Engineering of synthetic intercellular communication systems

Metabolic Engineering

Volumn 16, Issue 1, 2013, Pages 33-41

  Bacchus, William ^a   Fussenegger, Martin ^a,b  

^a ETH ZURICH   (Switzerland)

^b UNIVERSITY OF BASEL   (Switzerland)

Author keywords

Engineered gene control circuits; Intercellular communication; Multicellular consortia; Synthetic biology

Indexed keywords

CLINICAL APPLICATION; DESIGN AND CONSTRUCTION; GENE CONTROL; GENETIC CONTROL; INTERCELLULAR COMMUNICATIONS; MAMMALIAN CELLS; MULTICELLULAR CONSORTIA; NEW DEVICES; NOVEL FUNCTIONS; PLUG-AND-PLAY; SINGLE CELLS; SPECIALIZED CELLS; SYNTHETIC BIOLOGY; TRANSGENE EXPRESSION;

CELLS; COMMUNICATION SYSTEMS; CYTOLOGY; NETWORKS (CIRCUITS);

CELL ENGINEERING;

ARABIDOPSIS; ASPERGILLUS NIDULANS; BACTERIAL CELL; BIOENGINEERING; CELL COMMUNICATION; CELL ENGINEERING; CELL POPULATION; ESCHERICHIA COLI; EUKARYOTE; FUNGAL CELL; GENE EXPRESSION; NONHUMAN; PRIORITY JOURNAL; PSEUDOMONAS AERUGINOSA; QUORUM SENSING; SHORT SURVEY; VIBRIO FISCHERI; YERSINIA PSEUDOTUBERCULOSIS;

ANIMALS; CELL COMMUNICATION; HUMANS; METABOLIC ENGINEERING;

MAMMALIA;

EID: 84872163712     PISSN: 10967176     EISSN: 10967184     Source Type: Journal    
DOI: 10.1016/j.ymben.2012.12.001     Document Type: Short Survey

References (77)

