuegemann B. K. Fleischmann et al., Optogenetic control of heart muscle in vitro and in vivo Nat. Methods 2010 7 11 897 900
79. H. Ye M. Daoud-El Baba R.-W. Peng M. Fussenegger A synthetic optogenetic transcription device enhances blood-glucose homeostasis in mice Science 2011 332 1565 1568
80. M. Folcher S. Oesterle K. Zwicky T. Thekkottil J. Heymoz M. Hohmann et al., Mind-controlled transgene expression by a wireless-powered optogenetic designer cell implant Nat. Commun. 2014 5 5392
81. D. Chen E. S. Gibson M. J. Kennedy A light-triggered protein secretion system J. Cell Biol. 2013 201 631 640
82. X. X. Zhou H. K. Chung A. J. Lam M. Z. Lin Optical control of protein activity by fluorescent protein domains Science 2012 338 810 814
83. Y. I. Wu D. Frey O. I. Lungu A. Jaehrig I. Schlichting B. Kuhlman et al., A genetically encoded photoactivatable Rac controls the motility of living cells Nature 2009 461 104 108
84. M. Yazawa A. M. Sadaghiani B. Hsueh R. E. Dolmetsch Induction of protein-protein interactions in live cells using light Nat. Biotechnol. 2009 27 941 945
85. M. J. Kennedy R. M. Hughes L. A. Peteya J. W. Schwartz M. D. Ehlers C. L. Tucker Rapid blue-light-mediated induction of protein interactions in living cells Nat. Methods 2010 7 973 975
86. D. Strickland Y. Lin E. Wagner C. M. Hope J. Zayner C. Antoniou et al., TULIPs: tunable, light-controlled interacting protein tags for cell biology Nat. Methods 2012 9 379 384
87. S. A. Stanley J. E. Gagner S. Damanpour M. Yoshida J. S. Dordick J. M. Friedman Radio-wave heating of iron oxide nanoparticles can regulate plasma glucose in mice Science 2012 336 604 608
88. I. B. Hilton A. M. D'Ippolito C. M. Vockley P. I. Thakore G. E. Crawford T. E. Reddy et al., Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers Nat. Biotechnol. 2015 33 510 517
89. S. Konermann M. D. Brigham A. E. Trevino P. D. Hsu M. Heidenreich L. Cong et al., Optical control of mammalian endogenous transcription and epigenetic states Nature 2013 500 472 476
90. A. S. Khalil T. K. Lu C. J. Bashor C. L. Ramirez N. C. Pyenson J. K. Joung et al., A synthetic biology framework for programming eukaryotic transcription functions Cell 2012 150 3 647 658
91. J. Hirrlinger A. Scheller P. G. Hirrlinger B. Kellert W. Tang M. C. Wehr et al., Split-cre complementation indicates coincident activity of different genes in vivo PLoS One 2009 4 e4286
92. J. Livet T. A. Weissman H. Kang R. W. Draft J. Lu R. A. Bennis et al., Transgenic strategies for combinatorial expression of fluorescent proteins in the nervous system Nature 2007 450 7166 56 62
93. L. Berrade Y. Kwon J. A. Camarero Photomodulation of Protein Trans-Splicing Through Backbone Photocaging of the DnaE Split Intein ChemBioChem 2010 11 1368 1372
94. H. D. Mootz E. S. Blum A. B. Tyszkiewicz T. W. Muir Conditional protein splicing: a new tool to control protein structure and function in vitro and in vivo J. Am. Chem. Soc. 2003 125 10561 10569
95. K. M. Davis V. Pattanayak D. B. Thompson J. A. Zuris D. R. Liu Small molecule-triggered Cas9 protein with improved genome-editing specificity Nat. Chem. Biol. 2015 11 316 318
96. S. Slomovic J. J. Collins DNA sense-and-respond protein modules for mammalian cells Nat. Methods 2015 1085 1090
