Vladimir Jiranek

LactoTypeDB: a regenerable, type-anchored 16S rRNA gene reference for species-level identification of the Lactobacillaceae in foods

LactoTypeDB improves species-level identification of Lactobacillaceae in foods by providing a type-anchored 16S rRNA gene reference, reducing misassignment errors significantly.

Experimental design and analysis of sulfide-induced invasive growth in wine yeast

This study identifies conditions for observing sulfide-induced invasive growth in wine yeast and shows genetic and environmental factors influence this behavior.

Stingless bees, turtle ants and tea plants are rich sources of undescribed Lactobacillaceae

The paper identifies undescribed Lactobacillaceae lineages in stingless bees, turtle ants, and tea plants by reclassifying 16S rRNA gene sequences from public datasets.

Agent-based modelling and time series inference of filamentous yeast colonies

The paper develops an agent-based model and neural likelihood estimator to infer parameters of yeast colony growth from time series data, improving parameter estimation and prediction accuracy compared to approximate Bayesian computation.

Modelling the emergence of spiral colony morphology in the yeast Magnusiomyces magnusii

The paper models spiral colony morphology in yeast using an agent-based model and Bayesian inference to infer hyphal growth parameters.

Quantifying the effects of cell death and agar density on yeast colony biofilms using an extensional-flow mathematical model

The paper uses experiments and a mathematical model to show that higher agar density increases yeast biofilm adhesion and decreases nutrient uptake.

Accidental and Regulated Cell Death in Yeast Colony Biofilms

This paper develops a continuum model incorporating accidental and regulated cell death to study yeast colony biofilm growth and morphology, showing qualitative agreement with experiments.

An off-lattice discrete model to characterise filamentous yeast colony morphology

The paper uses an off-lattice agent-based model and experimental data to show that budding mechanisms and nutrient concentration drive filamentous yeast colony morphology.

A study of phenotypic plasticity of Saccharomyces cerevisiae in natural grape juices shed light on allelic variation under balanced selection.

This study identifies QTLs in Saccharomyces cerevisiae that influence phenotypic plasticity in grape juice fermentation, revealing allelic variation under balanced selection.