1. Anderson J.C., Clarke E.J., Arkin A.P., Voigt C.A. Environmentally controlled invasion of cancer cells by engineered bacteria. J. Mol. Biol. 2006, 355:619-627.
2. Atkinson M.R., Savageau M.A., Myers J.T., Ninfa A.J. Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli. Cell 2003, 113:597-607.
3. Aubel D., Morris R., Lennon B., Rimann M., Kaufmann H., Folcher M., Bailey J.E., Thompson C.J., Fussenegger M. Design of a novel mammalian screening system for the detection of bioavailable, non-cytotoxic streptogramin antibiotics. J Antibiot (Tokyo) 2001, 54:44-55.
4. Auslander S., Auslander D., Muller M., Wieland M., Fussenegger M. Programmable single-cell mammalian biocomputers. Nature 2012, 487:123-127.
5. Bacchus W., Lang M., Daoud-El Baba M., Weber W., Stelling J., Fussenegger M. Synthetic two-way communication between mammalian cells. Nat. Biotechnol. 2012, 30:991-996.
6. Balagadde F.K., Song H., Ozaki J., Collins C.H., Barnet M., Arnold F.H., Quake S.R., You L. A synthetic Escherichia coli predator-prey ecosystem. Mol. Syst. Biol. 2008, 4:187.
7. Bassler B.L. How bacteria talk to each other: regulation of gene expression by quorum sensing. Curr. Opin. Microbiol. 1999, 2:582-587.
8. Bassler B.L., Losick R. Bacterially speaking. Cell 2006, 125:237-246.
9. Basu S., Gerchman Y., Collins C.H., Arnold F.H., Weiss R. A synthetic multicellular system for programmed pattern formation. Nature 2005, 434:1130-1134.
10. Basu S., Mehreja R., Thiberge S., Chen M.T., Weiss R. Spatiotemporal control of gene expression with pulse-generating networks. Proc. Nat. Acad. Sci. U.S.A. 2004, 101:6355-6360.
11. Blair S.S. Wing vein patterning in drosophila and the analysis of intercellular signaling. Annu. Rev. Cell Dev. Biol. 2007, 23:293-319.
12. Brenner K., Karig D.K., Weiss R., Arnold F.H. Engineered bidirectional communication mediates a consensus in a microbial biofilm consortium. Proc. Nat. Acad. Sci. U.S.A. 2007, 104:17300-17304.
13. Brenner K., You L., Arnold F.H. Engineering microbial consortia: a new frontier in synthetic biology. Trends. Biotechnol. 2008, 26:483-489.
14. Camara M., Williams P., Hardman A. Controlling infection by tuning in and turning down the volume of bacterial small-talk. Lancet Infect. Dis 2002, 2:667-676.
15. Chen M.T., Weiss R. Artificial cell-cell communication in yeast Saccharomyces cerevisiae using signaling elements from Arabidopsis thaliana. Nat. Biotechnol. 2005, 23:1551-1555.
16. Danino T., Mondragon-Palomino O., Tsimring L., Hasty J. A synchronized quorum of genetic clocks. Nature 2010, 463:326-330.
17. Duan F., March J.C. Engineered bacterial communication prevents Vibrio cholerae virulence in an infant mouse model. Proc. Nat. Acad. Sci. U.S.A. 2010, 107:11260-11264.
18. Egland K.A., Greenberg E.P. Quorum sensing in Vibrio fischeri: elements of the luxl promoter. Mol. Microbiol. 1999, 31:1197-1204.
19. Ellis T., Wang X., Collins J.J. Diversity-based, model-guided construction of synthetic gene networks with predicted functions. Nat. Biotechnol. 2009, 27:465-471.
20. Elowitz M.B., Leibler S. A synthetic oscillatory network of transcriptional regulators. Nature 2000, 403:335-338.
21. Freeman M. Feedback control of intercellular signalling in development. Nature 2000, 408:313-319.
22. Friedland A.E., Lu T.K., Wang X., Shi D., Church G., Collins J.J. Synthetic gene networks that count. Science 2009, 324:1199-1202.
23. Fussenegger M. Synthetic biology: synchronized bacterial clocks. Nature 2010, 463:301-302.
24. Gardner T.S., Cantor C.R., Collins J.J. Construction of a genetic toggle switch in Escherichia coli. Nature 2000, 403:339-342.
25. Gitzinger M., Kemmer C., El-Baba M.D., Weber W., Fussenegger M. Controlling transgene expression in subcutaneous implants using a skin lotion containing the apple metabolite phloretin. Proc. Nat. Acad. Sci. U.S.A. 2009, 106:10638-10643.
26. 2+ channels. J. Gen. Physiol. 1997, 110:217-228.
27. Hartenbach S., Daoud-El Baba M., Weber W., Fussenegger M. An engineered l-arginine sensor of Chlamydia pneumoniae enables arginine-adjustable transcription control in mammalian cells and mice. Nucleic Acid Res. 2007, 35:e136.
