Ultrafast amplification of DNA on plastic microdevices for forensic short tandem repeat analysis

Journal of Forensic Sciences

Volumn 58, Issue 4, 2013, Pages 866-874

  Lounsbury, Jenny A ^a   Landers, James P ^a,b,c  

^a UNIVERSITY OF VIRGINIA   (United States)

^b UNIVERSITY OF VIRGINIA HEALTH SYSTEM   (United States)

^c University of Virginia   (United States)

Author keywords

Forensic science; Microchip polymerase chain reaction; Multichamber microchip; Poly (methyl methacrylate); Short tandem repeat analysis; Ultrafast amplification

Indexed keywords

MICROSATELLITE DNA; POLY (METHYL METHACRYLATE); POLY(METHYL METHACRYLATE);

ARTICLE; DNA FINGERPRINTING; EQUIPMENT; FORENSIC SCIENCE; HUMAN; MICROCHIP ANALYSIS; MICROCHIP POLYMERASE CHAIN REACTION; MULTICHAMBER MICROCHIP; POLYMERASE CHAIN REACTION; SHORT TANDEM REPEAT ANALYSIS; ULTRAFAST AMPLIFICATION;

FORENSIC SCIENCE; MICROCHIP POLYMERASE CHAIN REACTION; MULTICHAMBER MICROCHIP; POLY (METHYL METHACRYLATE); SHORT TANDEM REPEAT ANALYSIS; ULTRAFAST AMPLIFICATION;

DNA FINGERPRINTING; HUMANS; MICROCHIP ANALYTICAL PROCEDURES; MICROSATELLITE REPEATS; POLYMERASE CHAIN REACTION; POLYMETHYL METHACRYLATE;

EID: 84880168801     PISSN: 00221198     EISSN: 15564029     Source Type: Journal    
DOI: 10.1111/1556-4029.12162     Document Type: Article

References (43)

