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Silicon µPCR chip for forensic STR profiling with hybeacon probe melting curves

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Abstract
The demand to perform forensic DNA profiling outside of centralized laboratories and on the crime scene is increasing. Several criminal investigations would benefit tremendously from having DNA based information available in the first hours rather than days or weeks. However, due to the complexity and time-consuming nature of standard DNA fingerprinting methods, rapid and automated analyses are hard to achieve. We here demonstrate the implementation of an alternative DNA fingerprinting method in a single microchip. By combining PCR amplification and HyBeacon melting assays in a silicon Lab-ona-chip (LoC), a significant step towards rapid on-site DNA fingerprinting is taken. The small form factor of a LoC reduces reagent consumption and increases portability. Additional miniaturization is achieved through an integrated heating element covering 24 parallel micro-reactors with a reaction volume of 0.14 mu l each. The high level of parallelization allows the simultaneous analysis of 4 short tandem repeat (STR) loci and the amelogenin gender marker commonly included in forensic DNA analysis. A reference and crime scene sample can be analyzed simultaneously for direct comparison. Importantly, by using industry-standard semiconductor manufacturing processes, mass manufacturability can be guaranteed. Following assay design and optimization, complete 5-loci profiles could be robustly generated onchip that are on par with those obtained using conventional benchtop real-time PCR thermal cyclers. Together, our results are an important step towards the development of commercial, mass-produced, portable devices for on-site testing in forensic DNA analysis.
Keywords
BOVINE SERUM-ALBUMIN, DEVELOPMENTAL VALIDATION, DNA, SYSTEM

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Please use this url to cite or link to this publication:

Chicago
Cornelis, Senne, Olivier Tytgat, Maarten Fauvart, Yannick Gansemans, Ann-Sophie Vander Plaetsen, Rodrigo S Wiederkehr, Dieter Deforce, Filip Van Nieuwerburgh, and Tim Stakenborg. 2019. “Silicon µPCR Chip for Forensic STR Profiling with Hybeacon Probe Melting Curves.” Scientific Reports 9 (1).
APA
Cornelis, Senne, Tytgat, O., Fauvart, M., Gansemans, Y., Vander Plaetsen, A.-S., Wiederkehr, R. S., Deforce, D., et al. (2019). Silicon µPCR chip for forensic STR profiling with hybeacon probe melting curves. SCIENTIFIC REPORTS, 9(1).
Vancouver
1.
Cornelis S, Tytgat O, Fauvart M, Gansemans Y, Vander Plaetsen A-S, Wiederkehr RS, et al. Silicon µPCR chip for forensic STR profiling with hybeacon probe melting curves. SCIENTIFIC REPORTS. 2019;9(1).
MLA
Cornelis, Senne et al. “Silicon µPCR Chip for Forensic STR Profiling with Hybeacon Probe Melting Curves.” SCIENTIFIC REPORTS 9.1 (2019): n. pag. Print.
@article{8618410,
  abstract     = {The demand to perform forensic DNA profiling outside of centralized laboratories and on the crime scene is increasing. Several criminal investigations would benefit tremendously from having DNA based information available in the first hours rather than days or weeks. However, due to the complexity and time-consuming nature of standard DNA fingerprinting methods, rapid and automated analyses are hard to achieve. We here demonstrate the implementation of an alternative DNA fingerprinting method in a single microchip. By combining PCR amplification and HyBeacon melting assays in a silicon Lab-ona-chip (LoC), a significant step towards rapid on-site DNA fingerprinting is taken. The small form factor of a LoC reduces reagent consumption and increases portability. Additional miniaturization is achieved through an integrated heating element covering 24 parallel micro-reactors with a reaction volume of 0.14 mu l each. The high level of parallelization allows the simultaneous analysis of 4 short tandem repeat (STR) loci and the amelogenin gender marker commonly included in forensic DNA analysis. A reference and crime scene sample can be analyzed simultaneously for direct comparison. Importantly, by using industry-standard semiconductor manufacturing processes, mass manufacturability can be guaranteed. Following assay design and optimization, complete 5-loci profiles could be robustly generated onchip that are on par with those obtained using conventional benchtop real-time PCR thermal cyclers. Together, our results are an important step towards the development of commercial, mass-produced, portable devices for on-site testing in forensic DNA analysis.},
  articleno    = {7341},
  author       = {Cornelis, Senne and Tytgat, Olivier and Fauvart, Maarten and Gansemans, Yannick and Vander Plaetsen, Ann-Sophie and Wiederkehr, Rodrigo S and Deforce, Dieter and Van Nieuwerburgh, Filip and Stakenborg, Tim},
  issn         = {2045-2322},
  journal      = {SCIENTIFIC REPORTS},
  keywords     = {BOVINE SERUM-ALBUMIN,DEVELOPMENTAL VALIDATION,DNA,SYSTEM},
  language     = {eng},
  number       = {1},
  pages        = {9},
  title        = {Silicon µPCR chip for forensic STR profiling with hybeacon probe melting curves},
  url          = {http://dx.doi.org/10.1038/s41598-019-43946-5},
  volume       = {9},
  year         = {2019},
}

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