Miniaturising the laboratory in emulsion droplets

Trends in Biotechnology

Volumn 24, Issue 9, 2006, Pages 395-402

  Griffiths, Andrew D ^a   Tawfik, Dan S ^b  

^a UNIVERSITÉ LOUIS PASTEUR   (France)

^b WEIZMANN INSTITUTE OF SCIENCE   (Israel)

Author keywords

[No Author keywords available]

Indexed keywords

BIOASSAY; BIOCHEMISTRY; CELLS; CLONING; DROP FORMATION; GENETIC ENGINEERING;

GENETIC ASSAYS; LIVING CELLS; WATER-IN-OIL EMULSIONS;

EMULSIONS;

WATER OIL CREAM;

BIOTECHNOLOGY; CATALYSIS; DNA MODIFICATION; DNA REPLICATION; ELECTRONICS; EMULSION; FLUORESCENCE ACTIVATED CELL SORTING; GENE AMPLIFICATION; GENE CONTROL; GENE LIBRARY; GENE SEQUENCE; GENETIC ANALYSIS; GENOMICS; GENOTYPE; HUMAN; IN VITRO STUDY; LABORATORY; MOLECULAR CLONING; MOLECULAR EVOLUTION; NONHUMAN; PHENOTYPE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROTEIN BINDING; PROTEOMICS; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; REVIEW; RNA TRANSLATION;

CELL-FREE SYSTEM; DIRECTED MOLECULAR EVOLUTION; EMULSIONS; FLOW CYTOMETRY; GENE LIBRARY; GENOMICS; MICROSPHERES; MINIATURIZATION; OILS; PROTEOMICS; WATER;

EID: 33747130345     PISSN: 01677799     EISSN: None     Source Type: Journal    
DOI: 10.1071/MF05190     Document Type: Review

References (57)

