The oral microbiome: diversity, biogeography and human health

JL Baker, JL Mark Welch, KM Kauffman… - Nature Reviews …, 2024 - nature.com
The human oral microbiota is highly diverse and has a complex ecology, comprising
bacteria, microeukaryotes, archaea and viruses. These communities have elaborate and …

[HTML][HTML] Priority effects in microbiome assembly

R Debray, RA Herbert, AL Jaffe… - Nature Reviews …, 2022 - nature.com
Advances in next-generation sequencing have enabled the widespread measurement of
microbiome composition across systems and over the course of microbiome assembly …

[HTML][HTML] Metabolic exchanges are ubiquitous in natural microbial communities

C Kost, KR Patil, J Friedman, SL Garcia… - Nature Microbiology, 2023 - nature.com
Microbial communities drive global biogeochemical cycles and shape the health of plants
and animals—including humans. Their structure and function are determined by ecological …

Microbial interactions for nutrient acquisition in soil: miners, scavengers, and carriers

T Cao, Y Luo, M Shi, X Tian, Y Kuzyakov - Soil Biology and Biochemistry, 2024 - Elsevier
Microbial interactions in soil are hidden, as they occur stealthily in a 'dark box'. This greatly
limits our understanding of microbial functions. Here, soil microorganisms were classified …

Proliferating active matter

O Hallatschek, SS Datta, K Drescher, J Dunkel… - Nature Reviews …, 2023 - nature.com
The fascinating patterns of collective motion created by autonomously driven particles have
fuelled active-matter research for over two decades. So far, theoretical active-matter …

[HTML][HTML] Cautionary notes on the use of co-occurrence networks in soil ecology

M Goberna, M Verdú - Soil Biology and Biochemistry, 2022 - Elsevier
Soil ecology is witnessing exponential growth in the number of studies using co-occurrence
network analysis. Researchers reconstruct networks based on the co-occurrence of taxa or …

[HTML][HTML] Microbes to support plant health: understanding bioinoculant success in complex conditions

SWM Poppeliers, JJ Sánchez-Gil… - Current opinion in …, 2023 - Elsevier
A promising, sustainable way to enhance plant health and productivity is by leveraging
beneficial microbes. Beneficial microbes are natural soil residents with proven benefits for …

From microbiome composition to functional engineering, one step at a time

SD Burz, S Causevic, A Dal Co… - Microbiology and …, 2023 - Am Soc Microbiol
Communities of microorganisms (microbiota) are present in all habitats on Earth and are
relevant for agriculture, health, and climate. Deciphering the mechanisms that determine …

DeLTA 2.0: A deep learning pipeline for quantifying single-cell spatial and temporal dynamics

OM O'Connor, RN Alnahhas, JB Lugagne… - PLoS computational …, 2022 - journals.plos.org
Improvements in microscopy software and hardware have dramatically increased the pace
of image acquisition, making analysis a major bottleneck in generating quantitative, single …

Extracellular metabolism sets the table for microbial cross-feeding

RK Fritts, AL McCully, JB McKinlay - Microbiology and Molecular …, 2021 - Am Soc Microbiol
The transfer of nutrients between cells, or cross-feeding, is a ubiquitous feature of microbial
communities with emergent properties that influence our health and orchestrate global …