Microfabrication meets microbiology

Nature Reviews Microbiology

Volumn 5, Issue 3, 2007, Pages 209-218

  Weibel, Douglas B ^a,b   DiLuzio, Willow R ^b   Whitesides, George M ^b  

^a UNIVERSITY OF WISCONSIN MADISON   (United States)

^b HARVARD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DIMETICONE;

BACTERIAL CELL; BACTERIAL GROWTH; BACTERIAL METABOLISM; BACTERIUM CULTURE; BIOTECHNOLOGY; CELL MOTILITY; CHEMOTAXIS; COMPUTER AIDED DESIGN; HYDROGEL; IMMOBILIZATION; MEDICAL TECHNOLOGY; MICROBIAL METABOLISM; MICROBIAL MORPHOLOGY; MICROBIAL POPULATION DYNAMICS; MICROBIOLOGY; MICROFABRICATION; MICROFLUIDICS; MOLECULAR BIOLOGY; NANOTECHNOLOGY; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; QUORUM SENSING; REVIEW; SOFT LITHOGRAPHY;

BACTERIAL PHYSIOLOGY; BIOMEDICAL ENGINEERING; BIOTECHNOLOGY; MICROBIOLOGICAL TECHNIQUES; MICROBIOLOGY; MINIATURIZATION; PHENOTYPE; SYSTEMS INTEGRATION;

EID: 33847148076     PISSN: 17401526     EISSN: None     Source Type: Journal    
DOI: 10.1038/nrmicro1616     Document Type: Review

References (74)

