Considerations and best practices in animal science 16S ribosomal RNA gene sequencing microbiome studies

MD Weinroth, AD Belk, C Dean, N Noyes… - Journal of animal …, 2022 - academic.oup.com
Microbiome studies in animal science using 16S rRNA gene sequencing have become
increasingly common in recent years as sequencing costs continue to fall and bioinformatic …

Host-microbiome interaction in lung cancer

Q Dong, ES Chen, C Zhao, C Jin - Frontiers in Immunology, 2021 - frontiersin.org
Commensal microbiota has emerged as an essential biomarker and regulator of both
tumorigenesis and response to cancer therapy. However, our current knowledge about …

[HTML][HTML] Human gut colonisation may be initiated in utero by distinct microbial communities in the placenta and amniotic fluid

MC Collado, S Rautava, J Aakko, E Isolauri… - Scientific reports, 2016 - nature.com
Interaction with intestinal microbes in infancy has a profound impact on health and disease
in later life through programming of immune and metabolic pathways. We collected maternal …

Refinement of 16S rRNA gene analysis for low biomass biospecimens

R Villette, G Autaa, S Hind, JB Holm… - Scientific Reports, 2021 - nature.com
High-throughput phylogenetic 16S rRNA gene analysis has permitted to thoroughly delve
into microbial community complexity and to understand host-microbiota interactions in …

ddPCR allows 16S rRNA gene amplicon sequencing of very small DNA amounts from low-biomass samples

I Abellan-Schneyder, AJ Schusser, K Neuhaus - BMC microbiology, 2021 - Springer
Background One limiting factor of short amplicon 16S rRNA gene sequencing approaches is
the use of low DNA amounts in the amplicon generation step. Especially for low-biomass …

[HTML][HTML] Culture-and non-culture-based approaches reveal unique features of the ocular microbiome in dry eye patients

M Naqvi, F Fineide, TP Utheim, C Charnock - The Ocular Surface, 2024 - Elsevier
Purpose The purpose of this study was to investigate the ocular microbiome in individuals
with dry eye disease and to identify features of their ocular microbiome of possible health …

Succession and determinants of the early life nasopharyngeal microbiota in a South African birth cohort

S Claassen-Weitz, S Gardner-Lubbe, Y Xia… - Microbiome, 2023 - Springer
Background Bacteria colonizing the nasopharynx play a key role as gatekeepers of
respiratory health. Yet, dynamics of early life nasopharyngeal (NP) bacterial profiles remain …

Benchmarking laboratory processes to characterise low-biomass respiratory microbiota

R Hasrat, J Kool, WAA de Steenhuijsen Piters… - Scientific reports, 2021 - nature.com
The low biomass of respiratory samples makes it difficult to accurately characterise the
microbial community composition. PCR conditions and contaminating microbial DNA can …

Microbial communities of the upper respiratory tract in mild and severe COVID-19 patients: A possible link with the disease course

JS Galeeva, EV Starikova, DE Fedorov… - Frontiers in …, 2023 - frontiersin.org
The microbiota of the respiratory tract remains a relatively poorly studied subject. At the
same time, it is involved in modulating the immune response to infectious agents in the host …

[HTML][HTML] Sample collection methods in upper gastrointestinal research

HJ Yang, SI Seo, J Lee, CW Huh… - Journal of Korean …, 2023 - synapse.koreamed.org
In recent years, significant translational research advances have been made in the upper
gastrointestinal (GI) research field. Endoscopic evaluation is a reasonable option for …