A. Amir

Are cell length and volume interchangeable in cell cycle analysis?

The paper investigates whether cell length and volume can be used interchangeably in cell cycle analysis and finds they can be, due to small cell width fluctuations.

Determining the rate-limiting processes for cell division in Escherichia coli

This study investigates the role of FtsN and FtsA in E. coli cell division and finds that FtsZ protofilaments, not FtsN, are rate-limiting for division onset.

Optogenetic control of pheromone gradients and mating behavior in budding yeast

The paper uses optogenetic tools to control pheromone gradients in budding yeast, enabling spatial regulation of mating behavior and cell fusion.

Measuring and modeling the dynamics of mitotic error correction

The paper quantifies mitotic error correction dynamics in human cells and validates a model explaining error reduction and anaphase timing.

Sound-mediated nucleation and growth of amyloid fibrils

This study shows low-amplitude ultrasound can induce amyloid fibril nucleation and controlled growth from natively folded lysozyme monomers.

Self-extinguishing relay waves enable homeostaticcontrol of human neutrophil swarming

The paper identifies a self-extinguishing relay wave mechanism in human neutrophils that controls swarming and recruitment levels through an NADPH-oxidase-based feedback loop.

Dual mechanism of kinetochore microtubule detachment

This paper investigates how kinetochore microtubules detach by combining experimental measurements and modeling, revealing a dual mechanism involving NDC80 complex binding energetics and microtubule catastrophe.

Mycobacterium tuberculosis grows linearly at the single-cell level with larger variability than model organisms

This study uses time-lapse imaging and modeling to show that Mycobacterium tuberculosis grows linearly with high cell-to-cell variability, differing from exponential growth in model organisms.

Physiological stress drives the emergence of a Salmonella subpopulation through ribosomal RNA regulation

The paper shows that physiological stress in Salmonella leads to a subpopulation with reduced rRNA content, identified through rRNA-FISH and transposon screening.

How microscopic epistasis and clonal interference shape the fitness trajectory in a spin glass model of microbial long-term evolution

This study uses a computational model to show how microscopic epistasis and clonal interference affect microbial fitness trajectories, finding that epistasis slows growth while clonal interference speeds it up under certain conditions.

Evolutionary dynamics in non-Markovian models of microbial populations

This paper shows that evolutionary dynamics in microbial populations cannot be fully described by long-term fitness alone due to fluctuations in division rates affecting genetic drift and fixation probabilities.

Single-cell microfluidic analysis unravels individual cellular fates during Double-Strand Break Repair

The paper uses microfluidic analysis to study individual cellular fates during Double-Strand Break Repair, identifying three repair categories based on efficacy and error rates.

Achieving pan-microbiome biological insights via the dbBact knowledge base

The paper introduces dbBact, a bacterial knowledge base that integrates 16S rRNA amplicon data to enhance microbiome analysis and hypothesis generation.

To bin or not to bin: analyzing single-cell growth data

The paper analyzes single-cell growth data in E. coli, showing that growth is non-exponential and faster than exponential in later cell cycle stages.

Replication-related control over cell division in Escherichia coli is growth-rate dependent

This study shows that in Escherichia coli, replication and division are strongly correlated at slow growth rates but become independent at higher growth rates.

Modeling the impact of single-cell stochasticity and size control on the population growth rate in asymmetrically dividing cells

The paper models how single-cell stochasticity and size control affect population growth rates in asymmetrically dividing cells, finding that asymmetric division can enhance growth rates under strong size control.

Cell size regulation in budding yeast does not depend on linear accumulation of Whi5

This study challenges a model of cell size control in budding yeast by showing that altering Whi5 concentration via inducible promoter does not disrupt size regulation.

Dynamics of diffusive cell signaling relays

This study shows that diffusive signaling relays enable fast-traveling chemical waves, which create steep gradients for cell communication, and demonstrates their relevance in immune response.

Evolution of microbial growth traits under serial dilution

This study investigates how microbial growth traits evolve under serial dilution, finding that growth rate and lag time are subject to selection while yield is not.

A model for the regulation of the timing of cell division by the circadian clock in the cyanobacterium Synechococcus elongatus

The paper proposes a modulated rates model to explain how the circadian clock in Synechococcus elongatus regulates cell division timing, showing it better explains environmental changes than the gating model.

Homeostasis of protein and mRNA concentrations in growing cells

The paper constructs a gene expression model to explain how protein and mRNA concentrations scale with cell volume in growing cells, finding exponential growth and a transition to linear growth under certain conditions.