Microfluidic DNA fragmentation for on-chip genomic analysis

Lingling Shui, Johan G. Bomer, Mingliang Jin, Edwin Carlen, Albert van den Berg

Research output: Contribution to journalArticleAcademicpeer-review

17 Citations (Scopus)

Abstract

We report a high-throughput clog-free microfluidic deoxyribonucleic acid (DNA) fragmentation chip that is based on hydrodynamic shearing. Salmon sperm DNA has been reproducibly fragmented down to ∼5k bp fragment lengths by applying low hydraulic pressures (≤1 bar) across micromachined constrictions positioned in larger microfluidic channels that create point-sink flow with large velocity gradients near the constriction entrance. Long constrictions (100 μm) produce shorter fragment lengths compared to shorter constrictions (10 μm), while increasing the hydrodynamic pressure requirement. Sample recirculation (10×) in short constrictions reduces the mean fragment length and fragment length variation, and improves yield compared to single-pass experiments without increasing the hydrodynamic pressure.
Original languageUndefined
Pages (from-to)494013-494019
Number of pages7
JournalNanotechnology
Volume22
Issue number49
DOIs
Publication statusPublished - 9 Dec 2011

Keywords

  • IR-78738
  • EWI-20924

Cite this

Shui, Lingling ; Bomer, Johan G. ; Jin, Mingliang ; Carlen, Edwin ; van den Berg, Albert. / Microfluidic DNA fragmentation for on-chip genomic analysis. In: Nanotechnology. 2011 ; Vol. 22, No. 49. pp. 494013-494019.
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Microfluidic DNA fragmentation for on-chip genomic analysis. / Shui, Lingling; Bomer, Johan G.; Jin, Mingliang; Carlen, Edwin; van den Berg, Albert.

In: Nanotechnology, Vol. 22, No. 49, 09.12.2011, p. 494013-494019.

Research output: Contribution to journalArticleAcademicpeer-review

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T1 - Microfluidic DNA fragmentation for on-chip genomic analysis

AU - Shui, Lingling

AU - Bomer, Johan G.

AU - Jin, Mingliang

AU - Carlen, Edwin

AU - van den Berg, Albert

PY - 2011/12/9

Y1 - 2011/12/9

N2 - We report a high-throughput clog-free microfluidic deoxyribonucleic acid (DNA) fragmentation chip that is based on hydrodynamic shearing. Salmon sperm DNA has been reproducibly fragmented down to ∼5k bp fragment lengths by applying low hydraulic pressures (≤1 bar) across micromachined constrictions positioned in larger microfluidic channels that create point-sink flow with large velocity gradients near the constriction entrance. Long constrictions (100 μm) produce shorter fragment lengths compared to shorter constrictions (10 μm), while increasing the hydrodynamic pressure requirement. Sample recirculation (10×) in short constrictions reduces the mean fragment length and fragment length variation, and improves yield compared to single-pass experiments without increasing the hydrodynamic pressure.

AB - We report a high-throughput clog-free microfluidic deoxyribonucleic acid (DNA) fragmentation chip that is based on hydrodynamic shearing. Salmon sperm DNA has been reproducibly fragmented down to ∼5k bp fragment lengths by applying low hydraulic pressures (≤1 bar) across micromachined constrictions positioned in larger microfluidic channels that create point-sink flow with large velocity gradients near the constriction entrance. Long constrictions (100 μm) produce shorter fragment lengths compared to shorter constrictions (10 μm), while increasing the hydrodynamic pressure requirement. Sample recirculation (10×) in short constrictions reduces the mean fragment length and fragment length variation, and improves yield compared to single-pass experiments without increasing the hydrodynamic pressure.

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KW - EWI-20924

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