Exploiting biased reptation for continuous flow preparative DNA fractionation in a versatile microfluidic platform

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    Abstract

    A new approach is presented for preparative, continuous flow fractionation of sub-10-kbp DNA fragments, which exploits the variation in the field-dependent mobility of the DNA molecules based on their length. Orthogonally pulsed electric fields of significantly different magnitudes are applied to a microchip filled with a sieving matrix of 1.2% agarose gel. Using this method, we demonstrate a high-resolution separation of 0.5, 1, 2, 5, and 10 kbp DNA fragments within 2 min. During the separation, DNA fragments are also purified from other ionic species. Preparative fractionation of sub-10-kbp DNA molecules plays an important role in second-generation sequencing. The presented device performs rapid high-resolution fractionation and it can be reliably manufactured with simple microfabrication procedures.
    Original languageEnglish
    Article number17001
    Number of pages9
    JournalMicrosystems & nanoengineering
    Volume3
    DOIs
    Publication statusPublished - 22 May 2017

    Fingerprint

    Fractionation
    Microfluidics
    fractionation
    DNA
    deoxyribonucleic acid
    platforms
    fragments
    Molecules
    sequencing
    Microfabrication
    high resolution
    Sepharose
    molecules
    Gels
    Electric fields
    gels
    electric fields
    matrices

    Cite this

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    title = "Exploiting biased reptation for continuous flow preparative DNA fractionation in a versatile microfluidic platform",
    abstract = "A new approach is presented for preparative, continuous flow fractionation of sub-10-kbp DNA fragments, which exploits the variation in the field-dependent mobility of the DNA molecules based on their length. Orthogonally pulsed electric fields of significantly different magnitudes are applied to a microchip filled with a sieving matrix of 1.2{\%} agarose gel. Using this method, we demonstrate a high-resolution separation of 0.5, 1, 2, 5, and 10 kbp DNA fragments within 2 min. During the separation, DNA fragments are also purified from other ionic species. Preparative fractionation of sub-10-kbp DNA molecules plays an important role in second-generation sequencing. The presented device performs rapid high-resolution fractionation and it can be reliably manufactured with simple microfabrication procedures.",
    author = "B. G{\"u}m{\"u}sc{\"u} and Bomer, {Johan G.} and {de Boer}, {Hans L.} and {van den Berg}, Albert and Eijkel, {Jan C.T.}",
    year = "2017",
    month = "5",
    day = "22",
    doi = "10.1038/micronano.2017.1",
    language = "English",
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    journal = "Microsystems & nanoengineering",
    issn = "2055-7434",
    publisher = "Nature Publishing Group",

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    TY - JOUR

    T1 - Exploiting biased reptation for continuous flow preparative DNA fractionation in a versatile microfluidic platform

    AU - Gümüscü, B.

    AU - Bomer, Johan G.

    AU - de Boer, Hans L.

    AU - van den Berg, Albert

    AU - Eijkel, Jan C.T.

    PY - 2017/5/22

    Y1 - 2017/5/22

    N2 - A new approach is presented for preparative, continuous flow fractionation of sub-10-kbp DNA fragments, which exploits the variation in the field-dependent mobility of the DNA molecules based on their length. Orthogonally pulsed electric fields of significantly different magnitudes are applied to a microchip filled with a sieving matrix of 1.2% agarose gel. Using this method, we demonstrate a high-resolution separation of 0.5, 1, 2, 5, and 10 kbp DNA fragments within 2 min. During the separation, DNA fragments are also purified from other ionic species. Preparative fractionation of sub-10-kbp DNA molecules plays an important role in second-generation sequencing. The presented device performs rapid high-resolution fractionation and it can be reliably manufactured with simple microfabrication procedures.

    AB - A new approach is presented for preparative, continuous flow fractionation of sub-10-kbp DNA fragments, which exploits the variation in the field-dependent mobility of the DNA molecules based on their length. Orthogonally pulsed electric fields of significantly different magnitudes are applied to a microchip filled with a sieving matrix of 1.2% agarose gel. Using this method, we demonstrate a high-resolution separation of 0.5, 1, 2, 5, and 10 kbp DNA fragments within 2 min. During the separation, DNA fragments are also purified from other ionic species. Preparative fractionation of sub-10-kbp DNA molecules plays an important role in second-generation sequencing. The presented device performs rapid high-resolution fractionation and it can be reliably manufactured with simple microfabrication procedures.

    U2 - 10.1038/micronano.2017.1

    DO - 10.1038/micronano.2017.1

    M3 - Article

    VL - 3

    JO - Microsystems & nanoengineering

    JF - Microsystems & nanoengineering

    SN - 2055-7434

    M1 - 17001

    ER -