Key research themes
1. How do molecular and culture-independent methods enhance understanding of cheese microbiota diversity and activity?
This research theme focuses on the development and application of molecular techniques, such as 16S rRNA gene amplicon sequencing, metagenomics, metatranscriptomics, and RNA-based analyses, to characterize the composition, metabolic activity, and dynamics of cheese-associated microbial communities. It addresses the limitations of traditional culture-dependent methods and explores how integrative molecular approaches enable detailed profiling of both cultivable and uncultivable bacteria, yeasts, and molds, thereby linking microbial populations to cheese ripening processes, safety, and organoleptic properties. Understanding these microbial interactions and activity patterns is critical for controlling cheese quality and flavor development, as well as for identifying functional microbiota in artisanal and industrial cheese production.
2. What roles do specific microbial taxa and contamination sources play in cheese spoilage and defects?
This research area investigates identification and confirmation of bacterial species and consortia responsible for spoilage phenomena—such as slit defects in Cheddar cheese—as well as the microbial ecology driving cheese rind microbiomes. Studies use a combination of microbiological enumeration, molecular sequencing, and culturing to map microbial transmission pathways from milk and environmental reservoirs to cheese, assessing viable populations and their contribution to defects. Understanding these causes enables better control of microbial contamination, reduces economic losses, and guides hygienic and manufacturing interventions.
3. How do microbial communities and environmental microbiota shape artisanal cheese typicity and ripening outcomes?
This theme explores how indigenous microbial ecosystems from milk, backslopping cultures, and cheese-making or ripening environments impact the sensory characteristics, aroma profiles, and typicity of artisanal cheeses. Research addresses the origin, succession, and functional roles of lactic acid bacteria, yeasts, molds, and their interactions, including production of volatile organic compounds (VOCs) influencing flavor development. These studies also consider how facility-specific 'house' microbiota contribute to brand specificity and natural inoculation during ripening, connecting microbiota structure with biochemical and organoleptic properties key for preserving cheese uniqueness.