metagenomics

This study examines how different fitness statistics in high-throughput microbial experiments affect interpretations of mutant fitness and evolutionary dynamics.

The paper compares immune profiles and microbiomes of breast milk from mothers with different farm exposures to identify associations with immune development and atopic disease.

This study shows that ROS1-induced DNA demethylation leads to distinct epigenetic changes in chromosome arms and pericentromeres during plant immune memory formation and erasure.

The paper analyzes antibiotic resistance genes and mobile genetic elements in anaerobic digestion systems, finding that pH and ammonia levels influence their abundance and that network analysis reveals dynamic associations across stages.

The paper investigates the exchange of bacteria and carbapenem resistance genes between sewer biofilms and wastewater under controlled and field conditions.

This study shows ANME-2a archaea use multiple electron acceptors for methane oxidation in brackish coastal sediments, with highest activity below the sulfate-methane transition zone.

The paper uses water stable isotopes to trace stemflow's contribution to water supply in adult and juvenile European beech trees, showing significant uptake by both.

This study shows that Aurantiochytrium, a heterotrophic protist, thrives on viral-induced dissolved organic matter from virus-infected Heterosigma akashiwo, highlighting its role in carbon cycling after algal blooms collapse.

The paper analyzes CRISPR spacers from metagenomic data to reveal patterns of CRISPR targeting across Earth's biomes, identifying selection pressures and non-host phage interactions.

The paper investigates how gut commensal strains modulate the growth and virulence of Clostridium perfringens through substrate competition and protein level changes.

This study shows that ESX-5 deletions in Mtb reduce cytokine secretion in macrophages via a post-transcriptional mechanism and alter heavy metal response genes.

A validated PCR-RFLP method enables efficient identification of anaerobic gut fungi from faecal samples, leading to isolation of four genera including a novel Piromyces species.

The paper examines microbial communities of invasive and native Drosophila species in French Guiana, identifying candidate taxa linked to host adaptation and competitiveness.

The paper introduces the Microbiology Galaxy Lab, a community-driven platform for reproducible and FAIR microbial data analysis, offering tools for various omics data types and use cases.

This study investigates the role of Casd1 in sialic acid O-acetylation of intestinal mucus and its impact on tissue damage susceptibility in mice.

This study examines how ocean warming affects the microbiome of the sponge Haliclona sp., finding significant shifts in rare microbiota composition and potential acclimation through microbial symbionts.

This study investigates how rice genotype, root compartment, and mycorrhizal association influence root microbiome composition in flooded conditions using shotgun metagenomic sequencing.

The paper links antimicrobial use (AMU) on dairy farms to variations in resistance gene profiles across cattle groups, showing that higher AMU correlates with increased resistance to certain drug classes.

The paper identifies temperature-sensitive microbial taxa in the cnidarian Exaiptasia diaphana that signal early thermal stress before host fitness declines.

ArthroVerse compiles and annotates protein families from arthropod-associated microbiomes to explore functional diversity and host-microbe interactions.

The paper characterizes the seasonal dynamics of cell-associated viral communities in Big Turkey Lake, identifies their functional roles through auxiliary metabolic genes, and reconstructs viral genomes.

This study examines cryptic diversity in subarctic moss populations, revealing habitat-specific genetic differences and clonal structure that affect biodiversity estimates.

The paper introduces FennoTraits, a dataset of plant functional traits and community composition from northern European flora, highlighting trait patterns and species distribution across seven study areas.

The paper isolates and cultures bacteria from four Mediterranean corals, identifying 84 pure isolates, including novel species, to better understand their roles in the coral holobiont.

This study shows that Pantoea ananatis triggers systemic resistance in Arabidopsis through root sensing via the LORE receptor kinase, using HAAs and 3-OH-C10 as MAMPs.

The paper maps the global distribution of β-lactamases across environments and microbes, revealing their abundance and potential origins in plant and wastewater ecosystems.

This study identifies microbial and metabolic changes across the adenoma-carcinoma sequence in colorectal cancer using 16S rRNA sequencing and metabolomic profiling.

The paper compares gut microbiomes of ground-nesting and wood-nesting bees near wastewater, finding greater microbial disruption in ground-nesting bees.

This study identifies self-cleaving ribozymes in RNA viruses, showing their role in translation initiation across fungi and plants.

The paper introduces BioSIFTR, a tool that uses shallow shotgun sequencing and biome-specific databases to generate accurate taxonomic and functional profiles, validated against deep sequencing data.