Gianni Liti

The paper identifies widespread Saccharomyces hybridization in agave fermentations, showing multiple independent origins and asymmetric parental genetic diversity.

The paper quantifies mating strategies in yeast gametes, revealing a reproductive hierarchy where sibling gametes have divergent mating trajectories and temporal heterogeneity shapes compatibility.

The paper identifies a novel mechanism for autopolyploidization in yeast called SEM, demonstrating triploid and tetraploid formation through postmeiotic endoreplication and mating.

The paper uses experimental evolution in yeast to study how recombination rates change under divergent selection, finding increased and decreased rates in selected lineages.

This paper establishes a haploid yeast strain collection to study ecological and reproductive divergence in wild S. cerevisiae, finding that structural genomic variation and metabolic gene divergence drive these traits.

This study synthesizes global yeast distribution in microbiomes using metabarcoding data, showing their ubiquity and underrepresentation despite ecological importance.

This study reprograms yeast telomeres to human-like sequences and identifies adaptive mutations that allow survival and fitness recovery.

The paper identifies suppressor variants that alter gene essentiality across yeast strains, revealing context-dependent genetic mechanisms.

The paper shows repeated loss of mating-type switching in yeast led to heterothallism, polyploidy, and increased heterozygosity across diverse environments.

This study investigates the role of a horizontally acquired genomic region in yeast adaptation by analyzing its molecular and phenotypic effects across different genetic backgrounds.

This study investigates how ploidy and genetic background influence stress tolerance in yeast hybrids, finding condition-dependent effects on heterosis.

This study identifies a novel feedback system regulating Cdk function through Spo12, a small disordered protein that inhibits PP2A, and shows its role in enhancing cell proliferation in fission yeast.

This paper introduces μSeq, a method for accurately quantifying mutation rates using deep sequencing of single clonal expansions, showing it outperforms existing methods in robustness and accuracy.

This study uses optogenetics to show that region A genes in wine yeast are essential for completing fermentation under low nitrogen conditions.

This paper introduces PGGB, a pipeline for building pangenome graphs that includes all variation without bias, enabling variation detection, conservation measurement, recombination event detection, and phylogenetic inference.

The paper identifies a new Saccharomyces species, S. chiloensis sp. nov., using integrative taxonomy methods, showing genetic and reproductive divergence from S. uvarum.

The paper quantifies proteomic effects of aneuploidy in natural yeast isolates, finding chromosome-wide dosage compensation in the proteome but not transcriptome.

This study uses machine learning to predict yeast phenotypes from genotypes, finding gradient boosting machines perform best and accessory genome contributes significantly.

This study quantifies mating affinity among natural Saccharomyces cerevisiae strains and finds that adaptive mating preferences enhance hybrid fitness.

The paper analyzes hybrid fitness in S. cerevisiae strains under different carbon sources, finding correlations with parental fitness and genetic distance.

This paper describes a method to efficiently generate heterothallic fission yeast strains using CRISPR-Cas9 and a mating type locus alteration.

This study quantifies mutation rates and spectra in yeast under rapamycin and hydroxyurea treatments, revealing distinct mutagenic effects and their impact on cell fitness.

This paper presents 142 high-quality yeast genomes to improve pangenome understanding, identifying structural variants and complex genomic regions.

The paper finds that wild Saccharomyces cerevisiae isolates have shorter telomeres than domesticated ones, linked to genetic and metabolic differences.

The paper identifies miRNA copy number variations as a marker for cancer predisposition across species, showing they can distinguish cancer-prone from cancer-resistant organisms.

The paper introduces a method to improve industrial yeast strains through recombination during mitotic growth, identifying clones with enhanced biotechnological traits.

RecombineX automates tetrad analysis workflows for meiotic recombination, supporting diverse organisms and genetic backgrounds with simulation and batch processing capabilities.

This study samples S. cerevisiae genetic diversity in Taiwan, revealing nine lineages, historical admixture, and clonal reproduction, highlighting its natural diversity before human domestication.

The paper measures how natural genetic variation can suppress mutations in essential yeast genes, finding that 35% of tested genes can be suppressed by modifier genes in different backgrounds.

Aborting meiosis followed by return-to-growth promotes genome-wide recombination in sterile yeast hybrids, enabling adaptation and genetic mapping.