A comprehensive automated pipeline for human microbiome sampling, 16S rRNA gene sequencing and bioinformatics processing

LW Hugerth, M Seifert, AAL Pennhag, J Du… - BioRxiv, 2018 - biorxiv.org
The advent of affordable high-throughput DNA sequencing has opened up a golden age of
studies in the human microbiome. In order to understand the role of the human microbiota …

Efficient nucleic acid extraction and 16S rRNA gene sequencing for bacterial community characterization

BA Bowman, DS Kwon - JoVE (Journal of Visualized Experiments), 2016 - jove.com
There is a growing appreciation for the role of microbial communities as critical modulators
of human health and disease. High throughput sequencing technologies have allowed for …

Optimisation of sample storage and DNA extraction for human gut microbiota studies​

J Kazantseva, E Malv, A Kaleda, A Kallastu, A Meikas - BMC microbiology, 2021 - Springer
Background New developments in next-generation sequencing technologies and massive
data received from this approach open wide prospects for personalised medicine and …

High-throughput DNA extraction strategy for fecal microbiome studies

H Isokääntä, N Tomnikov, S Vanhatalo… - Microbiology …, 2024 - Am Soc Microbiol
Microbiome studies are becoming larger in size to detect the potentially small effect that
environmental factors have on our gut microbiomes, or that the microbiome has on our …

Analysis of the microbiome: Advantages of whole genome shotgun versus 16S amplicon sequencing

R Ranjan, A Rani, A Metwally, HS McGee… - … and biophysical research …, 2016 - Elsevier
The human microbiome has emerged as a major player in regulating human health and
disease. Translational studies of the microbiome have the potential to indicate clinical …

Comparison of DNA extraction methods for 16S rRNA gene sequencing in the analysis of the human gut microbiome

C Elie, M Perret, H Hage, E Sentausa, A Hesketh… - Scientific Reports, 2023 - nature.com
The gut microbiome is widely analyzed using high-throughput sequencing, such as 16S
rRNA gene amplicon sequencing and shotgun metagenomic sequencing (SMS). DNA …

Measures of reproducibility in sampling and laboratory processing methods in high-throughput microbiome analysis

P Vera-Wolf, JP Cárdenas, AM Morton, T Norambuena… - BioRxiv, 2018 - biorxiv.org
Microbial community analysis can be biased by multiple technical factors, such as storage
conditions, DNA extraction, or amplification conditions. In a high-throughput laboratory that …

Library preparation methodology can influence genomic and functional predictions in human microbiome research

MB Jones, SK Highlander… - Proceedings of the …, 2015 - National Acad Sciences
Observations from human microbiome studies are often conflicting or inconclusive. Many
factors likely contribute to these issues including small cohort sizes, sample collection, and …

Comparing apples and oranges?: next generation sequencing and its impact on microbiome analysis

AG Clooney, F Fouhy, RD Sleator, A O'Driscoll… - PloS one, 2016 - journals.plos.org
Rapid advancements in sequencing technologies along with falling costs present
widespread opportunities for microbiome studies across a vast and diverse array of …

Microbiome sequencing: challenges and opportunities for molecular medicine

T Clavel, I Lagkouvardos, A Hiergeist - Expert review of molecular …, 2016 - Taylor & Francis
Introduction: Since the discovery of Polymerase Chain Reaction and pioneering work on
16S ribosomal RNA genes in the 1980's, the use of molecular techniques to study microbial …