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Multiplex STR amplification sensitivity in a silicon microchip

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Abstract
The demand for solutions to perform forensic DNA profiling outside of centralized laboratories is increasing. We here demonstrate highly sensitive STR amplification using a silicon micro-PCR (mu PCR) chip. Exploiting industry-standard semiconductor manufacturing processes, a device was fabricated that features a small form factor thanks to an integrated heating element covering three parallel micro-reactors with a reaction volume of 0.5 mu l each. Diluted reference DNA samples (1 ng-31 pg) were amplified on the mu PCR chip using the forensically validated AmpFISTR Identifier Plus kit, followed by conventional capillary electrophoresis. Complete STR profiles were generated with input DNA quantities down to 62 pg. Occasional allelic dropouts were observed from 31 pg downward. On-chip STR profiles were compared with those of identical samples amplified using a conventional thermal cycler for direct comparison of amplification sensitivity in a forensic setting. The observed sensitivity was in line with kit specifications for both mu PCR and conventional PCR. Finally, a rapid amplification protocol was developed. Complete STR profiles could be generated in less than 17 minutes from as little as 125 pg template DNA. Together, our results are an important step towards the development of commercial, mass-produced, relatively cheap, handheld devices for on-site testing in forensic DNA analysis.
Keywords
FORENSIC DNA ANALYSIS, RAPID PCR, SYSTEM, PERFORMANCE, VALIDATION, SAMPLES, DEVICE, BLOOD

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MLA
Cornelis, Senne, Maarten Fauvart, Yannick Gansemans, et al. “Multiplex STR Amplification Sensitivity in a Silicon Microchip.” SCIENTIFIC REPORTS 8 (2018): n. pag. Print.
APA
Cornelis, Senne, Fauvart, M., Gansemans, Y., Vander Plaetsen, A.-S., Colle, F., Wiederkehr, R. S., Deforce, D., et al. (2018). Multiplex STR amplification sensitivity in a silicon microchip. SCIENTIFIC REPORTS, 8.
Chicago author-date
Cornelis, Senne, Maarten Fauvart, Yannick Gansemans, Ann-Sophie Vander Plaetsen, Frederik Colle, Rodrigo S Wiederkehr, Dieter Deforce, Tim Stakenborg, and Filip Van Nieuwerburgh. 2018. “Multiplex STR Amplification Sensitivity in a Silicon Microchip.” Scientific Reports 8.
Chicago author-date (all authors)
Cornelis, Senne, Maarten Fauvart, Yannick Gansemans, Ann-Sophie Vander Plaetsen, Frederik Colle, Rodrigo S Wiederkehr, Dieter Deforce, Tim Stakenborg, and Filip Van Nieuwerburgh. 2018. “Multiplex STR Amplification Sensitivity in a Silicon Microchip.” Scientific Reports 8.
Vancouver
1.
Cornelis S, Fauvart M, Gansemans Y, Vander Plaetsen A-S, Colle F, Wiederkehr RS, et al. Multiplex STR amplification sensitivity in a silicon microchip. SCIENTIFIC REPORTS. 2018;8.
IEEE
[1]
S. Cornelis et al., “Multiplex STR amplification sensitivity in a silicon microchip,” SCIENTIFIC REPORTS, vol. 8, 2018.
@article{8570473,
  abstract     = {The demand for solutions to perform forensic DNA profiling outside of centralized laboratories is increasing. We here demonstrate highly sensitive STR amplification using a silicon micro-PCR (mu PCR) chip. Exploiting industry-standard semiconductor manufacturing processes, a device was fabricated that features a small form factor thanks to an integrated heating element covering three parallel micro-reactors with a reaction volume of 0.5 mu l each. Diluted reference DNA samples (1 ng-31 pg) were amplified on the mu PCR chip using the forensically validated AmpFISTR Identifier Plus kit, followed by conventional capillary electrophoresis. Complete STR profiles were generated with input DNA quantities down to 62 pg. Occasional allelic dropouts were observed from 31 pg downward. On-chip STR profiles were compared with those of identical samples amplified using a conventional thermal cycler for direct comparison of amplification sensitivity in a forensic setting. The observed sensitivity was in line with kit specifications for both mu PCR and conventional PCR. Finally, a rapid amplification protocol was developed. Complete STR profiles could be generated in less than 17 minutes from as little as 125 pg template DNA. Together, our results are an important step towards the development of commercial, mass-produced, relatively cheap, handheld devices for on-site testing in forensic DNA analysis.},
  articleno    = {9853},
  author       = {Cornelis, Senne and Fauvart, Maarten and Gansemans, Yannick and Vander Plaetsen, Ann-Sophie and Colle, Frederik and Wiederkehr, Rodrigo S and Deforce, Dieter and Stakenborg, Tim and Van Nieuwerburgh, Filip},
  issn         = {2045-2322},
  journal      = {SCIENTIFIC REPORTS},
  keywords     = {FORENSIC DNA ANALYSIS,RAPID PCR,SYSTEM,PERFORMANCE,VALIDATION,SAMPLES,DEVICE,BLOOD},
  language     = {eng},
  pages        = {8},
  title        = {Multiplex STR amplification sensitivity in a silicon microchip},
  url          = {http://dx.doi.org/10.1038/s41598-018-28229-9},
  volume       = {8},
  year         = {2018},
}

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