Why are archaea not pathogenic? A hypothesis based on metabolism-habitat covariation | mBio

Pathogenicity—the ability to cause infectious disease—is widespread among bacteria and eukaryotes but conspicuously absent from archaea, the third domain of life. To understand why archaea are non-pat...

journals.asm.org

How a harmful bacterium senses iron—and why it matters for fighting infections

Pseudomonas aeruginosa is a common culprit in hospital-acquired bacterial infections and is growing more resistant to antibiotics. New findings from Aaron Smith, professor of chemistry and…

phys.org

The human gut microbiome primes fever after vaccination

Fever is a common adverse reaction to vaccination, contributing to vaccine hesitancy and reduced uptake. To understand variation in fever risk, we longitudinally profiled fecal microbiota, oral temper...

science.org

biorxiv.org

mhctools

Run MHC binding, presentation, immunogenicity and antigen-processing predictors through one predict() call

openvax.github.io

Phenotypic divergence is driven by mobile genetic elements in a heritable insect symbiont | PNAS

Heritable microbes profoundly influence insect biology, yet the traits they confer often evolve rapidly and differ among closely related symbiont s...

pnas.org

Parallel evolution of chimeric genes in microbial evolution experiments.

Published in Microbial genomics

doi.org

Antibiotic-resistant pathogens and heavy metal-tolerant bacteria in Batissa violacea: A study from the Ba River, Fiji.

Published in PloS one

doi.org

We're Looking to Sponsor Postdoc Fellows in AI-Driven Microbial Cultivation

NSF Postdoctoral Research Fellowships in Biology

uncultured.carinilab.com

The 100 Diatom Genomes Project

This Community Page presents the 100 Diatom Genomes Project, which aims to sequence the genomes and transcriptomes of 100 diatom species across major lineages, life forms and ecological strategies. Th...

journals.plos.org

What lurks in the dark? An innovative framework for studying diverse wild insect microbiota - Microbiome

Microbiome - Symbiotic microorganisms can profoundly impact insect biology, including their life history traits, population dynamics, and evolutionary trajectories. However, microbiota remain...

link.springer.com

Metagenomics deciphers diagenetic processes of ferruginous mineralization in the deep biosphere - Communications Earth & Environment

Authigenic minerals reflect specific respiration and fermentation pathways leading to diagenetic redistribution of iron and carbon isotopes during burial, according to an in-depth characterization of ...

nature.com

Clustering the protein universe of life using DIAMOND DeepClust - Nature Methods

DIAMOND DeepClust provides an ultra-fast clustering method for organizing the protein universe of life at low sequence identity, enabling large-scale dimensionality reduction and improving downstream ...

nature.com

An expanded codebook of human transcription factor DNA-binding specificity - Nature

Results from a panel of assays that analyse different aspects of DNA sequence specificity reveal more than 100 new motifs to aid the characterization of putative human transcription factors.

nature.com

The evolution of the Earth’s surface iron cycle | PNAS

Formation and burial of pyrite (iron sulfide) in marine sediments exert a fundamental control on atmospheric oxygenation and seawater buffering ove...

pnas.org

Growth characteristics of natural microbial populations are skewed toward bacteria with low specific growth rates | Microbiology Spectrum

All living organisms are constrained by environmental boundaries that govern where growth is possible, such as minimum and maximum temperatures or pH. An organism’s maximum specific growth rate places...

journals.asm.org

Taxonomic Resolution of 16S rRNA, FastANI, Mash, and FastAAI across 30,495 Prokaryotic Type-Strain Genomes

Prokaryotic taxonomy now relies on both marker-gene and genome-wide sequence comparisons, but these methods differ in taxonomic range, scalability, and sensitivity to genome quality. Here, we benchmar...

biorxiv.org

Experimental verification of the error minimization theory using non-standard genetic codes constructed in vitro

The in vitro experiments that used the artificial genetic codes tested here did not provide support for the error minimization theory.

elifesciences.org

Genome-wide dissection of tillering responsiveness to neighbour proximity in sorghum

Tillering plasticity is a key adaptive trait in sorghum influencing resource use efficiency via a plant’s ability to adjust branching to neighbour density. Neighbour detection through red:far-red (R:F...

biorxiv.org

MagicLamp: a web server and software toolkit for targeted gene annotation of microbial functions

Genome and metagenome annotation tools designed for large databases are ill-suited to the discovery of specialized, ecologically relevant microbial functions. MagicLamp (<https://github.com/Arkadiy-Ga...

biorxiv.org

Frontiers | Comparative transcriptomics of closely related Geobacter sulfurreducens strains uncovers strain-level variations in extracellular electron transfer

Members of Geobacter sulfurreducens are electroactive bacteria that transfer electrons to extracellular solid electron acceptors using extracellular electron...

frontiersin.org