1. DNA Initiative. Defining, counting and reducing the casework backlog. The DNA Initiative-National Institute of Justice, http://www.dna.gov (accessed August 12, 2011).
2. Saiki RK, Scharf S, Faloona F, Mullis KB, Horn GT, Erlich HA, et al. Enzymatic amplification of beta-globin genomic sequences and restriction site analysis for diagnosis of sickle-cell anemia. Science 1985;230(4732):1350-4.
3. Easley CJ, Karlinsey JM, Bienvenue JM, Legendre LA, Roper MG, Feldman SH, et al. A fully integrated microfluidic genetic analysis system with sample-in-answer-out capability. Proc Natl Acad Sci USA 2006;103(51):19272-7.
4. Chien A, Edgar DB, Trela JM. Deoxyribonucleic-acid polymerase from extreme thermophile Thermus aquaticus. J Bacteriol 1976;127(3):1550-7.
5. Thermo Scientific advanced PCR enzymes, 2012 http://www.fermentas.com/templates/files/tiny_mce/media_pdf/phusion_and_phire_brochure_thermo_low.pdf (accessed January 12, 2012).
6. SpeedSTAR™ HS DNA polymerase product information, http://catalog.takara-bio.co.jp/en/PDFFiles/RR070A_e.pdf (accessed January 12, 2012).
7. Vallone PM, Hill CR, Butler JM. Demonstration of rapid multiplex PCR amplification involving 16 genetic loci. Forensic Sci Int Genet 2008;3(1):42-5.
8. Sun Y, Kwok YC, Lee PFP, Nguyen NT. Rapid amplification of genetically modified organisms using a circular ferrofluid-driven PCR microchip. Anal Bioanal Chem 2009;394(5):1505-8.
9. Kopp MU, de Mello AJ, Manz A. Chemical amplification: continuous-flow PCR on a chip. Science 1998;280(5366):1046-8.
10. Schneegab I, Brautigam R, Kohler JM. Miniaturized flow-through PCR with different template types in a silicon chip thermocycler. Lab Chip 2001;1(1):42-9.
11. 2 laser ablation. Microsystem Technologies-Micro-and Nanosystems-Information Storage and Processing Systems 2009;15(7):1027-30.
12. Ohashi T, Kuyama H, Hanafusa N, Togawa Y. A simple device using magnetic transportation for droplet-based PCR. Biomed Microdevices 2007;9(5):695-702.
13. Schaerli Y, Wootton RC, Robinson T, Stein V, Dunsby C, Neil MAA, et al. Continuous-flow polymerase chain reaction of single-copy DNA in microfluidic microdroplets. Anal Chem 2009;81(1):302-6.
14. Easley CJ, Humphrey JAC, Landers JP. Thermal isolation of microchip reaction chambers for rapid non-contact DNA amplification. J Micromech Microeng 2007;17(9):1758-66.
15. Reedy CR, Hagan KA, Marchiarullo DJ, Dewald AH, Barron A, Bienvenue JM, et al. A modular microfluidic system for deoxyribonucleic acid identification by short tandem repeat analysis. Anal Chim Acta 2011;687(2):150-8.
16. Manage DP, Morrissey YC, Stickel AJ, Lauzon J, Atrazhev A, Acker JP, et al. On-chip PCR amplification of genomic and viral templates in unprocessed whole blood. Microfluid Nanofluid 2011;10(3):697-702.
17. Kaigala GV, Hoang VN, Backhouse CJ. Electrically controlled microvalves to integrate microchip polymerase chain reaction and capillary electrophoresis. Lab Chip 2008;8(7):1071-8.
18. Roper MG, Easley CJ, Legendre LA, Humphrey JAC, Landers JP. Infrared temperature control system for a completely noncontact polymerase chain reaction in microfluidic chips. Anal Chem 2007;79(4):1294-300.
19. SWGDAM interpretation guidelines for autosomal STR typing by forensic DNA testing laboratories, http://www.fbi.gov/about-us/lab/codis/swgdam-interpretation-guidelines. (accessed February 24, 2012).
20. Liu P, Li X, Greenspoon SA, Scherer JR, Mathies RA. Integrated DNA purification, PCR, sample cleanup, and capillary electrophoresis microchip for forensic human identification. Lab Chip 2011;11(6):1041-8.
21. Sikanen T, Heikkila L, Tuornikoski S, Ketola RA, Kostiainen R, Franssila S, et al. Performance of SU-8 microchips as separation devices and comparison with glass microchips. Anal Chem 2007;79(16):6255-63.
22. Martinez AW, Phillips ST, Whitesides GM. Three-dimensional microfluidic devices fabricated in layered paper and tape. Proc Natl Acad Sci U S A 2008;105(50):19606-11.
23. Duarte GRM, Price CW, Augustine BH, Carrilho E, Landers JP. Dynamic solid phase DNA extraction and PCR amplification in polyester-toner based microchip. Anal Chem 2011;83(13):5182-9.
24. Jin QH, Liu BY, Zhang Y, Mayer D, Krause HJ, Zhao JL, et al. A simple poly (dimethylsiloxane) electrophoresis microchip with an integrated contactless conductivity detector. Microchim Acta 2011;172(1):193-8.
25. Chudy M, Grabowska I, Ciosek P, Filipowicz-Szymanska A, Stadnik D, Wyzkiewicz I, et al. Miniaturized tools and devices for bioanalytical applications: an overview. Anal Bioanal Chem 2009;395(3):647-68.
26. Liu JS, Wang JY, Chen ZG, Yu Y, Yang XJ, Zhang XB, et al. A three-layer PMMA electrophoresis microchip with Pt microelectrodes insulated by a thin film for contactless conductivity detection. Lab Chip 2011;11(5):969-73.
27. Wang J, Zhang Y, Mohamadi MR, Kaji N, Tokeshi M, Baba Y. Exceeding 20, 000-fold concentration of protein by the on-line isotachophoresis concentration in poly (methyl methacrylate) microchip. Electrophoresis 2009;30(18):3250-6.
28. Lounsbury JA, Poe BL, Do M, Landers JP. Laser-ablated poly (methyl methacrylate) microdevices for sub-microliter DNA amplification suitable for micro-total analysis systems. J Micromech Microeng 2012;22(8):085006.
29. Sun Y, Kwok YC, Nguyen NT. Low-pressure, high-temperature thermal bonding of polymeric microfluidic devices and their applications for electrophoretic separation. J Micromech Microeng 2006;16(8):1681-8.
30. Legendre LA, Bienvenue JM, Roper MG, Ferrance JP, Landers JP. A simple, valveless microfluidic sample preparation device for extraction and amplification of DNA from nanoliter-volume samples. Anal Chem 2006;78(5):1444-51.
31. Bi HY, Meng S, Li Y, Guo K, Chen YP, Kong JL, et al. Deposition of PEG onto PMMA microchannel surface to minimize nonspecific adsorption. Lab Chip 2006;6(6):769-75.
32. Liu JK, Pan T, Woolley AT, Lee ML. Surface-modified poly (methyl methacrylate) capillary electrophoresis microchips for protein and peptide analysis. Anal Chem 2004;76(23):6948-55.
33. Giordano BC, Ferrance J, Swedberg S, Huhmer AFR, Landers JP. Polymerase chain reaction in polymeric microchips: DNA amplification in less than 240 seconds. Anal Biochem 2001;291(1):124-32.
34. Lou XJ, Panaro NJ, Wilding P, Fortina P, Kricka LJ. Increased amplification efficiency of microchip-based PCR by dynamic surface passivation. Biotechniques 2004;36(2):248-52.
35. Jeon SI, Lee JH, Andrade JD, Degennes PG. Protein-surface interactions in the presence of polyethylene oxide 1-simplified theory. J Colloid Interface Sci 1991;142(1):149-58.
36. ® 16 system: high throughput databasing under reduced PCR volume conditions on Applied Biosystem's 96 capillary 3730xl DNA analyzer. J Forensic Sci 2008;53(6):1353-7.
37. Leclair B, Fregeau CJ, Bowen KL, Fourney RM. Systematic analysis of stutter percentages and allele peak height and peak area ratios at heterozygous STR loci for forensic casework and database samples. J Forensic Sci 2004;49(5):968-80.
38. Tan E, Giese H, Lam R, Selden R. Fast multiplexed polymerase chain reaction for conventional and microfluidic short tandem repeat analysis. J Forensic Sci 2009;54(6):1287-96.
39. Proff C, Rothschild MA, Schneider PM. Low volume PCR (LV-PCR) for STR typing of forensic casework samples. Int Congr Ser 2006;1288:645-7.
40. ® Profiler Plus™ kit. J Forensic Sci 2002;47(6):1-14.
41. Fuchiwaki Y, Nagai H, Saito M, Tamiya E. Ultra-rapid flow-through polymerase chain reaction microfluidics using vapor pressure. Biosens Bioelectron 2011;27(1):88-94.
42. Wheeler EK, Hara CA, Frank J, Deotte J, Hall SB, Benett W, et al. Under-three minute PCR: probing the limits of fast amplification. Analyst 2011;136(18):3707-12.
43. ® Gold RNA PCR reagent kit protocol, http://www3.appliedbiosystems.com/cms/groups/mcb_support/documents/generaldocuments/cms_041054.pdf (accessed January 12, 2012).