A library of mammalian effector modules for synthetic morphology

Journal of Biological Engineering

Volumn 8, Issue 1, 2014, Pages

  Cachat, Elise ^a   Liu, Weijia ^a   Hohenstein, Peter ^b   Davies, Jamie A ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

^b UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

Development; Human embryonic kidney cells; Morphogenesis; Morphogenetic effectors; Synthetic biology; Synthetic morphology

Indexed keywords

CYCLIN DEPENDENT KINASE; CYSTEINE PROTEINASE; EFFECTOR CASPASE; REPRESSOR PROTEIN; TETRACYCLINE;

ACTIN FILAMENT; APOPTOSIS; ARTICLE; CELL ADHESION; CELL AGGREGATION; CELL CYCLE G1 PHASE; CELL CYCLE S PHASE; CELL DAMAGE; CELL DEATH; CELL DIFFERENTIATION; CELL FUNCTION; CELL FUSION; CELL MIGRATION; CELL POPULATION; CELL PROLIFERATION; CELL STRUCTURE; FEEDER CELL; HUMAN; HUMAN CELL; LOCOMOTION; MAMMAL CELL; PRIORITY JOURNAL; STABLE EXPRESSION; STABLE TRANSFECTION;

MAMMALIA;

EID: 84924035884     PISSN: None     EISSN: 17541611     Source Type: Journal    
DOI: 10.1186/1754-1611-8-26     Document Type: Article

References (56)