1. Xia, Y. & Whitesides, G. M. Soft lithography. Angewandte Chemie, International Edition 37, 550-575 (1998).
2. Whitesides, G. M., Ostuni, E., Takayama, S., Jiang, X. & Ingber, D. E. Soft lithography in biology and biochemistry. Annu. Rev. Biomed. Eng. 3, 335-373 (2001).
3. Moller-Jensen, J. & Loewe, J. Increasing complexity of the bacterial cytoskeleton. Curr. Opin. Cell Biol. 17, 75-81 (2005).
4. Bates, D. & Kleckner, N. Chromosome and replisome dynamics in E. coli: loss of sister cohesion triggers global chromosome movement and mediates chromosome segregation. Cell 121, 899-911 (2005).
5. Ryan, K. R. & Shapiro, L. Temporal and spatial regulation in prokaryotic cell cycle progression and development. Annu. Rev. Biochem. 72, 367-394 (2003).
6. Shapiro, L., McAdams, H. H. & Losick, R. Generating and exploiting polarity in Bacteria. Science 298, 1942-1946 (2002).
7. Lutkenhaus, J. Dynamic proteins in bacteria. Curr. Opin. Microbiol. 5, 548-552 (2002).
8. Margolin, W. Bacterial cell division: A moving MinE sweeper boggles the MinD. Curr. Biol. 11, R395-R398 (2001).
9. Bassler, B. L & Losick, R. Bacterially speaking. Cell 125, 237-246 (2006).
10. Belas, R. in Bacteria as Multicellular Organisms (J. A. Shapiro and M. Dworkin) 183-219 (1997).
11. Shapiro, J. A. Thinking about bacterial populations as multicellular organisms. Annu. Rev. Microbiol. 52, 81-104 (1998).
12. Chen, C. S., Jiang, X. & Whitesides, G. M. Microengineering the environment of mammalian cells in culture. MRS Bulletin 30, 194-201 (2005).
13. Jiang, X. & Whitesides, G. M. Engineering microtools in polymers to study cell biology. Eng. Life Sci. 3, 475-480 (2003).
14. Curtis, T. P., Sloan, W. T. & Scannell, J. W. Estimating prokaryotic diversity and its limits. Proc. Natl Acad. Sci. USA 99, 10494-10499 (2002).
15. Rappe, M. S. & Giovannoni, S. J. The uncultured microbial majority. Annu. Rev. Microbiol. 57, 369-394 (2003).
16. Elowitz, M. B., Levine, A. J., Siggia, E. D. & Swain, P. S. Stochastic gene expression in a single cell. Science 297, 1183-1186 (2002).
17. Brehm-Stecher, B. F. & Johnson, E. A. Single-cell microbiology: Tools, technologies, and applications. Microbiol. Mol. Biol. Rev. 68, 538 (2004).
18. Kitano, H. Systems biology: A brief overview. Science 295, 1662-1664 (2002).
19. Breslauer, D. N., Lee, P. J. & Lee, L. P. Microfluidics-based systems biology. Mol. Biosyst. 2, 97-112 (2006).
20. Gates, B. D., Xu, O., Love, J. C., Wolfe, D. B. & Whitesides, G. M. Unconventional nanofabrication. Annu. Rev. Materials Res. 34, 339-372 (2004).
21. Wolfe, D. B. & Whitesides, G. M. in Nanolithography and Patterning Techniques in Microelectronics (ed. D. Bucknall) 76-119 (Woodhead publishing limited, Cambridge UK, 2005).
22. Linder, V., Wu, H. K., Jiang, X. Y. & Whitesides, G. M. Rapid prototyping of 2D structures with feature sizes larger than 8 mu m. Anal. Chem. 75, 2522-2527 (2003).
23. Duffy, D. C., McDonald, J. C., Schueller, O. J. A. & Whitesides, G. M. Rapid prototyping of microfluidic systems in poly(dimethylsiloxane). Anal. Chem. 70, 4974-4984 (1998).
24. Lee, J. N., Jiang, X., Ryan, D. & Whitesides, G. M. Compatibility of mammalian cells on surfaces of poly(dimethylsiloxane). Langmuir 20, 11684-11691 (2004).
25. Quist, A. P., Pavlovic, E. & Oscarsson, S. Recent advances in microcontact printing. Anal. Bioanal. Chem. 381, 591-600 (2005).
26. Delamarche, E. Microcontact printing of proteins. Nanobiotechnol. 31-52 (2004).
27. Weibel, D. B. et al. Bacterial printing press that regenerates its ink: Contact-printing bacteria using hydrogel stamps. Langmuir 21, 6436-6442 (2005).
28. Love, J. C., Estroff, L. A., Kriebel, J. K., Nuzzo, R. G. & Whitesides, G. M. Self-assembled monolayers of thiolates on metals as a form of nanotechnology. Chemical Reviews 105, 1103-1169 (2005).
29. Campbell, C. J., Smoukov, S. K., Bishop, K. J. M. & Grzybowski, B. A. Reactive surface micropatterning by wet stamping. Langmuir 21, 2637-2640 (2005).
30. Mayer, M., Yang, J., Gitlin, I., Gracias, D. H. & Whitesides, G. M. Micropatterned agarose gels for stamping arrays of proteins and gradients of proteins. Proteomics 4, 2366-2376 (2004).
31. Whitesides, G. M. The origins and the future of microfluidics. Nature 442, 368-373 (2006).
32. McDonald, J. C. et al. Fabrication of microfluidic systems in poly(dimethylsiloxane). Electrophoresis 21, 27-40 (2000).
33. Squires, T. M. & Quake, S. R. Microfluidics: Fluid physics at the nanoliter scale. Reviews of Modern Physics 77, 977-1026 (2005).
34. Jeon, N. L. et al. Generation of solution and surface gradients using microfluidic systems. Langmuir 16, 8311-8316 (2000).
35. Dertinger, S. K. W., Chiu, D. T., Jeon, N. L. & Whitesides, G. M. Generation of gradients having complex shapes using microfluidic networks. Anal. Chem. 79, 1240-1246 (2001).
36. Jiang, X. Y. et al. A general method for patterning gradients of biomolecules on surfaces using microfluidic networks. Anal. Chem. 77, 2338-2347 (2005).
37. Unger, M. A., Chou, H. P., Thorsen, T., Scherer, A. & Quake, S. R. Monolithic microfabricated valves and pumps by multilayer soft lithography. Science 288, 113-116 (2000).
38. Thorsen, T., Maerkl, S. J. & Quake, S. R. Microfluidic large-scale integration. Science 298, 580-584 (2002).