28. Hooshangi S., Bentley W.E. From unicellular properties to multicellular behavior: bacteria quorum sensing circuitry and applications. Curr. Opin. Biotechnol. 2008, 19:550-555.
29. Hu B., Du J., Zou R.Y., Yuan Y.J. An environment-sensitive synthetic microbial ecosystem. PLoS One 2010, 5:e10619.
30. Johnson R.L., Tabin C.J. Molecular models for vertebrate limb development. Cell 1997, 90:979-990.
31. Kawaguchi N., Xu X., Tajima R., Kronqvist P., Sundberg C., Loechel F., Albrechtsen R., Wewer U.M. ADAM 12 protease induces adipogenesis in transgenic mice. Am. J. Pathol. 2002, 160:1895-1903.
32. Kemmer C., Fluri D.A., Witschi U., Passeraub A., Gutzwiller A., Fussenegger M. A designer network coordinating bovine artificial insemination by ovulation-triggered release of implanted sperms. J. Control Release. 2011, 150:23-29.
33. Kemmer C., Gitzinger M., Daoud-El Baba M., Djonov V., Stelling J., Fussenegger M. Self-sufficient control of urate homeostasis in mice by a synthetic circuit. Nat. Biotechnol. 2010, 28:355-360.
34. Kobayashi H., Kaern M., Araki M., Chung K., Gardner T.S., Cantor C.R., Collins J.J. Progammable cells: interfacing natural and engineered gene networks. Proc. Nat. Acad. Sci. U.S.A. 2004, 101:8414-8419.
35. Koseska A., Zaikin A., Kurths J., Garcia-Ojalvo J. Timing cellular decision making under noise via cell-cell communication. PLoS One 2009, 4:e4872.
36. Kramer B.P., Viretta A.U., Daoud-El-Baba M., Aubel D., Weber W., Fussenegger M. An engineered epigenetic transgene switch in mammalian cells. Nat. Biotechnol. 2004, 22:867-870.
37. Li B., You L. Synthetic biology: division of logic labour. Nature 2011, 469:171-172.
38. Liu C., Fu X., Liu L., Ren X., Chau C.K., Li S., Xiang L., Zeng H., Chen G., Tang L.H., Lenz P., Cui X., Huang W., Hwa T., Huang J.D. Sequential establishment of stripe patterns in an expanding cell population. Science 2011, 334:238-241.
39. Macia J., Posas F., Sole R.V. Distributed computation: the new wave of synthetic biology devices. Trends Biotechnol. 2012, 30:342-349.
40. Malleret G., Haditsch U., Genoux D., Jones M.W., Bliss T.V., Vanhoose A.M., Weitlauf C., Kandel E.R., Winder D.G., Mansuy I.M. Inducible and reversible enhancement of learning, memory, and long-term potentiation by genetic inhibition of calcineurin. Cell 2001, 104:675-686.
41. Mansuy I.M., Bujard H. Tetracycline-regulated gene expression in the brain. Curr. Opin. Neurobiol. 2000, 10:593-596.
42. Mitchell R.J., Lee S.K., Kim T., Ghim C.M. Microbial linguistics: perspectives and applications of microbial cell-to-cell communication. BMB Rep 2011, 44:1-10.
43. Moon T.S., Lou C., Tamsir A., Stanton B.C., Voigt C.A. Genetic programs constructed from layered logic gates in single cells. Nature 2012, 491:249-253.
44. Ortiz M.E., Endy D. Engineered cell-cell communication via DNA messaging. J. Biol. Eng. 2012, 6:16.
45. Papetti M., Herman I.M. Mechanisms of normal and tumor-derived angiogenesis. Am. J. Physiol. Cell Physiol 2002, 282:C947-C970.
46. Pesci E.C., Pearson J.P., Seed P.C., Iglewski B.H. Regulation of las and rhl quorum sensing in Pseudomonas aeruginosa. J. Bacteriol. 1997, 179:3127-3132.
47. Prindle A., Samayoa P., Razinkov I., Danino T., Tsimring L.S., Hasty J. A sensing array of radically coupled genetic 'biopixels'. Nature 2012, 481:39-44.
48. Purnick P.E., Weiss R. The second wave of synthetic biology: from modules to systems. Nat. Rev. Mol. Cell Biol. 2009, 10:410-422.
49. Regot S., Macia J., Conde N., Furukawa K., Kjellen J., Peeters T., Hohmann S., de Nadal E., Posas F., Sole R. Distributed biological computation with multicellular engineered networks. Nature 2011, 469:207-211.
50. Rinaudo K., Bleris L., Maddamsetti R., Subramanian S., Weiss R., Benenson Y. A universal RNAi-based logic evaluator that operates in mammalian cells. Nat. Biotechnol. 2007, 25:795-801.
51. Ruder W.C., Lu T., Collins J.J. Synthetic biology moving into the clinic. Science 2011, 333:1248-1252.
52. Sanchez-Bustamante C.D., Kelm J.M., Mitta B., Fussenegger M. Heterologous protein production capacity of mammalian cells cultivated as monolayers and microtissues. Biotechnol. Bioeng. 2006, 93:169-180.
