Denaturing gradient gel electrophoresis

Fiona Strathdee; Andrew Free

doi:10.1007/978-1-62703-565-1_9

Denaturing gradient gel electrophoresis

Fiona Strathdee, Andrew Free

School of Biological Sciences

Research output: Chapter in Book/Report/Conference proceeding › Chapter

Abstract / Description of output

Denaturing Gradient Gel Electrophoresis (DGGE) is a technique used to separate short- to medium-length DNA fragments based on their melting characteristics. It has been used frequently for identifying single-nucleotide polymorphisms without the need for DNA sequencing and as a molecular fingerprinting method for complex ecosystem communities, in particular in conjunction with amplification of microbial 16S rRNA genes. Here, the principles of DGGE, based on partial DNA strand separation at a given position in a gradient of chemical denaturant, are described, and an example protocol, optimized for fingerprinting of 200–300 bp fragments of bacterial 16S rRNA genes, is given.

Original language	English
Title of host publication	DNA Electrophoresis
Subtitle of host publication	Methods and Protocols
Editors	Svetlana Makovets
Publisher	Humana Press
Pages	145-157
Volume	1054
ISBN (Electronic)	978-1-62703-565-1
ISBN (Print)	978-1-62703-564-4
DOIs	https://doi.org/10.1007/978-1-62703-565-1_9
Publication status	Published - 17 Jul 2013

Publication series

Name	Methods in Molecular Biology
Publisher	Humana Press
Volume	1054

Keywords / Materials (for Non-textual outputs)

Denaturing gradient gel electrophoresis
DGGE
Single-nucleotide polymorphisms
Fingerprinting
16S rRNA gene analysis
Microbial communities

Access to Document

10.1007/978-1-62703-565-1_9

Self sustaining microbial ecosystems: robustness to environmental change
Free, A. & Allen, R.
UK-based charities
1/08/08 → 30/09/09
Project: Research
Edinbugrh Soft Matter and Statistical Physics Programme Grant Renewal
Cates, M., Poon, W., Ackland, G., Clegg, P., Evans, M., MacPhee, C. & Marenduzzo, D.
EPSRC
1/10/07 → 31/03/12
Project: Research

Cite this

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title = "Denaturing gradient gel electrophoresis",

abstract = "Denaturing Gradient Gel Electrophoresis (DGGE) is a technique used to separate short- to medium-length DNA fragments based on their melting characteristics. It has been used frequently for identifying single-nucleotide polymorphisms without the need for DNA sequencing and as a molecular fingerprinting method for complex ecosystem communities, in particular in conjunction with amplification of microbial 16S rRNA genes. Here, the principles of DGGE, based on partial DNA strand separation at a given position in a gradient of chemical denaturant, are described, and an example protocol, optimized for fingerprinting of 200–300 bp fragments of bacterial 16S rRNA genes, is given.",

keywords = "Denaturing gradient gel electrophoresis, DGGE, Single-nucleotide polymorphisms, Fingerprinting, 16S rRNA gene analysis, Microbial communities",

author = "Fiona Strathdee and Andrew Free",

year = "2013",

month = jul,

day = "17",

doi = "10.1007/978-1-62703-565-1_9",

language = "English",

isbn = "978-1-62703-564-4",

volume = "1054",

series = "Methods in Molecular Biology",

publisher = "Humana Press",

pages = "145--157",

editor = "Svetlana Makovets",

booktitle = "DNA Electrophoresis",

}

TY - CHAP

T1 - Denaturing gradient gel electrophoresis

AU - Strathdee, Fiona

AU - Free, Andrew

PY - 2013/7/17

Y1 - 2013/7/17

N2 - Denaturing Gradient Gel Electrophoresis (DGGE) is a technique used to separate short- to medium-length DNA fragments based on their melting characteristics. It has been used frequently for identifying single-nucleotide polymorphisms without the need for DNA sequencing and as a molecular fingerprinting method for complex ecosystem communities, in particular in conjunction with amplification of microbial 16S rRNA genes. Here, the principles of DGGE, based on partial DNA strand separation at a given position in a gradient of chemical denaturant, are described, and an example protocol, optimized for fingerprinting of 200–300 bp fragments of bacterial 16S rRNA genes, is given.

AB - Denaturing Gradient Gel Electrophoresis (DGGE) is a technique used to separate short- to medium-length DNA fragments based on their melting characteristics. It has been used frequently for identifying single-nucleotide polymorphisms without the need for DNA sequencing and as a molecular fingerprinting method for complex ecosystem communities, in particular in conjunction with amplification of microbial 16S rRNA genes. Here, the principles of DGGE, based on partial DNA strand separation at a given position in a gradient of chemical denaturant, are described, and an example protocol, optimized for fingerprinting of 200–300 bp fragments of bacterial 16S rRNA genes, is given.

KW - Denaturing gradient gel electrophoresis

KW - DGGE

KW - Single-nucleotide polymorphisms

KW - Fingerprinting

KW - 16S rRNA gene analysis

KW - Microbial communities

U2 - 10.1007/978-1-62703-565-1_9

DO - 10.1007/978-1-62703-565-1_9

M3 - Chapter

SN - 978-1-62703-564-4

VL - 1054

T3 - Methods in Molecular Biology

SP - 145

EP - 157

BT - DNA Electrophoresis

A2 - Makovets, Svetlana

PB - Humana Press

ER -

Denaturing gradient gel electrophoresis

Abstract / Description of output

Publication series

Keywords / Materials (for Non-textual outputs)

Access to Document

Fingerprint

Projects

Self sustaining microbial ecosystems: robustness to environmental change

Edinbugrh Soft Matter and Statistical Physics Programme Grant Renewal

Cite this