Droplet microfluidics for single-cell analysis

Methods in Molecular Biology

Volumn 853, Issue , 2012, Pages 105-139

  Brouzes, Eric ^a  

^a St Francis Hospital The Heart Center   (United States)

Author keywords

Drop based microfluidic; Droplet microfluidics; Droplet modules; Fluorescence detection; High throughput; Microfluidic design; Microfluidics; PDMS; Screening; Single cell analysis; Soft lithography

Indexed keywords

SURFACTANT;

ANIMAL; ARTICLE; CHEMISTRY; EQUIPMENT DESIGN; HUMAN; INSTRUMENTATION; METHODOLOGY; MICROFLUIDIC ANALYSIS; MICROTECHNOLOGY; SINGLE CELL ANALYSIS;

ANIMALS; EQUIPMENT DESIGN; HUMANS; MICROFLUIDIC ANALYTICAL TECHNIQUES; MICROTECHNOLOGY; SINGLE-CELL ANALYSIS; SURFACE-ACTIVE AGENTS;

EID: 84858379461     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-61779-567-1_10     Document Type: Article

References (91)

1. Huebner A, Sharma S, Srisa-Art M et al (2008) Microdroplets: a sea of applications? Lab Chip 8:1244-1254
2. Lindstrom S, Andersson-Svahn H (2010) Overview of single-cell analyses: microdevices and applications. Lab on a Chip 10: 3363-3372
3. Song H, Chen D L, Ismagilov R F (2006) Reactions in droplets in microfl uidic channels. Angew Chem Int Ed Engl 45:7336-7356
4. Teh S Y, Lin R, Hung L H et al (2008) Droplet microfl uidics. Lab Chip 8:198-220
5. Taly V, Kelly B T, Griffi ths A D (2007) Droplets as microreactors for high-throughput biology. ChemBioChem 8:263-272
6. Brouzes E, Medkova M, Savenelli N et al (2009) Droplet microfl uidic technology for single-cell high-throughput screening. Proc Natl Acad Sci USA 106:14195-14200
7. Clausell-Tormos J, Lieber D, Baret J C et al (2008) Droplet-based microfl uidic platforms for the encapsulation and screening of Mammalian cells and multicellular organisms. Chem Biol 15:427-437
8. Holtze C, Rowat A C, Agresti J J et al (2008) Biocompatible surfactants for water-in-fl uorocarbon emulsions. Lab Chip 8:1632-1639
9. Koster S, Angile F E, Duan H et al (2008) Drop-based microfl uidic devices for encapsulation of single cells. Lab Chip 8:1110-1115
10. Ahn K, Agresti J, Chong H et al (2006) Electrocoalescence of drops synchronized by size-dependent fl ow in microfl uidic channels. Applied Physics Letters 88:264105
11. Baroud C N, de Saint Vincent M R, Delville J P (2007) An optical toolbox for total control of droplet microfl uidics. Lab Chip 7:1029-1033
12. Chabert M, Dorfman K D, Viovy J L (2005) Droplet fusion by alternating current (AC) fi eld electrocoalescence in microchannels. Electrophoresis 26:3706-3715
13. Link D R, Grasland-Mongrain E, Duri A et al (2006) Electric control of droplets in microfl uidic devices. Angew Chem Int Ed Engl 45:2556-2560
14. Niu X, Gulati S, Edel J B et al (2008) Pillarinduced droplet merging in microfl uidic circuits. Lab Chip 8:1837-1841
15. Priest C, Herminghaus S, Seemann R (2006) Controlled electrocoalescence in microfl uidics: Targeting a single lamella. Applied Physics Letters 89:134101
16. Abate A R, Hung T, Mary P et al (2010) Highthroughput injection with microfl uidics using picoinjectors. Proc Natl Acad Sci USA 107:19163-19166
17. Song H, Tice J D, Ismagilov R F (2003) A microfl uidic system for controlling reaction networks in time. Angew Chem Int Ed Engl 42:768-772
18. Frenz L, Blank K, Brouzes E et al (2009) Reliable microfl uidic on-chip incubation of droplets in delay-lines. Lab on a Chip 9:1344-1348
19. Ahn K, Kerbage K, Hunt T P et al (2006) Dielectrophoretic manipulation of drops for high-speed microfl uidic sorting devices. Applied Physics Letters 88:024104
20. Sarrazin F, Prat L, Di Miceli N et al (2007) Mixing characterization inside microdroplets engineered on a microcoalescer. Chemical Engineering Science 62:1042-1048
21. Song H, Ismagilov R F (2003) Millisecond Kinetics on a Microfl uidic Chip Using Nanoliters of Reagents. J. Am. Chem. Soc. 125:14613-14619
