Project description:<p>Aging is a complex biological process influenced by genetic factors, environmental conditions, and interactions between organisms and their associated microbes. The budding yeast Saccharomyces cerevisiae and the fruit fly Drosophila melanogaster provide complementary model systems for investigating conserved metabolic processes associated with aging and longevity. However, comprehensive metabolomic resources describing how aging-associated microbial genetic alterations influence host metabolic states remain limited.</p><p>In this study, we generated a comprehensive untargeted metabolomics dataset to characterize metabolic alterations associated with aging-related S. cerevisiae deletion strains and their interactions with the D. melanogaster host. The dataset includes liquid chromatography–mass spectrometry (LC–MS)-based metabolomic profiles from 15 yeast strains, including the BY4743 control strain and 14 aging-associated deletion strains, as well as host metabolomic profiles from Drosophila tissues exposed to different yeast interventions. Host samples include intestinal and non-intestinal tissues collected at different life stages, enabling assessment of tissue-specific and age-associated metabolic responses to yeast genetic perturbations.</p><p>The generated dataset contains raw and processed metabolomics data, metabolite annotation information, and comprehensive sample metadata describing biological conditions, genetic backgrounds, tissue sources, intervention groups, and experimental parameters. These data provide a reusable resource for studying yeast-derived metabolic regulation, microbe–host interactions, and age-associated metabolic remodeling.</p><p>This metabolomics resource facilitates integrative analyses of microbial genetic variation, host metabolic adaptation, and conserved aging-related pathways, and supports future investigations into the molecular connections between microbial factors and host physiology.</p>
Project description:Natural genetic variation can cause significant differences in gene expression, but little is known about the polymorphisms that affect gene regulation. We analyzed regulatory variation in a cross between laboratory and wild strains of Saccharomyces cerevisiae. Clustering and linkage analysis defined groups of coregulated genes and the loci involved in their regulation. Most expression differences mapped to trans-acting loci. Positional cloning and functional assays showed that polymorphisms in GPA1 and AMN1 affect expression of genes involved in pheromone response and daughter cell separation, respectively. We also asked whether particular classes of genes were more likely to contain trans-regulatory polymorphisms. Notably, transcription factors showed no enrichment, and trans-regulatory variation seems to be broadly dispersed across classes of genes with different molecular functions Keywords: other
Project description:To characterize the ecological interactions among S. cerevisiae strains coming from the same geographical area, we examined the fitness of two natural isolates from San Giovese grapes, alone or in competition, in synthetic wine must (SWM). We performed genome-wide analyses in order to identify the genes involved in yeast competition and cooperation.
Project description:Genetic variation that underlies phenotypic differences provides the material on which evolutionary selection acts. Gene duplication/amplification is one type of genetic variation that can allow an organism to rapidly respond to environmental changes by increasing gene dosage. While the potential benefits afforded by gene amplification during evolution are well known, there is also a significant fitness cost to increasing gene dosage including resource shortages and burdening cellular systems. Although the evolutionary importance of gene duplication has long been appreciated, little is known about natural variation in the tolerance of duplication of specific genes. To investigate this question, we expressed the same high-copy gene overexpression (OE) library in a laboratory strain and 14 different wild S. cerevisiae isolates, together representing 4 lineages and several admixed strains, to explore the natural variation in tolerance to gene OE. Our results distinguish universal effects common to many studied strains versus strain-specific effects including broad-scale and gene-specific differences in the consequences of OE. These results raise important implications for the accessibility of evolutionary trajectories afforded by gene OE, depending on genetic background.