Optical manipulation and control of real-time PCR in cell encapsulating microdroplets by IR laser

Microfluidics and Nanofluidics

Volumn 13, Issue 6, 2012, Pages 967-975

  Hettiarachchi, Kanaka ^a   Kim, Hanyoup ^a   Faris, Gregory W ^a  

^a SRI INTERNATIONAL   (United States)

Author keywords

Breast cancer; Epigenetics; Lab on a chip; Microdroplet; Optical microfluidics; Polymerase chain Reaction

Indexed keywords

AMPLICONS; BREAST CANCER; BREAST CANCER CELLS; CELL LYSIS; COMMERCIAL SYSTEMS; DNA ANALYSIS; DROPLET MANIPULATION; DROPLET VOLUME; EPIGENETICS; IR LASERS; LAB ON A CHIP; LIVE CELL; LOW POWER; LYSIS BUFFER; MELTING CURVES; MICRO DROPLETS; MICRO REACTOR; MICROFLUIDIC PLATFORMS; MICROFLUIDIC TECHNOLOGIES; MULTIPLE CELLS; NANOLITERS; OPTICAL MANIPULATION; PETRI DISH; RAPID THERMAL CYCLING; REAL-TIME PCR; REAL-TIME POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTION-POLYMERASE CHAIN REACTION; SIMPLE APPROACH; SINGLE-CELL LEVEL;

ALKYLATION; ASSAYS; CELLS; CYTOLOGY; DNA; DROPS; INTEGRATED NANOLITER SYSTEMS; LASERS; MICROFLUIDICS; MINERAL OILS; MOLECULAR BIOLOGY; POLYMERS;

POLYMERASE CHAIN REACTION;

EID: 84871815084     PISSN: 16134982     EISSN: 16134990     Source Type: Journal    
DOI: 10.1007/s10404-012-1016-5     Document Type: Article

References (49)