53. Schaefer A.L., Greenberg E.P., Oliver C.M., Oda Y., Huang J.J., Bittan-Banin G., Peres C.M., Schmidt S., Juhaszova K., Sufrin J.R., Harwood C.S. A new class of homoserine lactone quorum-sensing signals. Nature 2008, 454:595-599.
54. Sharpless N.E., Depinho R.A. The mighty mouse: genetically engineered mouse models in cancer drug development. Nat. Rev. Drug Dis. 2006, 5:741-754.
55. Shong J., Jimenez Diaz M.R., Collins C.H. Towards synthetic microbial consortia for bioprocessing. Curr. Opin. Biotechnol. 2012.
56. Shou W., Ram S., Vilar J.M. Synthetic cooperation in engineered yeast populations. Proc. Nat. Acad. Sci. U.S.A. 2007, 104:1877-1882.
57. Song H., Payne S., Gray M., You L. Spatiotemporal modulation of biodiversity in a synthetic chemical-mediated ecosystem. Nat. Chem. Biol. 2009, 5:929-935.
58. Tabor J.J., Salis H.M., Simpson Z.B., Chevalier A.A., Levskaya A., Marcotte E.M., Voigt C.A., Ellington A.D. A synthetic genetic edge detection program. Cell 2009, 137:1272-1281.
59. Tamsir A., Tabor J.J., Voigt C.A. Robust multicellular computing using genetically encoded NOR gates and chemical 'wires'. Nature 2011, 469:212-215.
60. Tigges M., Marquez-Lago T.T., Stelling J., Fussenegger M. A tunable synthetic mammalian oscillator. Nature 2009, 457:309-312.
61. Tsai S.L., Goyal G., Chen W. Surface display of a functional minicellulosome by intracellular complementation using a synthetic yeast consortium and its application to cellulose hydrolysis and ethanol production. Appl. Environ. Microbiol. 2010, 76:7514-7520.
62. Ulmer J.B., Valley U., Rappuoli R. Vaccine manufacturing: challenges and solutions. Nat. Biotechnol. 2006, 24:1377-1383.
63. Viretta A.U., Fussenegger M. Modeling the quorum sensing regulatory network of human-pathogenic Pseudomonas aeruginosa. Biotechnol. Progr. 2004, 20:670-678.
64. Wang W.D., Chen Z.T., Kang B.G., Li R. Construction of an artificial intercellular communication network using the nitric oxide signaling elements in mammalian cells. Exp. Cell Res. 2008, 314:699-706.
65. Waters C.M., Bassler B.L. Quorum sensing: cell-to-cell communication in bacteria. Annu. Rev. Cell Dev. Biol. 2005, 21:319-346.
66. Weber W., Daoud-El Baba M., Fussenegger M. Synthetic ecosystems based on airborne inter- and intrakingdom communication. Proc. Nat. Acad. Sci. U.S.A. 2007, 104:10435-10440.
67. Weber W., Fussenegger M. Approaches for trigger-inducible viral transgene regulation in gene-based tissue engineering. Curr. Opin. Biotechnol. 2004, 15:383-391.
68. Weber W., Fussenegger M. Inducible product gene expression technology tailored to bioprocess engineering. Curr. Opin. Biotechnol. 2007, 18:399-410.
69. Weber W., Fussenegger M. Design of synthetic mammalian quorum-sensing systems. Methods Mol. Biol. 2011, 692:235-249.
70. Weber W., Fussenegger M. Molecular diversity-the toolbox for synthetic gene switches and networks. Curr. Opin. Chem. Biol. 2011, 15:414-420.
71. Weber W., Fussenegger M. Emerging biomedical applications of synthetic biology. Nat. Rev. Genet. 2012, 13:21-35.
72. Weber W., Schoenmakers R., Keller B., Gitzinger M., Grau T., Daoud-El Baba M., Sander P., Fussenegger M. A synthetic mammalian gene circuit reveals antituberculosis compounds. Proc. Nat. Acad. Sci. U.S.A. 2008, 105:9994-9998.
73. Weber W., Schuetz M., Denervaud N., Fussenegger M. A synthetic metabolite-based mammalian inter-cell signaling system. Mol. Biosyst. 2009, 5:757-763.
74. Weber W., Stelling J., Rimann M., Keller B., Daoud-El Baba M., Weber C.C., Aubel D., Fussenegger M. A synthetic time-delay circuit in mammalian cells and mice. Proc. Nat. Acad. Sci. U.S.A. 2007, 104:2643-2648.
75. Yarilina A., Park-Min K.H., Antoniv T., Hu X., Ivashkiv L.B. TNF activates an IRF1-dependent autocrine loop leading to sustained expression of chemokines and STAT1-dependent type I interferon-response genes. Nat. Immunol. 2008, 9:378-387.
76. Ye H., Daoud-El Baba M., Peng R.W., Fussenegger M. A synthetic optogenetic transcription device enhances blood-glucose homeostasis in mice. Science 2011, 332:1565-1568.
77. You L., Cox R.S., Weiss R., Arnold F.H. Programmed population control by cell-cell communication and regulated killing. Nature 2004, 428:868-871.