J. A. Eisen

Taxonomic, genomic, and functional variation in the gut microbiomes of wild spotted hyenas across two decades of study

This study analyzes gut microbiome variation in wild spotted hyenas over 23 years, finding individualized and age-related microbiomes with novel genomic diversity.

Reconstruction of metagenome-assembled genomes from aquaria

The paper reports 11 metagenome-assembled genomes from aquaria, including CPR members, providing a resource for studying microbial roles in built environments.

Metagenomic methylation patterns resolve complex microbial genomes

The paper uses DNA methylation patterns to resolve complex microbial genomes from metagenomes, identifying new restriction modification systems and finishing a large bacterial genome.

Global diversity and biogeography of the Zostera marina mycobiome

This study characterizes the global distribution and community assembly of fungi associated with the seagrass Zostera marina using ITS and 18S rRNA gene sequencing, revealing patterns of diversity, core mycobiomes, and potential functional guilds.

The gut microbiome stability of a butterflyfish is disrupted on severely degraded Caribbean coral reefs

The study shows that gut microbiome stability in a butterflyfish declines on severely degraded Caribbean coral reefs, with reduced Endozoicomonas and increased anaerobic bacteria.

Ancestral absence of electron transport chains in Patescibacteria and DPANN

The paper investigates Patescibacteria and DPANN, finding they lack electron transport chains and rely on fermentation, suggesting ancestral adaptations to symbiotic lifestyles.

All small things considered: the diversity of fungi, bacteria and oomycota isolated from the seagrass, Zostera marina

This study isolates and identifies fungi, bacteria, and oomycetes from Zostera marina, revealing diverse taxa and highlighting their potential ecological roles.

Whole genome sequence analysis reveals broad distribution of the RtxA type 1 secretion system and four novel type 1 secretion systems throughout the Legionella genus

The paper analyzes whole genome sequences of Legionella species to reveal the broad distribution of the RtxA type 1 secretion system and four novel T1SSs, challenging the view of RtxA as a conserved virulence factor.

Characterization of the mycobiome of the seagrass, Zostera marina, reveals putative associations with marine chytrids

This study characterizes the fungal community associated with seagrass Zostera marina and identifies a novel chytrid fungus potentially infecting the plant.

Energetic and Environmental Constraints on the Community Structure of Benthic Microbial Mats in Lake Fryxell, Antarctica

The paper examines how PAR and [O2] shape microbial community structure in Lake Fryxell mats, finding scale-dependent energy-driven patterns.

Network analysis to evaluate the impact of research funding on research community consolidation

The paper evaluates how a research funding program impacted community consolidation by analyzing collaboration networks of funded and non-funded authors.

There and back again: metagenome-assembled genomes provide new insights into two thermal pools in Kamchatka, Russia

The paper assembles metagenome-assembled genomes from two thermal pools in Kamchatka, revealing new insights into microbial diversity and function.

Global-scale structure of the eelgrass microbiome

The paper analyzes the global microbiome of eelgrass, revealing distinct microbial communities on leaves and roots with different spatial and functional patterns.