1. Abate AR, Chen CH, Agresti JJ, Weitz DA (2009) Beating Poisson encapsulation statistics using close-packed ordering. Lab Chip 9:2628-2631
2. Abràmoff MD, Magalhães PJ, Ram SJ (2004) Image processing with ImageJ. Biophotonics Int 11:36-42
3. Basu AS, Gianchandani YB (2008) Virtual microfluidic traps, filters, channels and pumps using Marangoni flows. J Micromech Microeng 18:115031
4. Beer NR, Hindson BJ, Wheeler EK, Hall SB, Rose KA, Kennedy IM, Colston BW (2007) On-chip, real-time, single-copy polymerase chain reaction in picoliter droplets. Anal Chem 79:8471-8475 (Pubitemid 350171354)
5. Bianco T, Chenevix-Trench G, Walsh DC, Cooper JE, Dobrovic A (2000) Tumour-specific distribution of BRCA1 promoter region methylation supports a pathogenetic role in breast and ovarian cancer. Carcinogenesis 21:147-151 (Pubitemid 30098695)
6. Bird AP (1980) DNA methylation and the frequency of CpG in animal DNA. Nucleic Acids Res 8:1499-1504
7. Dixit SS, Kim H, Vasilyev A, Eid A, Faris GW (2010) Light-driven formation and rupture of droplet bilayers. Langmuir 26:6193-6200
8. Dixit SS, Pincus A, Guo B, Faris GW (2012) Droplet shape analysis and permeability studies in droplet lipid bilayers. Langmuir 28:7442-7451
9. Dorfman KD, Chabert M, Codarbox J-H, Rousseau G, de Cremoux P, Viovy J-L (2005) Contamination-free continuous flow microfluidic polymerase chain reaction for quantitative and clinical applications. Anal Chem 77:3700-3704 (Pubitemid 40799864)
10. Edd JF, Di Carlo D, Humphry KJ, Koster S, Irimia D, Weitz DA, Toner M (2008) Controlled encapsulation of single-cells into monodisperse picolitre drops. Lab Chip 8:1262-1264
11. Erlich HA, Gelfand D, Sninsky JJ (1991) Recent advances in the polymerase chain reaction. Science 252:1643-1651 (Pubitemid 21917080)
12. Hatch AC, Fisher JS, Pentoney SL, Yang DL, Lee AP (2011) Tunable 3D droplet self-assembly for ultra-high-density digital microreactor arrays. Lab Chip 11:2509-2517
13. Herman JG, Graff JR, Myöhänen S, Nelkin BD, Baylin SB (1996) Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands. Proc Natl Acad Sci USA 93:9821-9826 (Pubitemid 26296693)
14. Hu W, Ohta A (2011) Aqueous droplet manipulation by optically induced Marangoni circulation. Microfluid Nanofluid 11:307-316
15. Hühmer AFR, Landers JP (2000) Noncontact infrared-mediated thermocycling for effective polymerase chain reaction amplification of DNA in nanoliter volumes. Anal Chem 72:5507-5512
16. Hunt HC, Wilkinson JS (2008) Optofluidic integration for microanalysis. Microfluid Nanofluid 4:53-79 (Pubitemid 350176269)
17. Kim H, Dixit S, Green CJ, Faris GW (2009a) Nanodroplet real-time PCR system with laser assisted heating. Opt Express 17:218-227
18. Kim H, Vishniakou S, Faris GW (2009b) Petri dish PCR: laser-heated reactions in nanoliter droplet arrays. Lab Chip 9:1230-1235
19. Kiss MM, Ortoleva-Donnelly L, Beer NR, Warner J, Bailey CG, Colston BW, Rothberg JM, Link DR, Leamon JH (2008) High-throughput quantitative polymerase chain reaction in picoliter droplets. Anal Chem 80:8975-8981
20. Kotz KT, Noble KA, Faris GW (2004) Optical microfluidics. Appl Phys Lett 85:2658-2660
21. Kotz KT, Gu Y, Faris GW (2005) Optically addressed droplet-based protein assay. J Am Chem Soc 127:5736-5737 (Pubitemid 40577601)
22. Kumaresan P, Yang CJ, Cronier SA, Blazej RG, Mathies RA (2008) High-throughput single copyDNAamplification and cell analysis in engineered nanoliter droplets. Anal Chem 80:3522-3529 (Pubitemid 351711190)
23. Lee D, Chen P-J, Lee G-B (2010) The evolution of real-time PCR machines to real-time PCR chips. Biosens Bioelectron 25:1820-1824
24. Liu RH, Yang J, Lenigk R, Bonanno J, Grodzinski P (2004) Self-contained, fully integrated biochip for sample preparation, polymerase chain reaction amplification, and DNA microarray detection. Anal Chem 76:1824-1831 (Pubitemid 38451495)
25. Marcus JS, Anderson WF, Quake SR (2006) Microfluidic single-cell mRNA isolation and analysis. Anal Chem 78:3084-3089 (Pubitemid 43726129)
26. Mazutis L, Araghi AF, Miller OJ, Baret J-C, Frenz L, Janoshazi A, Taly V, Miller BJ, Hutchison JB, Link D, Griffiths AD, Ryckelynck M (2009) Droplet-based microfluidic systems for high-throughput single DNA molecule isothermal amplification and analysis. Anal Chem 81:4813-4821
