Publication detail

Isolation of Xis Gen Fragment of lambda Phage from Agarose Gel Using Magnetic Particles for Subsequent Enzymatic DNA Sequencing

ŠMERKOVÁ, K. DOSTÁLOVÁ, S. ŠKUTKOVÁ, H. VACULOVIČOVÁ, M. ADAM, V. PROVAZNÍK, I. KIZEK, R.

Original Title

Isolation of Xis Gen Fragment of lambda Phage from Agarose Gel Using Magnetic Particles for Subsequent Enzymatic DNA Sequencing

English Title

Isolation of Xis Gen Fragment of lambda Phage from Agarose Gel Using Magnetic Particles for Subsequent Enzymatic DNA Sequencing

Type

journal article in Web of Science

Language

en

Original Abstract

Gel electrophoresis is one of the most important methods used in biochemistry and molecular biology. The recovery of analytes from the gel required for subsequent analysis including amplification by polymerase chain reaction (PCR) or DNA sequencing is an issue due to the gel contamination. Among the other methods used for sample recovery, the application of nanomaterials is also being investigated. In this study, the applicability of magnetic particles (1 lm) for isolation of DNA fragment from agarose gel with subsequent DNA sequencing was investigated. Electrochemical analysis and DNA sequencing was used to investigate the recovery yield. The influence of dilution of the gel prior to the purification was investigated and the linear dependence with regression coefficient R2 = 0.9972 was obtained using square wave voltammetry. Moreover, bioinformatic analysis was used for comparison of obtained sequences, and simple and easy identification of nonsystematic errors caused by both fluorescence labeling reaction and electrophoretic separation. It was found that magnetic nanoparticles based isolation markedly lowered the errors occurring during sequencing of the isolated DNA fragment from 7 to 1 %.

English abstract

Gel electrophoresis is one of the most important methods used in biochemistry and molecular biology. The recovery of analytes from the gel required for subsequent analysis including amplification by polymerase chain reaction (PCR) or DNA sequencing is an issue due to the gel contamination. Among the other methods used for sample recovery, the application of nanomaterials is also being investigated. In this study, the applicability of magnetic particles (1 lm) for isolation of DNA fragment from agarose gel with subsequent DNA sequencing was investigated. Electrochemical analysis and DNA sequencing was used to investigate the recovery yield. The influence of dilution of the gel prior to the purification was investigated and the linear dependence with regression coefficient R2 = 0.9972 was obtained using square wave voltammetry. Moreover, bioinformatic analysis was used for comparison of obtained sequences, and simple and easy identification of nonsystematic errors caused by both fluorescence labeling reaction and electrophoretic separation. It was found that magnetic nanoparticles based isolation markedly lowered the errors occurring during sequencing of the isolated DNA fragment from 7 to 1 %.

Keywords

Gel electrophoresis, Electrochemical analysis, DNA sequencing, DNA purification, Magnetic particles

RIV year

2012

Released

13.10.2012

Publisher

Springer

Pages from

1

Pages to

6

Pages count

6

BibTex


@article{BUT94713,
  author="Kristýna {Šmerková} and Simona {Dostálová} and Helena {Škutková} and Markéta {Vaculovičová} and Vojtěch {Adam} and Ivo {Provazník} and René {Kizek}",
  title="Isolation of Xis Gen Fragment of lambda Phage from Agarose Gel Using Magnetic Particles for Subsequent Enzymatic DNA Sequencing",
  annote="Gel electrophoresis is one of the most important methods used in biochemistry and molecular biology. The recovery of analytes from the gel required for subsequent analysis including amplification by polymerase chain reaction (PCR) or DNA sequencing is an issue due to the gel contamination. Among the other methods used for sample recovery, the application of nanomaterials is also being investigated. In this study, the applicability of magnetic particles (1 lm) for isolation of DNA fragment from agarose gel with subsequent DNA sequencing was investigated. Electrochemical analysis and DNA sequencing was used to investigate the recovery yield. The influence of dilution of the gel prior to the purification was investigated and the linear dependence with regression coefficient R2 = 0.9972 was obtained using square wave voltammetry. Moreover, bioinformatic analysis was used for comparison of obtained sequences, and simple and easy identification of nonsystematic errors caused by both fluorescence labeling reaction and electrophoretic separation. It was found that magnetic nanoparticles based isolation markedly lowered the errors occurring during sequencing of the isolated DNA fragment from 7 to 1 %.",
  address="Springer",
  chapter="94713",
  doi="10.1007/s10337-012-2326-1",
  institution="Springer",
  number="10",
  volume="2012",
  year="2012",
  month="october",
  pages="1--6",
  publisher="Springer",
  type="journal article in Web of Science"
}