The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing

Nicholas A Kennedy; Alan W Walker; Susan H Berry; Sylvia H Duncan; Freda M Farquarson; Petra Louis; John M Thomson; Jack Satsangi; Harry James Flint; Julian Parkhill; Charlie W Lees; Georgina L Hold; UK IBD Genetics Consortium

doi:10.1371/journal.pone.0088982

The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing

Nicholas A Kennedy, Alan W Walker, Susan H Berry, Sylvia H Duncan, Freda M Farquarson, Petra Louis, John M Thomson, Jack Satsangi, Harry James Flint, Julian Parkhill, Charlie W Lees, Georgina L Hold, UK IBD Genetics Consortium

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Abstract

Determining bacterial community structure in fecal samples through DNA sequencing is an important facet of intestinal health research. The impact of different commercially available DNA extraction kits upon bacterial community structures has received relatively little attention. The aim of this study was to analyze bacterial communities in volunteer and inflammatory bowel disease (IBD) patient fecal samples extracted using widely used DNA extraction kits in established gastrointestinal research laboratories.

Original language	English
Article number	e88982
Journal	PloS ONE
Volume	9
Issue number	2
DOIs	https://doi.org/10.1371/journal.pone.0088982
Publication status	Published - 24 Feb 2014

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Kennedy, N. A., Walker, A. W., Berry, S. H., Duncan, S. H., Farquarson, F. M., Louis, P., Thomson, J. M., Satsangi, J., Flint, H. J., Parkhill, J., Lees, C. W., Hold, G. L., & UK IBD Genetics Consortium (2014). The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing. PloS ONE, 9(2), [e88982]. https://doi.org/10.1371/journal.pone.0088982

Kennedy, NA, Walker, AW, Berry, SH, Duncan, SH, Farquarson, FM, Louis, P, Thomson, JM, Satsangi, J, Flint, HJ, Parkhill, J, Lees, CW, Hold, GL & UK IBD Genetics Consortium 2014, 'The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing', PloS ONE, vol. 9, no. 2, e88982. https://doi.org/10.1371/journal.pone.0088982

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AU - Farquarson, Freda M

AU - Louis, Petra

AU - Thomson, John M

AU - Satsangi, Jack

AU - Flint, Harry James

AU - Parkhill, Julian

AU - Lees, Charlie W

AU - Hold, Georgina L

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AB - Determining bacterial community structure in fecal samples through DNA sequencing is an important facet of intestinal health research. The impact of different commercially available DNA extraction kits upon bacterial community structures has received relatively little attention. The aim of this study was to analyze bacterial communities in volunteer and inflammatory bowel disease (IBD) patient fecal samples extracted using widely used DNA extraction kits in established gastrointestinal research laboratories.

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The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing

Abstract

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