39. Liang, M. N. et al. Measuring the forces involved in polyvalent adhesion of uropathogenic Escherichia coli to mannose-presenting surfaces. Proc. Natl Acad. Sci. USA 97, 13092-13096 (2000).
40. Rowan, B., Wheeler, M. A. & Crooks, R. M. Patterning bacteria within hyperbranched polymer film templates. Langmuir 18, 9914-9917 (2002).
41. St John, P. M. et al. Diffraction-based cell detection using a microcontact printed antibody grating. Anal. Chem. 70, 1108-1111 (1998).
42. Morhard, F., Pipper, J., Dahint, R. & Grunze, M. Immobilization of antibodies in micropatterns for cell detection by optical diffraction. Sens Actuators B-Chem. 70, 232-242 (2000).
43. Howell, S. W., Inerowicz, H. D., Regnier, F. E. & Reifenberger, R. Patterned protein microarrays for bacterial detection. Langmuir 19, 436-439 (2003).
44. Rozhok, S. et al. Methods for fabricating microarrays of motile bacteria. Small 1, 445-451 (2005).
45. Suh, K. Y., Khademhosseini, A., Yoo, P. J. & Langer, R. Patterning and separating infected bacteria using host-parasite and virus-antibody interactions. Biomed. Microdevices 6, 223-229 (2004).
46. Heo, J., Thomas, K. J., Seong, G. H. & Crooks, R. M. A microfluidic bioreactor based on hydrogel-entrapped E. coli: Cell viability, lysis, and intracellular enzyme reactions. Anal. Chem. 75, 22-26 (2003).
47. Beebe, D. J., Mensing, G. A. & Walker, G. M. Physics and applications of microfluidics in biology. Annu. Rev. Biomed. Eng. 4, 261-286 (2002).
48. DiLuzio, W. R. et al. Escherichia coli swim on the right-hand side. Nature 435, 1271-1274 (2005).
49. Mao, H. B., Cremer, P. S. & Manson, M. D. A sensitive, versatile microfluidic assay for bacterial chemotaxis. Proc. Natl Acad. Sci. USA 100, 5449-5454 (2003).
50. Miller, M. B. & Bassler, B. L. Quorum sensing in bacteria. Annu. Rev. Microbiol. 55, 165-199 (2001).
51. Park, S. et al. Motion to form a quorum. Science 301, 188 (2003).
52. Park, S. et al. Influence of topology on bacterial social interaction. Proc. Natl Acad. Sci. USA 100, 13910-13915 (2003).
53. Keymer, J. E., Galajda, P., Muldoon, C., Park, S. & Austin, R. H. Bacterial meta populations in nanofabricated landscapes. Proc. Natl Acad. Sci. USA 103, 17290-17295 (2006).
54. Takeuchi, S., DiLuzio, W. R., Weibel, D. B. & Whitesides, G. M. Controlling the shape of filamentous cells of Escherichia coli. Nano Letters 5, 1819-1823 (2005).
55. Balaban, N. Q., Merrin, J., Chait, R., Kowalik, L. & Leibler, S. Bacterial persistence as a phenotypic switch. Science 305, 1622-1625 (2004).
56. Novick, A. & Szilard, L. Description of the chemostat. Science 112, 715-716 (1950).
57. Zhang, Z. et al. Microchemostat-microbial continuous culture in a polymer-based, instrumented microbioreactor. Lab Chip 6, 906-913 (2006).
58. Balagadde, F. K., You, L. C., Hansen, C. L., Arnold, F. H. & Quake, S. R. Long-term monitoring of bacteria undergoing programmed population control in a microchemostat. Science 309, 137-140 (2005).
59. Groisman, A. et al. A microfluidic chemostat for experiments with bacterial and yeast cells. Nature Methods 2, 685-689 (2005).
60. Darnton, N., Turner, L., Breuer, K. & Berg, H. C. Moving fluid with bacterial carpets. Biophys. J. 86, 1863-1870 (2004).
61. Kim, M. J. & Breuer, K. S. Enhanced diffusion due to motile bacteria. Phys. Fluids 16, L78-L81 (2004).
62. Hiratsuka, Y., Miyata, M. & Uyeda, T. Q. P. Living microtransporter by uni-directional gliding of Mycoplasma along microtracks. Biochem. Biophys. Res. Commun. 331, 318-324 (2005).
63. Hiratsuka, Y., Miyata, M., Tada, T. & Uyeda, T. Q. P. A microrotary motor powered by bacteria. Proc. Natl Acad. Sci. USA 103, 13618-13623 (2006).
64. Weibel, D. B. et al. Microoxen: Microorganisms to move microscale loads. Proc. Natl Acad. Sci. USA 102, 11963-11967 (2005).
65. Kim, J. et al. Cell lysis on a microfluidic CD (compact disc). Lab Chip 4, 516-522 (2004).
66. Enger, J., Goksoer, M., Ramser, K., Hagberg, P. & Hanstorp, D. Optical tweezers applied to a microfluidic system. Lab Chip 4, 196-200 (2004).
67. Nagamine, K. et al. On-chip transformation of bacteria. Anal. Chem. 77, 4278-4281 (2005).
68. Kricka, L. J. & Wilding, P. Microchip PCR. Anal. Bioanal. Chem. 377, 820-825 (2003).
69. Roper, M. G., Easley, C. J. & Landers, J. P. Advances in polymerase chain reaction on microfluidic chips. Anal. Chem. 77, 3887-3893 (2005).
70. Cady, N. C., Stelick, S., Kunnavakkam, M. V. & Batt, C. A. Real-time PCR detection of Listeria monocytogenes using an integrated microfluidics platform. Sens Actuators B-Chem. 107, 332-341 (2005).
71. Hong, J. W., Studer, V., Hang, G., Anderson. W. F. & Quake, S. R. A nanoliter-scale nucleic acid processor with parallel architecture. Nature Biotechnol. 22, 435-439 (2004).
72. Hong, J. W., Chen, Y., Anderson, W. F. & Quake, S. R. Molecular biology on a microfluidic chip. J. Phys. Condens. Matter 18, S691-S701 (2006).
73. Ottesen, E. A., Hong, J. W., Quake, S. R. & Leadbetter, J. R. Microfluidic digital PCR enables multigene analysis of individual environmental bacteria. Science 314, 1464-1467 (2006).
74. Ostuni, E., Kane, R., Chen, C., Ingber, D. & Whitesides, G. Patterning mammalian cells using elastomeric membranes. Langmuir 16, 7811-7819 (2000).