Primer, pipelines, parameters: issues in 16S rRNA gene sequencing

I Abellan-Schneyder, MS Matchado, S Reitmeier… - Msphere, 2021 - Am Soc Microbiol
Short-amplicon 16S rRNA gene sequencing is currently the method of choice for studies
investigating microbiomes. However, comparative studies on differences in procedures are …

Effects of stool sample preservation methods on gut microbiota biodiversity: new original data and systematic review with meta-analysis

X Li, X Shi, Y Yao, Y Shen, X Wu, T Cai… - Microbiology …, 2023 - Am Soc Microbiol
Here, we aimed to compare the effects of different preservation methods on outcomes of
fecal microbiota. We evaluated the effects of different preservation methods using stool …

Gut microbiome dysbiosis and increased intestinal permeability in children with islet autoimmunity and type 1 diabetes: A prospective cohort study

JE Harbison, AJ Roth‐Schulze, LC Giles… - Pediatric …, 2019 - Wiley Online Library
Aims/hypothesis To investigate the longitudinal relationship between the gut microbiome,
circulating short chain fatty acids (SCFAs) and intestinal permeability in children with islet …

Impact of preservation method and 16S rRNA hypervariable region on gut microbiota profiling

Z Chen, PC Hui, M Hui, YK Yeoh, PY Wong… - Msystems, 2019 - Am Soc Microbiol
Proper preservation of stool samples to minimize microbial community shifts and inactivate
infectious agents is important for self-collected specimens requiring shipment to laboratories …

Fecal sample collection methods and time of day impact microbiome composition and short chain fatty acid concentrations

J Jones, SN Reinke, A Ali, DJ Palmer… - Scientific Reports, 2021 - nature.com
Associations between the human gut microbiome and health outcomes continues to be of
great interest, although fecal sample collection methods which impact microbiome studies …

Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children

A Baldi, S Braat, M Imrul Hasan, C Bennett… - Nature …, 2024 - nature.com
Antibiotics may alter the gut microbiome, and this is one of the mechanisms by which
antimicrobial resistance may be promoted. Suboptimal antimicrobial stewardship in Asia has …

Standardization of gut microbiome analysis in sports

L Mancin, A Paoli, S Berry, JT Gonzalez, AJ Collins… - Cell Reports …, 2024 - cell.com
The gut microbiome plays a significant role in physiological functions such as nutrient
processing, vitamin production, inflammatory response, and immune modulation, which, in …

Highly sensitive wastewater surveillance of SARS-CoV-2 variants by targeted next-generation amplicon sequencing provides early warning of incursion in Victoria …

JE Merrett, M Nolan, L Hartman, N John… - Applied and …, 2024 - journals.asm.org
The future of the COVID pandemic and its public health and societal impact will be
determined by the profile and spread of emerging variants and the timely identification and …

Impact of bead-beating intensity on the genus-and species-level characterization of the gut microbiome using amplicon and complete 16S rRNA gene sequencing

B Zhang, M Brock, C Arana, C Dende… - Frontiers in cellular …, 2021 - frontiersin.org
Bead-beating within a DNA extraction protocol is critical for complete microbial cell lysis and
accurate assessment of the abundance and composition of the microbiome. While the …

Evaluation of the effect of storage methods on fecal, saliva, and skin microbiome composition

C Marotz, KJ Cavagnero, SJ Song, D McDonald… - Msystems, 2021 - Am Soc Microbiol
As the number of human microbiome studies expand, it is increasingly important to identify
cost-effective, practical preservatives that allow for room temperature sample storage. Here …