1. Gardner TS, Cantor CR, Collins JJ: Construction of a genetic toggle switch in Escherichia coli. Nature 2000,403(6767):339-342. 10.1038/35002131.
2. Elowitz MB, Leibler S: A synthetic oscillatory network of transcriptional regulators. Nature 2000,403(6767):335-338. 10.1038/35002125.
3. Ro DK, Paradise EM, Ouellet M, Fisher KJ, Newman KL, Ndungu JM, Ho KA, Eachus RA, Ham TS, Kirby J, Chang MCY, Withers ST, Shiba Y, Sarpong R, Keasling JD: Production of the antimalarial drug precursor artemisinic acid in engineered yeast. Nature 2006,440(7086):940-943. 10.1038/nature04640.
4. Friedland AE, Lu TK, Wang X, Shi D, Church G, Collins JJ: Synthetic gene networks that count. Science 2009,324(5931):1199-1202. 10.1126/science.1172005.
5. Levskaya A, Weiner OD, Lim WA, Voigt CA: Spatiotemporal control of cell signalling using a light-switchable protein interaction. Nature 2009,461(7266):997-1001. 10.1038/nature08446.
6. Carvalho A, Menendez DB, Senthivel VR, Zimmermann T, Diambra L, Isalan M: Genetically encoded sender-receiver system in 3D mammalian cell culture. ACS Synth Biol 2013,3(5):264-272.
7. Davies JA: Synthetic morphology: prospects for engineered, self-constructing anatomies. J Anat 2008,212(6):707-719. 10.1111/j.1469-7580.2008.00896.x.
8. Cachat E, Davies J: Application of synthetic biology to regenerative medicine. J Bioeng Biomed Sci 2011, S2:003.
9. Davies JA: Mechanisms of Morphogenesis. 2nd edition. London: Elsevier; 2013.
10. Gilbert S: Developmental Biology. 10th edition. Sunderland: Sinauer Associates; 2013.
11. Capasso V, Gromov M, Harel-Bellan A, Morozova N, Louise L, Colli PL: Pattern Formation in Morphogenesis: problems and mathematical issues. In Morphogenesis: Problems And Mathematical Issues. Volume 5. Berlin Heidelberg: Springer; 2013.
12. Davies J: Regulation, necessity, and the misinterpretation of knockouts. Bioessays 2009,31(8):826-830. 10.1002/bies.200900044.
13. Nagafuchi A, Shirayoshi Y, Okazaki K, Yasuda K, Takeichi M: Transformation of cell adhesion properties by exogenously introduced E-cadherin cDNA. Nature 1987,329(6137):341-343. 10.1038/329341a0.
14. Kumar S, Kinoshita M, Noda M, Copeland NG, Jenkins NA: Induction of apoptosis by the mouse Nedd2 gene, which encodes a protein similar to the product of the Caenorhabditis elegans cell death gene ced-3 and the mammalian IL-1 beta-converting enzyme. Genes Dev 1994,8(14):1613-1626. 10.1101/gad.8.14.1613.
15. Clancy EK, Barry C, Ciechonska M, Duncan R: Different activities of the reovirus FAST proteins and influenza hemagglutinin in cell-cell fusion assays and in response to membrane curvature agents. Virology 2010,397(1):119-129. 10.1016/j.virol.2009.10.039.
16. Klemke RL, Leng J, Molander R, Brooks PC, Vuori K, Cheresh DA: CAS/Crk coupling serves as a "molecular switch" for induction of cell migration. J Cell Biol 1998,140(4):961-972. 10.1083/jcb.140.4.961.
17. Harper JW, Adami GR, Wei N, Keyomarsi K, Elledge SJ: The p21 Cdk-interacting protein Cip1 is a potent inhibitor of G1 cyclin-dependent kinases. Cell 1993,75(4):805-816. 10.1016/0092-8674(93)90499-G.
18. Cachat E, Martin KC, Davies JA: Synthetic biology approaches for regenerative medicine. In Encyclopedia Of Molecular Cell Biology And Molecular Medicine. Weinheim: Wiley-VCH Verlag; 2013. in press
19. Hayflick L, Moorhead PS: The serial cultivation of human diploid cell strains. Exp Cell Res 1961, 25:585-621. 10.1016/0014-4827(61)90192-6.
20. Camarasa MV, Galvez VM, Brison DR, Bachiller D: Optimized protocol for derivation of human embryonic stem cell lines. Stem Cell Rev 2012,8(3):1011-1020. 10.1007/s12015-012-9377-4.
21. Roy A, Krzykwa E, Lemieux R, Neron S: Increased efficiency of gamma-irradiated versus mitomycin C-treated feeder cells for the expansion of normal human cells in long-term cultures. J Hematother Stem Cell Res 2001,10(6):873-880. 10.1089/152581601317210962.
22. Zhou D, Liu T, Zhou X, Lu G: Three key variables involved in feeder preparation for the maintenance of human embryonic stem cells. Cell Biol Int 2009,33(7):796-800. 10.1016/j.cellbi.2009.04.008.
23. Gopinathan L, Ratnacaram CK, Kaldis P: Established and novel Cdk/cyclin complexes regulating the cell cycle and development. Results Probl Cell Differ 2011, 53:365-389.
24. Susaki E, Nakayama KI: Functional similarities and uniqueness of p27 and p57: insight from a knock-in mouse model. Cell Cycle 2009,8(16):2497-2501. 10.4161/cc.8.16.9330.
25. Borriello A, Cucciolla V, Oliva A, Zappia V, Della Ragione F: p27Kip1 metabolism: a fascinating labyrinth. Cell Cycle 2007,6(9):1053-1061. 10.4161/cc.6.9.4142.
26. Coucouvanis E, Martin GR: Signals for death and survival: a two-step mechanism for cavitation in the vertebrate embryo. Cell 1995,83(2):279-287. 10.1016/0092-8674(95)90169-8.
27. Zakeri Z, Quaglino D, Ahuja HS: Apoptotic cell death in the mouse limb and its suppression in the hammertoe mutant. Dev Biol 1994,165(1):294-297. 10.1006/dbio.1994.1255.
28. Hamburger V: The effects of wing bud extirpation on the development of the central nervous system in chick embryos. J Exp Zool 1934,68(3):449-494. 10.1002/jez.1400680305.
