Next-generation sequencing: insights to advance clinical investigations of the microbiome

CR Wensel, JL Pluznick, SL Salzberg… - The Journal of clinical …, 2022 - Am Soc Clin Investig
Next-generation sequencing (NGS) technology has advanced our understanding of the
human microbiome by allowing for the discovery and characterization of unculturable …

The gut microbiota and its biogeography

G McCallum, C Tropini - Nature Reviews Microbiology, 2024 - nature.com
Biogeography is the study of species distribution and diversity within an ecosystem and is at
the core of how we understand ecosystem dynamics and interactions at the macroscale. In …

The person-to-person transmission landscape of the gut and oral microbiomes

M Valles-Colomer, A Blanco-Míguez, P Manghi… - Nature, 2023 - nature.com
The human microbiome is an integral component of the human body and a co-determinant
of several health conditions,. However, the extent to which interpersonal relations shape the …

inStrain profiles population microdiversity from metagenomic data and sensitively detects shared microbial strains

MR Olm, A Crits-Christoph, K Bouma-Gregson… - Nature …, 2021 - nature.com
Coexisting microbial cells of the same species often exhibit genetic variation that can affect
phenotypes ranging from nutrient preference to pathogenicity. Here we present inStrain, a …

Clinical metagenomics

CY Chiu, SA Miller - Nature Reviews Genetics, 2019 - nature.com
Clinical metagenomic next-generation sequencing (mNGS), the comprehensive analysis of
microbial and host genetic material (DNA and RNA) in samples from patients, is rapidly …

Circadian rhythms and the gut microbiota: from the metabolic syndrome to cancer

F Bishehsari, RM Voigt, A Keshavarzian - Nature Reviews …, 2020 - nature.com
The metabolic syndrome is prevalent in developed nations and accounts for the largest
burden of non-communicable diseases worldwide. The metabolic syndrome has direct …

MetaWRAP—a flexible pipeline for genome-resolved metagenomic data analysis

GV Uritskiy, J DiRuggiero, J Taylor - Microbiome, 2018 - Springer
Background The study of microbiomes using whole-metagenome shotgun sequencing
enables the analysis of uncultivated microbial populations that may have important roles in …

Health benefits of heat-killed (Tyndallized) probiotics: an overview

N Piqué, M Berlanga, D Miñana-Galbis - International journal of molecular …, 2019 - mdpi.com
Nowadays, the oral use of probiotics is widespread. However, the safety profile with the use
of live probiotics is still a matter of debate. Main risks include: Cases of systemic infections …

Culturing the human microbiota and culturomics

JC Lagier, G Dubourg, M Million, F Cadoret… - Nature Reviews …, 2018 - nature.com
The gut microbiota has an important role in the maintenance of human health and in disease
pathogenesis. This importance was realized through the advent of omics technologies and …

[HTML][HTML] Effects of psychological, environmental and physical stressors on the gut microbiota

JP Karl, AM Hatch, SM Arcidiacono… - Frontiers in …, 2018 - frontiersin.org
Stress, a ubiquitous part of daily human life, has varied biological effects which are
increasingly recognized as including modulation of commensal microorganisms residing in …