Defining and quantifying the core microbiome: challenges and prospects

AT Neu, EE Allen, K Roy - Proceedings of the National …, 2021 - National Acad Sciences
The term “core microbiome” has become widely used in microbial ecology over the last
decade. Broadly, the core microbiome refers to any set of microbial taxa, or the genomic and …

Enterotypes in the landscape of gut microbial community composition

PI Costea, F Hildebrand, M Arumugam, F Bäckhed… - Nature …, 2018 - nature.com
Population stratification is a useful approach for a better understanding of complex
biological problems in human health and wellbeing. The proposal that such stratification …

The integrative human microbiome project

HMP Integrative, LM Proctor, HH Creasy… - …, 2019 - ui.adsabs.harvard.edu
Abstract The NIH Human Microbiome Project (HMP) has been carried out over ten years and
two phases to provide resources, methods, and discoveries that link interactions between …

Acute and persistent effects of commonly used antibiotics on the gut microbiome and resistome in healthy adults

WE Anthony, B Wang, KV Sukhum, AW D'Souza… - Cell reports, 2022 - cell.com
Antibiotics are deployed against bacterial pathogens, but their targeting of conserved
microbial processes means they also collaterally perturb the commensal microbiome. To …

The gut mycobiome of the Human Microbiome Project healthy cohort

AK Nash, TA Auchtung, MC Wong, DP Smith, JR Gesell… - Microbiome, 2017 - Springer
Background Most studies describing the human gut microbiome in healthy and diseased
states have emphasized the bacterial component, but the fungal microbiome (ie, the …

Biology of oral streptococci

J Abranches, L Zeng, JK Kajfasz, SR Palmer… - Microbiology …, 2018 - Am Soc Microbiol
Bacteria belonging to the genus Streptococcus are the first inhabitants of the oral cavity,
which can be acquired right after birth and thus play an important role in the assembly of the …

Applying the core microbiome to understand host–microbe systems

A Risely - Journal of Animal Ecology, 2020 - Wiley Online Library
The host‐associated core microbiome was originally coined to refer to common groups of
microbes or genes that were likely to be particularly important for host biological function …

Microbial ecology along the gastrointestinal tract

ET Hillman, H Lu, T Yao, CH Nakatsu - Microbes and environments, 2017 - jstage.jst.go.jp
The ecosystem of the human gastrointestinal (GI) tract traverses a number of environmental,
chemical, and physical conditions because it runs from the oral cavity to the anus. These …

Synthetic microbiota reveal priority effects and keystone strains in the Arabidopsis phyllosphere

CI Carlström, CM Field, M Bortfeld-Miller… - Nature ecology & …, 2019 - nature.com
Multicellular organisms, including plants, are colonized by microorganisms, some of which
are beneficial to growth and health. The assembly rules for establishing plant microbiota are …

Probiotics, gut microbiota, and their influence on host health and disease

B Sánchez, S Delgado… - Molecular nutrition & …, 2017 - Wiley Online Library
The gastrointestinal tract of mammals hosts a high and diverse number of different
microorganisms, known as intestinal microbiota. Many probiotics were originally isolated …