97. L. A. Banaszynski L.-C. Chen L. A. Maynard-Smith A. G. L. Ooi T. J. Wandless A rapid, reversible, and tunable method to regulate protein function in living cells using synthetic small molecules Cell 2006 126 995 1004
98. L. A. Banaszynski M. A. Sellmyer C. H. Contag T. J. Wandless S. H. Thorne Chemical control of protein stability and function in living mice Nat. Med. 2008 14 1123 1127
99. K. M. Bonger L.-C. Chen C. W. Liu T. J. Wandless Small-molecule displacement of a cryptic degron causes conditional protein degradation Nat. Chem. Biol. 2011 7 531 537
100. D. Balboa J. Weltner S. Eurola R. Trokovic K. Wartiovaara T. Otonkoski Conditionally Stabilized dCas9 Activator for Controlling Gene Expression in Human Cell Reprogramming and Differentiation Stem Cell Rep. 2015 5 448 459
101. D. Niopek D. Benzinger J. Roensch T. Draebing P. Wehler R. Eils et al., Engineering light-inducible nuclear localization signals for precise spatiotemporal control of protein dynamics in living cells Nat. Commun. 2014 5 4404
102. H. M. Beyer S. Juillot K. Herbst S. L. Samodelov K. Müller W. W. Schamel et al., Red Light-Regulated Reversible Nuclear Localization of Proteins in Mammalian Cells and Zebrafish ACS Synth. Biol. 2015 951 958
103. A. Nagy L. Mar G. Watts Creation and use of a cre recombinase transgenic database Methods Mol. Biol. 2009 530 365 378
104. C. Kemmer D. A. Fluri U. Witschi A. Passeraub A. Gutzwiller M. Fussenegger A designer network coordinating bovine artificial insemination by ovulation-triggered release of implanted sperms J. Controlled Release 2011 150 23 29
105. A. E. Jerse H. Wu M. Packiam R. A. Vonck A. A. Begum L. E. Garvin Estradiol-Treated Female Mice as Surrogate Hosts for Neisseria gonorrhoeae Genital Tract Infections Front. Microbiol. 2011 2 107
106. A. G. Teepe L. B. Allen R. J. Wordinger E. F. Harris Effect of the estrous cycle on susceptibility of female mice to intravaginal inoculation of herpes simplex virus type 2 (HSV-2) Antiviral Res. 1990 14 4-5 227 235
107. H. Ye G. Charpin-El Hamri K. Zwicky M. Christen M. Folcher M. Fussenegger Pharmaceutically controlled designer circuit for the treatment of the metabolic syndrome Proc. Natl. Acad. Sci. U. S. A. 2013 110 141 146
108. C. Kemmer M. Gitzinger M. Daoud-El Baba V. Djonov J. Stelling M. Fussenegger Self-sufficient control of urate homeostasis in mice by a synthetic circuit Nat. Biotechnol. 2010 28 355 360
109. K. Rössger G. Charpin-El-Hamri M. Fussenegger A closed-loop synthetic gene circuit for the treatment of diet-induced obesity in mice Nat. Commun. 2013 4 2825
110. L. Nissim R. H. Bar-Ziv A tunable dual-promoter integrator for targeting of cancer cells Mol. Syst. Biol. 2010 6 444
111. Y. Lin C. H. Sohn C. K. Dalal L. Cai M. B. Elowitz Combinatorial gene regulation by modulation of relative pulse timing Nature 2015 527 7576 54 58
112. P. Wang T. Chen K. Sakurai B.-X. Han Z. He G. Feng et al., Intersectional Cre driver lines generated using split-intein mediated split-Cre reconstitution Sci. Rep. 2012 2 497
113. D. F. Selgrade J. J. Lohmueller F. Lienert P. A. Silver Protein scaffold-activated protein trans-splicing in mammalian cells J. Am. Chem. Soc. 2013 135 7713 7719
114. S. Ausländer P. Stücheli C. Rehm D. Ausländer J. S. Hartig M. Fussenegger A general design strategy for protein-responsive riboswitches in mammalian cells Nat. Methods 2014 11 1154 1160
