Microbial nutrient niches in the gut

FC Pereira, D Berry - Environmental microbiology, 2017 - Wiley Online Library
The composition and function of the mammalian gut microbiota has been the subject of
much research in recent years, but the principles underlying the assembly and structure of …

[HTML][HTML] Comparison between 16S rRNA and shotgun sequencing data for the taxonomic characterization of the gut microbiota

F Durazzi, C Sala, G Castellani, G Manfreda… - Scientific reports, 2021 - nature.com
In this paper we compared taxonomic results obtained by metataxonomics (16S rRNA gene
sequencing) and metagenomics (whole shotgun metagenomic sequencing) to investigate …

Escherichia coli, cattle and the propagation of disease

RA Stein, DE Katz - FEMS microbiology letters, 2017 - academic.oup.com
Several early models describing host–pathogen interaction have assumed that each
individual host has approximately the same likelihood of becoming infected or of infecting …

[HTML][HTML] Neutrality in the metaorganism

M Sieber, L Pita, N Weiland-Bräuer, P Dirksen… - PLoS …, 2019 - journals.plos.org
Almost all animals and plants are inhabited by diverse communities of microorganisms, the
microbiota, thereby forming an integrated entity, the metaorganism. Natural selection should …

Quantifying spatiotemporal variability and noise in absolute microbiota abundances using replicate sampling

BW Ji, RU Sheth, PD Dixit, Y Huang, A Kaufman… - Nature …, 2019 - nature.com
Metagenomic sequencing has enabled detailed investigation of diverse microbial
communities, but understanding their spatiotemporal variability remains an important …

[HTML][HTML] Evidence for saponin diversity–mycobiome links and conservatism of plant–fungi interaction patterns across Holarctic disjunct Panax species

G Zhang, F Wei, Z Chen, Y Wang, S Jiao… - Science of the Total …, 2022 - Elsevier
Although interplays between plant and coevolved microorganisms are believed to drive
landscape formation and ecosystem services, the relationships between the mycobiome and …

[HTML][HTML] Statistical analysis of co-occurrence patterns in microbial presence-absence datasets

KP Mainali, S Bewick, P Thielen, T Mehoke… - PLoS …, 2017 - journals.plos.org
Drawing on a long history in macroecology, correlation analysis of microbiome datasets is
becoming a common practice for identifying relationships or shared ecological niches …

[HTML][HTML] Research progress of gut flora in improving human wellness

C Zhang, W Gong, Z Li, D Gao, Y Gao - Food Science and Human Wellness, 2019 - Elsevier
Human wellness is the ultimate goal of our efforts in improving the human life. Special foods
are undoubtedly important in achieving human wellness. However, overeating significantly …

Island biogeography theory provides a plausible explanation for why larger vertebrates and taller humans have more diverse gut microbiomes

KR Sarmiento, A Carr, C Diener, KJ Locey… - The ISME …, 2024 - academic.oup.com
Prior work has shown a positive scaling relationship between vertebrate body size, human
height, and gut microbiome alpha diversity. This observation mirrors commonly observed …

[HTML][HTML] Stochastic colonization of hosts with a finite lifespan can drive individual host microbes out of equilibrium

R Zapién-Campos, M Sieber… - PLoS Computational …, 2020 - journals.plos.org
Macroorganisms are inhabited by microbial communities that often change through the
lifespan of an individual. One of the factors contributing to this change is colonization from …