22. Chabert M, Viovy J L (2008) Microfl uidic high-throughput encapsulation and hydrodynamic self-sorting of single cells. Proc Natl Acad Sci USA 105:3191-3196
23. Edd J F, Di Carlo D, Humphry K J et al (2008) Controlled encapsulation of single-cells into monodisperse picolitre drops. Lab Chip 8:1262-1264
24. Sgro A E, Allen P B, Chiu D T (2007) Thermoelectric manipulation of aqueous droplets in microfl uidic devices. Anal Chem 79:4845-4851
25. Baret J C, Beck Y, Billas-Massobrio I et al (2010) Quantitative cell-based reporter gene assays using droplet-based microfl uidics. Chem Biol 17:528-536
26. Huebner A, Srisa-Art M, Holt D et al (2007) Quantitative detection of protein expression in single cells using droplet microfl uidics. Chem Commun 12:1218-1220
27. Boedicker J Q, Li L, Kline T R et al (2008) Detecting bacteria and determining their susceptibility to antibiotics by stochastic confi nement in nanoliter droplets using plug-based microfl uidics. Lab Chip 8:1265-1272
28. Luo C, Yang X, Fu Q et al (2006) Picolitervolume aqueous droplets in oil: electrochemical detection and yeast cell electroporation. Electrophoresis 27:1977-1983
29. Xiao K, Zhang M, Chen S et al (2010) Electroporation of micro-droplet encapsulated HeLa cells in oil phase. ELECTROPHORESIS 31:3175-3180
30. Zhan Y, Wang J, Bao N et al (2009) Electroporation of cells in microfl uidic droplets. Anal Chem 81:2027-2031
31. He M, Edgar J S, Jeffries G D et al (2005) Selective encapsulation of single cells and subcellular organelles into picoliter- and femtolitervolume droplets. Anal Chem 77:1539-1544
32. Novak R, Zeng Y, Shuga J et al (2011) Single-cell multiplex gene detection and sequencing with microfl uidically generated agarose emulsions. Angew Chem Int Ed Engl 50:390-395
33. Vijayakumar K, Gulati S, deMello A J et al (2010) Rapid cell extraction in aqueous twophase microdroplet systems. Chemical Science 1:447-452
34. Konry T, Dominguez-Villar M, Baecher-Allan C et al (2011) Droplet-based microfl uidic platforms for single T cell secretion analysis of IL-10 cytokine. Biosensors and Bioelectronics 26:2707-2710
35. Chen D, Du W, Liu Y et al (2008) The chemistrode: a droplet-based microfl uidic device for stimulation and recording with high temporal, spatial, and chemical resolution. Proc Natl Acad Sci USA 105:16843-16848
36. Liu W, Kim H J, Lucchetta E M et al (2009) Isolation, incubation, and parallel functional testing and identifi cation by FISH of rare microbial single-copy cells from multi-species mixtures using the combination of chemistrode and stochastic confi nement. Lab Chip 9:2153-2162
37. Joensson H N, Samuels M L, Brouzes E R et al (2009) Detection and analysis of cell surface biomarkers expressed at extremely low levels using enzymatic amplifi cation in microfl uidic droplets. Angew Chem Int Ed Engl 48:2518-2521
38. Agresti J J, Antipov E, Abate A R et al (2010) Ultrahigh-throughput screening in drop-basedmicrofl uidics for directed evolution. Proc Natl Acad Sci USA 107:4004-4009
39. Baret J C, Miller O J, Taly V et al (2009) Fluorescence-activated droplet sorting (FADS): effi cient microfl uidic cell sorting based on enzymatic activity. Lab Chip 9:1850-1858
40. Kumaresan P, Yang C J, Cronier S A et al (2008) High-throughput single copy DNA amplifi cation and cell analysis in engineered nanoliter droplets. Anal Chem 80:3522-3529
41. Zeng Y, Novak R, Shuga J et al (2010) High- Performance Single Cell Genetic Analysis Using Microfl uidic Emulsion Generator Arrays. Anal Chem 82:3183-3190
42. Johnston K P, Harrison K L, Clarke M J et al (1996) Water-in- CarbonDioxideMicroemulsions: An Environment for Hydrophiles Including Proteins. Science 271:624-626
43. Schmitz C H, Rowat A C, Koster S et al (2009) Dropspots: a picoliter array in a microfl uidic device. Lab Chip 9:44-49
44. Huebner A, Olguin L F, Bratton D et al (2008) Development of Quantitative Cell-Based Enzyme Assays in Microdroplets. Analytical Chemistry 80:3890-3896
