Impact of DNA extraction, sample dilution, and reagent contamination on 16S rRNA gene sequencing of human feces

EP Velásquez-Mejía, J de la Cuesta-Zuluaga… - Applied microbiology …, 2018 - Springer
Culture-independent methods have granted the possibility to study microbial diversity in
great detail, but technical issues pose a threat to the accuracy of new findings. Biases …

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

NA Kennedy, AW Walker, SH Berry, SH Duncan… - PloS one, 2014 - journals.plos.org
Introduction Determining bacterial community structure in fecal samples through DNA
sequencing is an important facet of intestinal health research. The impact of different …

Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis

JS Penington, MAS Penno, KM Ngui, NJ Ajami… - Scientific reports, 2018 - nature.com
To optimise fecal sampling for reproducible analysis of the gut microbiome, we compared
different methods of sample collection and sequencing of 16S rRNA genes at two centers …

Systematic bias introduced by genomic DNA template dilution in 16S rRNA gene-targeted microbiota profiling in human stool homogenates

F Multinu, SC Harrington, J Chen, PR Jeraldo… - Msphere, 2018 - Am Soc Microbiol
Variability in representation of microbial communities can be caused by differences in
microbial composition or artifacts introduced at sample collection or processing. Alterations …

Evaluating variation in human gut microbiota profiles due to DNA extraction method and inter-subject differences

B Wagner Mackenzie, DW Waite… - Frontiers in microbiology, 2015 - frontiersin.org
The human gut contains dense and diverse microbial communities which have profound
influences on human health. Gaining meaningful insights into these communities requires …

Comparative analysis of fecal DNA extraction methods with phylogenetic microarray: effective recovery of bacterial and archaeal DNA using mechanical cell lysis

A Salonen, J Nikkilä, J Jalanka-Tuovinen… - Journal of …, 2010 - Elsevier
Several different protocols are used for fecal DNA extraction, which is an integral step in all
phylogenetic and metagenomic approaches to characterize the highly diverse intestinal …

[HTML][HTML] Comparison of DNA extraction methods for human gut microbial community profiling

MY Lim, EJ Song, SH Kim, J Lee, YD Nam - Systematic and applied …, 2018 - Elsevier
The human gut harbors a vast range of microbes that have significant impact on health and
disease. Therefore, gut microbiome profiling holds promise for use in early diagnosis and …

Towards standards for human fecal sample processing in metagenomic studies

PI Costea, G Zeller, S Sunagawa, E Pelletier… - Nature …, 2017 - nature.com
Technical variation in metagenomic analysis must be minimized to confidently assess the
contributions of microbiota to human health. Here we tested 21 representative DNA …

Evaluation of fecal DNA extraction protocols for human gut microbiome studies

MY Lim, YS Park, JH Kim, YD Nam - BMC microbiology, 2020 - Springer
Background DNA extraction is an important factor influencing the microbiome profile in fecal
samples. Considering that the QIAamp DNA Stool Mini Kit, one of the most commonly used …

The impact of DNA extraction methods on stool bacterial and fungal microbiota community recovery

K Fiedorová, M Radvanský, E Němcová… - Frontiers in …, 2019 - frontiersin.org
Our understanding of human gut microbiota in health and disease depends on accurate and
reproducible microbial data acquisition. The critical step in this process is to apply an …