27. Morimoto Y, Tan W-H, Tsuda Y, Takeuchi S (2009) Monodisperse semi-permeable microcapsules for continuous observation of cells. Lab Chip 9:2217-2223
28. Nagrath S, Sequist LV, Maheswaran S, Bell DW, Irimia D, Ulkus L, Smith MR, Kwak EL, Digumarthy S, Muzikansky A, Ryan P, Balis UJ, Tompkins RG, Haber DA, Toner M (2007) Isolation of rare circulating tumour cells in cancer patients by microchip technology. Nature 450:1235-1239
29. Nakano M, Komatsu J, Matsuura S-I, Takashima K, Katsura S, Mizuno A (2003) Single-molecule PCR using water-in-oil emulsion. J Biotechnol 102:117-124 (Pubitemid 36412156)
30. Nishimura T, Ogura Y, Tanida J (2012) Optofluidic DNA computation based on optically manipulated microdroplets. Microfluid Nanofluid. doi:10.1007/s10404-012-0934-6
31. Northrup MA, Benett B, Hadley D, Landre P, Lehew S, Richards J, Stratton P (1998) A miniature analytical instrument for nucleic acids based on micromachined silicon reaction chambers. Anal Chem 70:918-922
32. Oda RP, Strausbauch MA, Huhmer AFR, Borson N, Jurrens SR, Craighead J, Wettstein PJ, Eckloff B, Kline B, Landers JP (1998) Infrared-mediated thermocycling for ultrafast polymerase chain reaction amplification of DNA. Anal Chem 70:4361-4368
33. Ohashi T, Kuyama H, Hanafusa N, Togawa Y (2007) A simple device using magnetic transportation for droplet-based PCR. Biomed Microdevices 9:695-702 (Pubitemid 47337892)
34. Roper MG, Easley CJ, Landers JP (2005) Advances in polymerase chain reaction on microfluidic chips. Anal Chem 77:3887-3893 (Pubitemid 40848055)
35. Schaerli Y, Wootton RC, Robinson T, Stein V, Dunsby C, Neil MAA, French PMW, Demello AJ, Abell C, Hollfelder F (2009) Continuous-flow polymerase chain reaction of single-copy DNA in microfluidic microdroplets. Anal Chem 81:302-306
36. Shi W, Qin J, Ye N, Lin B (2008) Droplet-based microfluidic system for individual Caenorhabditis elegans assay. Lab Chip 8:1432-1435
37. Sundberg SO, Wittwer CT, Gao C, Gale BK (2010) Spinning disk platform for microfluidic digital polymerase chain reaction. Anal Chem 82:1546-1550
38. Tan Y-C, Hettiarachchi K, Siu M, Pan Y-R, Lee AP (2006) Controlled microfluidic encapsulation of cells, proteins, and microbeads in lipid vesicles. J Am Chem Soc 128:5656-5658 (Pubitemid 43724367)
39. Teh S-Y, Lin R, Hung L-H, Lee AP (2008) Droplet microfluidics. Lab Chip 8:198-220 (Pubitemid 351191417)
40. Terazono H, Hattori A, Takei H, Takeda K, Yasuda K (2008) Development of 1,480 nm photothermal high-speed real-time polymerase chain reaction system for rapid nucleotide recognition. Jpn J Appl Phys 47:5212-5216
41. Tewhey R, Warner JB, Nakano M, Libby B, Medkova M, David PH, Kotsopoulos SK, Samuels ML, Hutchison JB, Larson JW, Topol EJ, Weiner MP, Harismendy O, Olson J, Link DR, Frazer KA (2009) Microdroplet-based PCR enrichment for large-scale targeted sequencing. Nat Biotechnol 27:1025-1031
42. Thakur S, Nakamura T, Calin G, Russo A, Tamburrino JF, Shimizu M, Baldassarre G, Battista S, Fusco A, Wassell RP, Dubois G, Alder H, Croce CM (2003) Regulation of BRCA1 transcription by specific single-stranded DNA binding factors. Mol Cell Biol 23:3774-3787 (Pubitemid 36597458)
43. Wang F, Burns MA (2009) Performance of nanoliter-sized droplet-based microfluidic PCR. Biomed Microdev 11:1071-1080
44. Wei M, Grushko TA, Dignam J, Hagos F, Nanda R, Sveen L, Xu J, Fackenthal J, Tretiakova M, Das S, Olopade OI (2005) BRCA1 promoter methylation in sporadic breast cancer is associated with reduced BRCA1 copy number and chromosome 17 aneusomy. Cancer Res 65:10692-10699 (Pubitemid 41713336)
45. Weis JH, Tan SS, Martin BK, Wittwer CT (1992) Detection of rare mRNAs via quantitative RT-PCR. Trends Genet 8:263-264
46. Yang X, Yan L, Davidson NE (2001) DNA methylation in breast cancer. Endocr-Relat Cancer 8:115-127 (Pubitemid 32641353)
47. Yu Y, Li B, Baker CA, Zhang X, Roper MG (2012) Quantitative polymerase chain reaction using infrared heating on a microfluidic chip. Anal Chem 84:2825-2829
48. Zamorano PL, Mahesh VB, Brann DW (1996) Quantitative RT-PCR for neuroendocrine studies: A mini review. Neuroendocrinology 63:397-407
49. Zhang Y, Bailey V, Puleo CM, Easwaran H, Griffiths E, Herman JG, Baylin SB, Wang T-H (2009) DNA methylation analysis on a droplet-in-oil PCR array. Lab Chip 9:1059-1064