45. Shim J-u, Olguin L F, Whyte G et al (2009) Simultaneous Determination of Gene Expression and Enzymatic Activity in Individual Bacterial Cells in Microdroplet Compartments. Journal of the American Chemical Society 131:15251-15256
46. Granieri L, Baret J-C, Griffi ths A D et al (2010) High-Throughput Screening of Enzymes by Retroviral Display Using Droplet-Based Microfl uidics. Chemistry.biology 17:229-235
47. Srisa-Art M, Bonzani I C, Williams A et al (2009) Identifi cation of rare progenitor cells from human periosteal tissue using droplet microfl uidics. Analyst 134:2239-2245
48. Abbyad P, Tharaux P-L, Martin J-L et al (2010) Sickling of red blood cells through rapid oxygen exchange in microfl uidic drops. Lab on a Chip 10:2505-2512
49. Bai Y, He X, Liu D et al (2010) A double droplet trap system for studying mass transport across a droplet-droplet interface. Lab on a Chip 10:1281-1285
50. Courtois F, Olguin L F, Whyte G et al (2009) Controlling the Retention of Small Molecules in Emulsion Microdroplets for Use in Cell-Based Assays. Analytical Chemistry 81:3008-3016
51. Wootton R C, Demello A J (2010) Microfl uidics: Exploiting elephants in the room. Nature 464:839-840
52. Wu N, Courtois F, Zhu Y et al (2010) Management of the diffusion of 4-methylumbelliferone across phases in microdroplet-based systems for in vitro protein evolution. ELECTROPHORESIS 31:3121-3128
53. Kreutz J E, Shukhaev A, Du W et al (2010) Evolution of catalysts directed by genetic algorithms in a plug-based microfl uidic device tested with oxidation of methane by oxygen. J Am Chem Soc 132:3128-3132
54. Tewhey R, Warner J B, Nakano M et al (2010) Microdroplet-based PCR enrichment for largescale targeted sequencing. Nat Biotechnol 27:1025-1031
55. Holt D J, Payne R J, Abell C (2010) Synthesis of novel fl uorous surfactants for microdroplet stabilisation in fl uorous oil streams. Journal of Fluorine Chemistry 131:398-407
56. Holt D J, Payne R J, Chow W Y et al (2010) Fluorosurfactants for microdroplets: Interfacial tension analysis. Journal of Colloid and Interface Science 350:205-211
57. Roach L S, Song H, Ismagilov R F (2005) Controlling nonspecifi c protein adsorption in a plug-based microfl uidic system by controlling interfacial chemistry using fl uorous-phase surfactants. Anal Chem 77:785-796
58. Baroud C N, Gallaire F, Dangla R (2010) Dynamics of microfl uidic droplets. Lab Chip 10:2032-2045
59. Di Carlo D, Irimia D, Tompkins R G et al (2007) Continuous inertial focusing, ordering, and separation of particles in microchannels. Proc Natl Acad Sci USA 104:18892-18897
60. Humphry K J, Kulkarni P M, Weitz D A et al (2010) Axial and lateral particle ordering in fi nite Reynolds number channel fl ows. Phys. Fluids 22:081703
61. Niu X, Gielen F, deMello A J et al (2009) Electro-Coalescence of Digitally Controlled Droplets. Analytical Chemistry 81:7321-7325
62. Abate A R, Chen C H, Agresti J J et al (2009) Beating Poisson encapsulation statistics using close-packed ordering. Lab Chip 9:2628-2631
63. Srisa-Art M, deMello A J, Edel J B (2009) High-throughput confi nement and detection of single DNA molecules in aqueous microdroplets. Chemical Communications6548-6550
64. Rowat A C, Weitz D A (2008) How to easily punch holes in a PDMS microfl uidic device. Lab on a Chip. Chips.*Tips. http://www.rsc. org/Publishing/Journals/lc/Chips-and-Tips/punching-holes.asp .
65. Eddings M A, Johnsson M A, Gale B K (2008) Determining the optimal PDMS-PDMS bonding technique for microfl uidic devices. Journal of Micromechanics and Microengineering 18:067001
66. Fuerstman M J, Lai A, Thurlow M E et al (2007) The pressure drop along rectangular microchannels containing bubbles. Lab Chip 7:1479-1489
67. Duffy D C, McDonald J C, Schueller O J A et al (1998) Rapid Prototyping of Microfl uidic Systems in Poly(dimethylsiloxane). Anal. Chem. 70:4974-4984
