N. Takeuchi

Interaction range of common goods shapes Black Queen dynamics beyond the cheater-cooperator narrative

This paper presents an eco-evolutionary model showing that Black Queen dynamics can lead to either distributed or centralized common good production, depending on the interaction range among ecotypes.

In Vitro Evolution to Increase the Titers of Difficult Bacteriophages: Rapid Appelmans Protocol

This paper presents two methods to increase bacteriophage titers, with the Rapid Appelmans Protocol (RAP) achieving faster and higher titer improvements in four days.

Genetic exchange shapes ultra-small Patescibacteria metabolic capacities in the terrestrial subsurface

The paper investigates genetic exchange in Patescibacteria genomes from aquifer environments, finding extensive horizontal gene transfer contributing to metabolic diversity.

Prophages and plasmids display opposite trends in the types of accessory genes they carry

The paper compares prophages and plasmids in 21 pathogenic bacterial species, finding they carry different frequencies of antibiotic resistance and virulence factor genes.

Transposable elements drive the evolution of genome streamlining

The paper shows that transposable elements can drive genome streamlining in prokaryotes through horizontal gene transfer and rock-paper-scissors dynamics, despite being maladaptive to individual cells.

Slightly beneficial genes are retained by evolving Horizontal Gene Transfer despite selfish elements

The paper models how bacteria retain slightly beneficial genes through horizontal gene transfer despite the risks of selfish genetic elements, showing that spatial structure enables this retention.

The origin of the central dogma through conflicting multilevel selection

This paper demonstrates that the central dogma of molecular biology arises from conflicting multilevel selection in a model of protocells and catalytic molecules.

Bacterial community changes with cryoconite granule size and their susceptibility to exogenous nutrients on 10 glaciers in northwestern Greenland

The paper examines bacterial community changes across different cryoconite granule sizes and their response to exogenous nutrients on 10 glaciers in northwestern Greenland.