115. M. Xie H. Ye G. C. Hamri M. Fussenegger Antagonistic control of a dual-input mammalian gene switch by food additives Nucleic Acids Res. 2014 42 e116
116. A. Colin M. Faideau N. Dufour G. Auregan R. Hassig T. Andrieu et al., Engineered lentiviral vector targeting astrocytes in vivo Glia 2009 57 667 679
117. A. Annoni B. D. Brown A. Cantore L. S. Sergi L. Naldini M.-G. Roncarolo In vivo delivery of a microRNA-regulated transgene induces antigen-specific regulatory T cells and promotes immunologic tolerance Blood 2009 114 5152 5161
118. L. Wroblewska T. Kitada K. Endo V. Siciliano B. Stillo H. Saito et al., Mammalian synthetic circuits with RNA binding proteins for RNA-only delivery Nat. Biotechnol. 2015 33 839 841
119. M. N. Win C. D. Smolke Higher-order cellular information processing with synthetic RNA devices Science 2008 322 456 460
120. Z. Xie L. Wroblewska L. Prochazka R. Weiss Y. Benenson Multi-input RNAi-based logic circuit for identification of specific cancer cells Science 2011 333 1307 1311
121. T. L. Deans C. R. Cantor J. J. Collins A tunable genetic switch based on RNAi and repressor proteins for regulating gene expression in mammalian cells Cell 2007 130 363 372
122. N. Lapique Y. Benenson Digital switching in a biosensor circuit via programmable timing of gene availability Nat. Chem. Biol. 2014 10 1020 1027
123. K. Müller R. Engesser S. Schulz T. Steinberg P. Tomakidi C. C. Weber et al., Multi-chromatic control of mammalian gene expression and signaling Nucleic Acids Res. 2013 41 e124
124. K. Muller R. Engesser J. Timmer M. D. Zurbriggen W. Weber Orthogonal optogenetic triple-gene control in Mammalian cells ACS Synth. Biol. 2014 3 11 796 801
125. H. J. Snippert L. G van der Flier T. Sato J. H van Es M. van den Born C. Kroon-Veenboer et al., Intestinal crypt homeostasis results from neutral competition between symmetrically dividing Lgr5 stem cells Cell 2010 143 1 134 144
126. C. M. Watson P. A. Trainor T. Radziewic G. J. Pelka S. X. Zhou M. Parameswaran et al., Application of lacZ transgenic mice to cell lineage studies Methods Mol. Biol. 2008 461 149 164
127. M. Müller S. Ausländer D. Ausländer C. Kemmer M. Fussenegger A novel reporter system for bacterial and mammalian cells based on the non-ribosomal peptide indigoidine Metab. Eng. 2012 14 325 335
128. D. R. Burrill M. C. Inniss P. M. Boyle P. A. Silver Synthetic memory circuits for tracking human cell fate Genes Dev. 2012 26 1486 1497
129. W. Weber M. Daoud-El Baba M. Fussenegger Synthetic ecosystems based on airborne inter- and intrakingdom communication Proc. Natl. Acad. Sci. U. S. A. 2007 104 10435 10440
130. L. Schukur B. Geering M. Fussenegger Human whole-blood culture system for ex vivo characterization of designer-cell function Biotechnol. Bioeng. 2015 10.1002/bit.25828
131. L. M. Ballou R. Z. Lin Rapamycin and mTOR kinase inhibitors J. Chem. Biol. 2008 1 1-4 27 36
132. H. Sternberg Samuel A. Doudna Jennifer Expanding the Biologist's Toolkit with CRISPR-Cas9 Mol. Cell. 2015 58 568 574
133. P. Marliere The farther, the safer: a manifesto for securely navigating synthetic species away from the old living world Syst. Synth. Biol. 2009 3 77 84
134. R. Highfield, J. Craig Venter sequenced the human genome. Now he wants to convert DNA into a digital signal: Conde Nast UK, 2013 [cited 2015 20/09], available from: http://www.wired.co.uk/magazine/archive/2013/11/features/j-craig-venter-interview