68. McDonald J C, Duffy D C, Anderson J R et al (2000) Fabrication of microfl uidic systems in poly(dimethylsiloxane). Electrophoresis 21:27-40
69. Qin D, Xia Y, Whitesides G M (1996) Rapid prototyping of complex structures with feature sizes larger than 20 m. Advanced Materials 8:917-919
70. Microchem. PROCESSING GUIDELINES FOR: SU-8 2025, SU-8 2035, SU-8 2050 and SU-8 2075. Data Sheet. http://www. m i c r o c h e m . c o m / p r o d u c t s / p d f / S U - 8 2 0 0 0 D a t a S h e e t 8 2 0 2 5 t h r u 82075Ver82004.pdf .
71. Hung L H, Lin R, Lee A P (2008) Rapid microfabrication of solvent-resistant biocompatible microfl uidic devices. Lab Chip 8:983-987
72. Tan J L, Tien J, Pirone D M et al (2003) Cells lying on a bed of microneedles: an approach to isolate mechanical force. Proc Natl Acad Sci USA 100:1484-1489
73. Wang J, Zheng M, Wang W et al (2010) Optimal Protocol for Molding PDMS with a PDMS master. Lab on a Chip. Chips.*Tips. http://www.rsc.org/ Publishing/Journals/lc/ Chips-and-Tips/moldingPDMS.asp .
74. Desai S P, Freeman D M, Voldman J (2009) Plastic masters-rigid templates for soft lithography. Lab Chip 9:1631-1637
75. Estevez-Torres A, Yamada A, Wang L (2009) An inexpensive and durable epoxy mold for PDMS. Lab on a Chip. Chips.*Tips. http:// www.rsc.org/Publishing/Journals/lc/Chips-and-Tips/epoxy-mould.asp .
76. LaFratta C N (2010) Degas PDMS in Two Minutes Using a Centrifuge. Lab on a Chip. Chips.Tips. http://www.rsc.org/Publishing/ Journals/lc/Chips-and-Tips/ degas-PDMS.asp .
77. O'Neil A, Soo Hoo J, Walker G (2006) Rapid curing of PDMS for microfl uidic applications. Lab on a Chip. Chips.*Tips. http://www.rsc. org/Publishing/Journals/lc/Chips-and-Tips/index.asp .
78. Siegel A C, Shevkoplyas S S, Weibel D B et al (2006) Cofabrication of electromagnets and microfluidic systems in poly(dimethy-lsiloxane). Angew Chem Int Ed Engl 45:6877-6882
79. Clausell-Tormos J, Griffi ths A D, Merten C A (2010) An automated two-phase microfl uidic system for kinetic analyses and the screening of compound libraries. Lab on a Chip 10:1302-1307
80. Ward T, Faivre M, Abkarian M et al (2005) Microfl uidic fl ow focusing: drop size and scaling in pressure versus fl ow-rate-driven pumping. Electrophoresis 26:3716-3724
81. Lindmo T, Steen H B (1979) Characteristics of a simple, high-resolution fl ow cytometer based o a new fl ow confi guration. Biophys J 28:33-44
82. Steen H B, Lindmo T (1979) Flow cytometry: a high-resolution instrument for everyone. Science 204:403-404
83. Baret J C (2009) A remote syringe for cells, beads and particle injection in microfl uidic channels. Lab on a Chip. Chips. Tips. http:// www.rsc.org/Publishing/Journals/lc/Chips-and-Tips/remote-syringe.asp .
84. Hinderliter P M, DeLorme M P, Kennedy G L (2006) Perfl uorooctanoic acid: relationship between repeated inhalation exposures and plasma PFOA concentration in the rat. Toxicology 222:80-85
85. So M K, Yamashita N, Taniyasu S et al (2006) Health risks in infants associated with exposure to perfl uorinated compounds in human breast milk from Zhoushan, China. Environ Sci Technol 40:2924-2929
86. Frenz L, Blouwolff J, Griffi ths A D et al (2008) Microfl uidic production of droplet pairs. Langmuir 24:12073-12076
87. Hashimoto M, Shevkoplyas S S, Zasonska B et al (2008) Formation of bubbles and droplets in parallel, coupled fl ow-focusing geometries. Small 4:1795-1805
88. Hong J, Choi M, Edel J B et al (2010) Passive self-synchronized two-droplet generation. Lab on a Chip 10:2702-2709
89. Prat L, Sarrazin F, Tasseli J et al (2006) Increasing and decreasing droplets velocity in microchannels. Microfl uidics and Nanofl uidics Volume 2:271-274
90. Begolo S, Colas G, Viovy J L et al (2011) New family of fl uorinated polymer chips for droplet and organic solvent microfl uidics. Lab Chip 11:508-512
91. Shapiro H M (2003) Practical fl ow cytometry. Wiley-Liss, New York