29. Raff MC: Social controls on cell survival and cell death. Nature 1992,356(6368):397-400. 10.1038/356397a0.
30. Imre G, Heering J, Takeda AN, Husmann M, Thiede B, Zu Heringdorf DM, Green DR, van der Goot FG, Sinha B, Dotsch V, Rajalingam K: Caspase-2 is an initiator caspase responsible for pore-forming toxin-mediated apoptosis. EMBO J 2012,31(11):2615-2628. 10.1038/emboj.2012.93.
31. Bouchier-Hayes L, Green DR: Caspase-2: the orphan caspase. Cell Death Differ 2012,19(1):51-57. 10.1038/cdd.2011.157.
32. Puccini J, Dorstyn L, Kumar S: Caspase-2 as a tumour suppressor. Cell Death Differ 2013,20(9):1133-1139. 10.1038/cdd.2013.87.
33. Volk T, Geiger B: A 135-kd membrane protein of intercellular adherens junctions. EMBO J 1984,3(10):2249-2260.
34. van Roy F, Berx G: The cell-cell adhesion molecule E-cadherin. Cell Mol Life Sci 2008,65(23):3756-3788. 10.1007/s00018-008-8281-1.
35. Cavallaro U, Christofori G: Cell adhesion and signalling by cadherins and Ig-CAMs in cancer. Nat Rev Cancer 2004,4(2):118-132. 10.1038/nrc1276.
36. Schejter ED, Baylies MK: Born to run: creating the muscle fiber. Curr Opin Cell Biol 2010,22(5):566-574. 10.1016/j.ceb.2010.08.009.
37. Salsman J, Top D, Barry C, Duncan R: A virus-encoded cell-cell fusion machine dependent on surrogate adhesins. PLoS Pathog 2008,4(3):e1000016. 10.1371/journal.ppat.1000016.
38. Salsman J, Top D, Boutilier J, Duncan R: Extensive syncytium formation mediated by the reovirus FAST proteins triggers apoptosis-induced membrane instability. J Virol 2005,79(13):8090-8100. 10.1128/JVI.79.13.8090-8100.2005.
39. Ridley AJ: Life at the leading edge. Cell 2011,145(7):1012-1022. 10.1016/j.cell.2011.06.010.
40. Ridley AJ, Schwartz MA, Burridge K, Firtel RA, Ginsberg MH, Borisy G, Parsons JT, Horwitz AR: Cell migration: integrating signals from front to back. Science 2003,302(5651):1704-1709. 10.1126/science.1092053.
41. Bradley WD, Koleske AJ: Regulation of cell migration and morphogenesis by Abl-family kinases: emerging mechanisms and physiological contexts. J Cell Sci 2009,122(Pt 19):3441-3454.
42. Lamorte L, Rodrigues S, Sangwan V, Turner CE, Park M: Crk associates with a multimolecular Paxillin/GIT2/beta-PIX complex and promotes Rac-dependent relocalization of Paxillin to focal contacts. Mol Biol Cell 2003,14(7):2818-2831. 10.1091/mbc.E02-08-0497.
43. Qin JY, Zhang L, Clift KL, Hulur I, Xiang AP, Ren BZ, Lahn BT: Systematic comparison of constitutive promoters and the doxycycline-inducible promoter. PLoS One 2010,5(5):e10611. 10.1371/journal.pone.0010611.
44. Norrman K, Fischer Y, Bonnamy B, Wolfhagen Sand F, Ravassard P, Semb H: Quantitative comparison of constitutive promoters in human ES cells. PLoS One 2010,5(8):e12413. 10.1371/journal.pone.0012413.
45. Chung S, Andersson T, Sonntag KC, Bjorklund L, Isacson O, Kim KS: Analysis of different promoter systems for efficient transgene expression in mouse embryonic stem cell lines. Stem Cells 2002,20(2):139-145. 10.1634/stemcells.20-2-139.
46. Deans TL, Cantor CR, Collins JJ: A tunable genetic switch based on RNAi and repressor proteins for regulating gene expression in mammalian cells. Cell 2007,130(2):363-372. 10.1016/j.cell.2007.05.045.
47. Wong ET, Ngoi SM, Lee CG: Improved co-expression of multiple genes in vectors containing internal ribosome entry sites (IRESes) from human genes. Gene Ther 2002,9(5):337-344. 10.1038/sj.gt.3301667.
48. Kramer BP, Fischer C, Fussenegger M: BioLogic gates enable logical transcription control in mammalian cells. Biotechnol Bioeng 2004,87(4):478-484. 10.1002/bit.20142.
49. Auslander S, Auslander D, Muller M, Wieland M, Fussenegger M: Programmable single-cell mammalian biocomputers. Nature 2012,487(7405):123-127.
50. Pan XP, Li LJ: Advances in cell sources of hepatocytes for bioartificial liver. Hepatobiliary Pancreat Dis Int 2012,11(6):594-605. 10.1016/S1499-3872(12)60230-6.
51. Schoonen WG, Westerink WM, Horbach GJ: High-throughput screening for analysis of in vitro toxicity. EXS 2009, 99:401-452.
52. McKim JM Jr: Building a tiered approach to in vitro predictive toxicity screening: a focus on assays with in vivo relevance. Comb Chem High Throughput Screen 2010,13(2):188-206. 10.2174/138620710790596736.
53. Nose A, Nagafuchi A, Takeichi M: Expressed recombinant cadherins mediate cell sorting in model systems. Cell 1988,54(7):993-1001. 10.1016/0092-8674(88)90114-6.
54. Van de Craen M, Vandenabeele P, Declercq W, Van den Brande I, Van Loo G, Molemans F, Schotte P, Van Criekinge W, Beyaert R, Fiers W: Characterization of seven murine caspase family members. FEBS Lett 1997,403(1):61-69. 10.1016/S0014-5793(97)00026-4.
55. Vlach J, Hennecke S, Alevizopoulos K, Conti D, Amati B: Growth arrest by the cyclin-dependent kinase inhibitor p27Kip1 is abrogated by c-Myc. EMBO J 1996,15(23):6595-6604.
56. Roure A, Rothbacher U, Robin F, Kalmar E, Ferone G, Lamy C, Missero C, Mueller F, Lemaire P: A multicassette Gateway vector set for high throughput and comparative analyses in ciona and vertebrate embryos. PLoS One 2007,2(9):e916. 10.1371/journal.pone.0000916.