1. Kliachko N.L., and Levashov A.V. Bioorganic synthesis in reverse micelles and related systems. Curr. Opin. Colloid and Interface Sci. 8 (2003) 179-186
2. Tawfik D.S., and Griffiths A.D. Man-made cell-like compartments for molecular evolution. Nat. Biotechnol. 16 (1998) 652-656
3. Griffiths A.D., and Tawfik D.S. Directed evolution of an extremely fast phosphotriesterase by in vitro compartmentalization. EMBO J. 22 (2003) 24-35
4. Lee Y.F., et al. Investigating the target recognition of DNA cytosine-5 methyltransferase HhaI by library selection using in vitro compartmentalisation. Nucleic Acids Res. 30 (2002) 4937-4944
5. Cohen H.M., et al. Altering the sequence specificity of HaeIII methyltransferase by directed evolution using in vitro compartmentalization. Protein Eng. Des. Sel. 17 (2004) 3-11
6. Doi N., et al. In vitro selection of restriction endonucleases by in vitro compartmentalization. Nucleic Acids Res. 32 (2004) e95
7. Ghadessy F.J., et al. Directed evolution of polymerase function by compartmentalized self-replication. Proc. Natl. Acad. Sci. U. S. A. 98 (2001) 4552-4557
8. Ghadessy F.J., et al. Generic expansion of the substrate spectrum of a DNA polymerase by directed evolution. Nat. Biotechnol. 22 (2004) 755-759
9. Agresti J.J., et al. Selection of ribozymes that catalyse multiple-turnover Diels-Alder cycloadditions by using in vitro compartmentalization. Proc. Natl. Acad. Sci. U. S. A. 102 (2005) 16170-16175
10. Levy M., et al. Direct selection of trans-acting ligase ribozymes by in vitro compartmentalization. RNA 11 (2005) 1555-1562
11. Sepp A., et al. Microbead display by in vitro compartmentalisation: selection for binding using flow cytometry. FEBS Lett. 532 (2002) 455-458
12. Bernath K., et al. In vitro compartmentalization by double emulsions: sorting and gene enrichment by fluorescence-activated cell sorting. Anal. Biochem. 325 (2004) 151-157
13. O'Hare H.M., and Johnsson K. The laboratory in a droplet. Chem. Biol. 12 (2005) 1255-1257
14. Cornish V.W. Biological chemistry: catalytic competition for cells. Nature 440 (2006) 156-157
15. Mastrobattista E., et al. High-throughput screening of enzyme libraries: in vitro evolution of a beta-galactosidase by fluorescence-activated sorting of double emulsions. Chem. Biol. 12 (2005) 1291-1300
16. Aharoni A., et al. High-throughput screening of enzyme libraries: thiolactonases evolved by fluorescence-activated sorting of single cells in emulsion compartments. Chem. Biol. 12 (2005) 1281-1289
17. Miller O.J., et al. Directed evolution by in vitro compartmentalization. Nat Methods 3 (2006) 561-570
18. Bertschinger J., and Neri D. Covalent DNA display as a novel tool for directed evolution of proteins in vitro. Protein Eng. Des. Sel. 17 (2004) 699-707
19. Doi N., and Yanagawa H. STABLE: protein-DNA fusion system for screening of combinatorial protein libraries in vitro. FEBS Lett. 457 (1999) 227-230
20. Yonezawa M., et al. DNA display for in vitro selection of diverse peptide libraries. Nucleic Acids Res. 31 (2003) e118
21. Yonezawa M., et al. DNA display of biologically active proteins for in vitro protein selection. J. Biochem. (Tokyo) 135 (2004) 285-288
22. Sepp A., and Choo Y. Cell-free selection of zinc finger DNA-binding proteins using in vitro compartmentalization. J. Mol. Biol. 354 (2005) 212-219
23. Bernath K., et al. Directed evolution of protein inhibitors of DNA-nucleases by in vitro compartmentalization (IVC) and nano-droplet delivery. J. Mol. Biol. 345 (2005) 1015-1026
24. Nakano M., et al. Single-molecule PCR using water-in-oil emulsion. J. Biotechnol. 102 (2003) 117-124
25. Dressman D., et al. Transforming single DNA molecules into fluorescent magnetic particles for detection and enumeration of genetic variations. Proc. Natl. Acad. Sci. U. S. A. 100 (2003) 8817-8822
26. Diehl F., et al. Detection and quantification of mutations in the plasma of patients with colorectal tumors. Proc. Natl. Acad. Sci. U. S. A. 102 (2005) 16368-16373
27. Wetmur J.G., et al. Molecular haplotyping by linking emulsion PCR: analysis of paraoxonase 1 haplotypes and phenotypes. Nucleic Acids Res. 33 (2005) 2615-2619
28. Nakano M., et al. Single-molecule reverse transcription polymerase chain reaction using water-in-oil emulsion. J. Biosci. Bioeng. 99 (2005) 293-295
29. Musyanovych A., et al. Miniemulsion droplets as single molecule nanoreactors for polymerase chain reaction. Biomacromolecules 6 (2005) 1824-1828
30. Shendure J., et al. Accurate multiplex polony sequencing of an evolved bacterial genome. Science 309 (2005) 1728-1732
31. Margulies M., et al. Genome sequencing in microfabricated high-density picolitre reactors. Nature 437 (2005) 376-380
32. Kojima T., et al. PCR amplification from single DNA molecules on magnetic beads in emulsion: application for high-throughput screening of transcription factor targets. Nucleic Acids Res. 33 (2005) e150
33. Li M., et al. BEAMing up for detection and quantification of rare sequence variants. Nat. Methods 3 (2006) 95-97
34. Poinar H.N., et al. Metagenomics to paleogenomics: large-scale sequencing of mammoth DNA. Science 311 (2006) 392-394
35. Williams R., et al. Amplification of complex gene libraries by emulsion PCR. Nat Methods 3 (2006) 545-550
36. Diehl F., et al. BEAMing: single-molecule PCR on microparticles in water-in-oil emulsions. Nat. Methods 3 (2006) 551-559
37. Ghadessy F.J., and Holliger P. A novel emulsion mixture for in vitro compartmentalization of transcription and translation in the rabbit reticulocyte system. Protein Eng. Des. Sel. 17 (2004) 201-204
38. Noireaux V., and Libchaber A. A vesicle bioreactor as a step toward an artificial cell assembly. Proc. Natl. Acad. Sci. U. S. A. 101 (2004) 17669-17674
39. Ishikawa K., et al. Expression of a cascading genetic network within liposomes. FEBS Lett. 576 (2004) 387-390
40. Luisi P.L., et al. Approaches to semi-synthetic minimal cells: a review. Naturwissenschaften 93 (2006) 1-13
41. Monnard P.A., and Deamer D.W. Membrane self-assembly processes: steps toward the first cellular life. Anat. Rec. 268 (2002) 196-207
42. Samatov T.R., et al. Expressible molecular colonies. Nucleic Acids Res. 33 (2005) e145
43. Umbanhowar P.B., et al. Monodisperse emulsions generated via drop break off in a coflowing steam. Langmuir 16 (2000) 347-351
44. Thorsen T., et al. Dynamic pattern formation in a vesicle-generating microfluidic device. Phys. Rev. Lett. 86 (2001) 4163-4166
45. Anna S.L., et al. Formation of dispersions using 'flow focusing' in microchannels. Applied Physics Letters 82 (2003) 364-366
46. Utada A.S., et al. Monodisperse double emulsions generated from a microcapillary device. Science 308 (2005) 537-541
47. Nisisako T., et al. Controlled formulation of monodisperse double emulsions in a multiple-phase microfluidic system. Soft Matter 1 (2005) 23-27
48. Song H., et al. A microfluidic system for controlling reaction networks in time. Angew. Chem. Int. Ed. Engl. 42 (2003) 768-772
49. Link D.R., et al. Electric control of droplets in microfluidic devices. Angew. Chem. Int. Ed. Engl. 45 (2006) 2556-2560
50. Link D.R., et al. Geometrically mediated breakup of drops in microfluidic devices. Phys. Rev. Lett. 92 (2004) 054503
51. Ahn K., et al. Dielectrophoretic manipulation of drops for high-speed microfluidic sorting devices. Applied Physics Letters 88 (2006) Art. No. 024104
52. Song H., and Ismagilov R.F. Millisecond kinetics on a microfluidic chip using nanoliters of reagents. J. Am. Chem. Soc. 125 (2003) 14613-14619
53. Dittrich P.S., et al. A new embedded process for compartmentalized cell-free protein expression and on-line detection in microfluidic devices. ChemBioChem 6 (2005) 811-814
54. Keetch C.A., et al. Use of a microchip device coupled with mass spectrometry for ligand screening of a multi-protein target. Anal. Chem. 75 (2003) 4937-4941
55. Spirin A.S. High-throughput cell-free systems for synthesis of functionally active proteins. Trends Biotechnol. 22 (2004) 538-545
56. Shimizu Y., et al. Cell-free translation reconstituted with purified components. Nat. Biotechnol. 19 (2001) 751-755
57. Pietrini A.V., and Luisi P.L. Cell-free protein synthesis through solubilisate exchange in water/oil emulsion compartments. ChemBioChem 5 (2004) 1055-1062