Microbial Community Ecology and Physiology

Stochastic Assembly and Metabolic Network Reorganization Drive Microbial Resilience in Arid Soils

This study shows microbial resilience in arid soils arises from dynamic network reorganization and stochastic processes, with Thermoproteota playing a key keystone role in nitrogen cycling.

Global Biogeography of Prokaryotes in Mangrove Sediments: Spatial Patterns and Ecological Insights from 16S rDNA Metabarcoding

This study analyzes prokaryotic diversity in mangrove sediments using 16S rDNA metabarcoding, identifying a microbial hotspot and highlighting environmental factors over plant diversity in shaping microbial communities.

Environmental context shapes microbial co-occurrence

The paper examines how environmental factors and sampling strategies influence microbial co-occurrence patterns using a simulated dataset.

Distinct microbial response to organic matter from nitrogen-starved and virus-infected phytoplankton

The paper shows that DOM from nitrogen-starved and virus-infected Prochlorococcus triggers different microbial responses in the Eastern Mediterranean Sea.

Metabolic ecology, microbial community structure, and gene-centric metagenomics

The paper integrates metabolic ecology with DNA shotgun sequencing to predict metagenomic structure, showing compatibility with observed data from human, aquatic, and terrestrial microbiomes.

Global patterns of taxonomic and functional diversity in hot springs microbiomes

The paper tests a new ecological model predicting microbial diversity patterns in hot springs, finding temperature and pH influence taxonomic and functional diversity.

Marine community metabolomes in the eastern tropical North Pacific Oxygen Deficient Zone reveal glycine betaine as a metabolic link between Prochlorococcus and SAR11

The paper identifies glycine betaine as a key metabolite linking Prochlorococcus and SAR11 in the eastern tropical North Pacific Oxygen Deficient Zone.

Extracellular polymeric substance degradation shapes microbial community diversity

The paper shows that EPS from chitin degradation influences microbial community diversity by supporting different consumer types through sequential breakdown.

Two decades of compositional restructuring of soil biodiversity in Germany despite stable a- and b-diversity indices

The paper analyzes soil biodiversity changes over 20 years in Germany, finding no significant trends in alpha or beta diversity but taxon-specific compositional restructuring.

The impact of tropodithietic acid on microbial physiology under varying culture complexities

This study examines how the production of tropodithietic acid (TDA) affects microbial physiology and interactions across varying culture complexities, showing gene deletion impacts co-cultures but not tri-cultures with algal hosts.

Decomposition potential and population structure among active microbial communities in deep salt marsh sediments

The paper identifies active microbial subnetworks in deep salt marsh sediments capable of decomposing complex carbon and aromatics, revealing depth-related stratification and metabolic pathways involved.

Differences in the genomic potential of soil bacterial and viral communities between urban greenspaces and natural arid soils

This study compares bacterial and viral community structure and function in urban greenspaces and natural arid soils using metagenomic data, finding distinct differences in genetic potential for metabolism and resistance.

A periodic table of bacteria?: Mapping bacterial diversity in trait space

The paper constructs a periodic table of bacterial taxa to organize and visualize bacterial diversity based on genomic trait predictions.

Negative biodiversity-ecosystem function relationship in broad but not in narrow functions within pitcher plant microbial communities

The paper examines how bacterial diversity affects ecosystem function in pitcher plant communities, finding a negative relationship for broad functions but positive or neutral for narrow ones.

Global Phylogeography and Microdiversity of the Marine Diazotrophic Cyanobacteria Trichodesmium and UCYN-A

This study analyzes the global diversity and distribution of Trichodesmium and UCYN-A diazotrophic cyanobacteria using nifH gene sequencing, revealing distinct microdiversity and environmental drivers.

Computational simulation of ecological drift for generating functional minimal microbiomes identifies key experimental and biotic factors influencing success

The paper uses computational simulations to study ecological drift in generating minimal microbiomes, identifying factors affecting their success.

Exploring the Phaeosphere: characterizing the microbiomes of Phaeocystis antarctica colonies from the coastal Southern Ocean and laboratory culture

This study characterizes the microbiomes of Phaeocystis antarctica colonies in the Southern Ocean and laboratory culture, showing shifts in bacterial composition and highlighting the importance of field studies for understanding microbial interactions.

Contrasting dynamics and biotic association networks in estuarine microbenthic communities along an environmental disturbance gradient

The paper analyzes eDNA from estuarine sediments to assess microbial community dynamics and biotic associations across environmental disturbance gradients, finding that disturbed sites show greater variability and different network structures.

Characterizing organisms from three domains of life with universal primers from throughout the global ocean

The paper introduces GRUMP, a database of global ocean microbial communities using universal primers, enabling direct comparison of taxonomic ratios across samples and domains.

Predation by a ciliate community mediates temperature and nutrient effects on a peatland prey prokaryotic community.

The paper investigates how predation by ciliates affects prokaryotic community diversity, biomass, and function under varying temperature and nutrient conditions in peatlands.

Hidden but discoverable diversity in the global microbiome

The paper quantifies discoverable bacterial and archaeal diversity in metagenomes, finding many novel phyla and genera hidden in current data.

Polyacrylamide bead split-pool method for microbial community analysis

The paper introduces a single-cell method using polyacrylamide beads and split-pool barcoding to study microbial community heterogeneity and spatial interactions.

Community-level physiological profiling of carbon substrate metabolization by microbial communities associated to sediments and water in karstic caves from Romania

This study uses CLPP to assess carbon substrate utilization by microbial communities in Romanian karstic caves, revealing environmental drivers and distinct metabolic patterns.

Unveiling the hidden biodiversity of microbial chemoreceptor genes in the rare biosphere

The paper develops a target capture sequencing method to detect low-abundance chemoreceptor genes in diverse environments, revealing novel microbial chemosensory biodiversity.

Seasonal dynamics and thermal vulnerability of marine microbial communities in Uruguayan coastal waters

This study examines seasonal changes and thermal vulnerability in marine microbial communities in Uruguayan coastal waters using long-term data from a Marine Protected Area.

Genetic potential for denitrification in SAR11 and other ubiquitous lineages of marine bacteria isolated from the northern Benguela Upwelling System

The paper isolates and sequences 24 marine bacteria from low-oxygen waters to identify those with genetic potential for denitrification, finding 79% have denitrification genes, including SAR11 with a novel nirK gene.

Microbial diversity of Atlantic Rainforest ponds assessed by nanopore sequencing

This study uses nanopore sequencing to analyze microbial diversity in three Brazilian Atlantic Rainforest ponds, revealing distinct community structures and functional profiles.

Deep long-read metagenomic sequencing reveals niche differentiation in carbon cycling potential between benthic and planktonic microbial populations

Magnimaribacterales marine bacteria genetically partition across the nearshore to open-ocean in the tropical Pacific Ocean

This study identifies distinct habitat preferences for Magnimaribacterales bacteria across marine environments using metagenomic and amplicon data from the tropical Pacific Ocean.

Abundant and metabolically flexible lineages within the SAR324 and gammaproteobacteria dominate the potential for rubisco-mediated carbon fixation in the dark ocean

The paper analyzes metagenomic data to show that rubisco-encoding organisms, particularly from SAR324 and gammaproteobacteria, dominate carbon fixation potential in the dark ocean.