Maitreya J. Dunham

The paper investigates the mcm4Chaos3 mutation in yeast, showing it causes genome instability by impairing specific centromere-proximal origins.

The yEvo Mutation Browser helps students and researchers visualize and interpret genome sequencing data from experimental evolution studies of yeast.

The paper investigates rDNA instability in aging yeast, identifying new forms of instability beyond ERCs that contribute to lifespan variability.

The paper identifies a mechanism of gene amplification in yeast involving microhomology-mediated break-induced replication (mmBIR) at telomeres, leading to tandem duplication of chromosomal ends.

The paper classifies G6PD variants using functional assays to identify clinically relevant variants and those unlikely to contribute to G6PD deficiency.

The paper surveys killer yeast prevalence in attine ant fungus gardens, identifies a new killer toxin Ksino, and highlights its antifungal activity and ecological significance.

This paper uses experimental evolution to improve mother-daughter separation defects in brewing yeast by generating evolved strains with reduced clustering.

The paper identifies a long-standing mutator allele in S. cerevisiae that increases A>C and A>G mutations, showing its persistence and impact on mutation spectra across populations.

The paper investigates hybrid sterility in S. cerevisiae x S. uvarum hybrids using meiotic null alleles, finding that near-haploid offspring with mixed chromosomal inheritance can be recovered despite reduced fertility.

This paper describes a cross-species rescue by mating method to study gene essentiality across Saccharomyces species.

The paper improves G6PD variant interpretation using All of Us data and a yeast assay, identifying new variants and classifying some as non-pathogenic.

The paper identifies URA6 mutations that confer 5-FOA resistance in yeast, showing cross-resistance to other fluorinated compounds and revealing a reduction in uridylate kinase activity.

This study uses experimental evolution of S. cerevisiae to identify genetic factors contributing to caffeine tolerance, revealing roles for multidrug resistance and TOR signaling pathways.

Pacybara improves the accuracy of long-read sequencing for barcoded mutagenized libraries by addressing sequencing errors and non-unique barcodes.

The paper proposes a unifying mechanism, ODIRA, to explain the origins of human inverted copy number variants and their role in both inherited syndromes and cancer.

The paper identifies a replication error mechanism called ODIRA that generates inverted copy number variants through template switching at replication forks, using yeast as a model system.

The paper systematically profiles protein dynamics in ale yeast during fermentation and repitching, identifying changes in ergosterol and isobutyraldehyde metabolism.

The paper identifies candidate genes with large fitness effects in aneuploid yeast under specific stress conditions using a piecewise constant model.

This study uses multidimensional proteomics to analyze age-related changes in yeast cells, identifying molecular trajectories of aging and rejuvenation.

The paper identifies de novo telomere addition at a hotspot near SUL1 in yeast under sulfate-limiting conditions, stabilizing linear amplicons and contributing to genomic plasticity.

The paper describes an at-home yeast experimental evolution protocol that selects for caffeine-tolerant mutations in S. cerevisiae, revealing genetic changes related to caffeine and TOR signaling.

The paper catalogs and interprets 1,341 G6PD variants, providing clinical interpretations for 400 variants and highlighting challenges in classification systems.

PacRAT improves barcode-variant mapping from PacBio long reads by enhancing alignment and consensus calling, increasing usable reads in both simulated and real libraries.

The paper characterizes CYP2C9 variant enzyme activity and abundance using Click-seq and VAMP-seq, finding that two-thirds of variants show decreased activity and abundance explains half the functional variation.

This study uses high school students to experimentally evolve S. cerevisiae and identifies mutations and epistatic interactions affecting azole resistance.

The paper introduces a high-throughput method to assess mutation rates in yeast strains with Msh2 mutations, identifying pathogenic variants by linking mutations to DNA repair gene alleles.

The paper presents a high-throughput assay to measure the fitness of natural alleles in yeast, identifying functional and nonfunctional variants and their effects on phenotype.

This study investigates whether interspecific yeast hybridization increases transposable element mobilization, finding that mitochondrial inheritance, not hybridization itself, significantly affects transposition rates.

This study identifies beneficial alleles lost through LOH in yeast hybrids, showing how LOH can drive adaptation to new environments.

This study edits rDNA replication origins in yeast using CRISPR/Cas9, revealing growth and lifespan consequences of such modifications.