Fungal and yeast genetics research

Cdc73 majorly regulates apoptosis-inducing factor (AIF1) in Saccharomyces cerevisiae via the H3K36 methylation

The paper shows that Cdc73 regulates AIF1 expression in yeast under hydrogen peroxide stress through H3K36 methylation, independent of H3K4 methylation.

Dissecting aneuploidy phenotypes by constructing Sc2.0 chromosome VII and SCRaMbLEing synthetic disomic yeast

The paper constructs a synthetic disomic yeast using SCRaMbLE and a newly synthesized chromosome to study aneuploidy phenotypes, finding that both copy number and specific chromosomal regions affect fitness.

Debugging and consolidating multiple synthetic chromosomes reveals combinatorial genetic interactions

The paper uses CRISPR D-BUGS and chromosome swapping to identify and resolve genetic interactions in synthetic chromosomes, revealing unexpected links between transcription, inositol metabolism, and tRNA abundance.

Evolutionary diversity of the control of the azole response by Tra1 across yeast species

The paper investigates how Tra1 regulates azole resistance in different yeast species, finding species-specific effects on gene expression and drug tolerance.

Efficient PCR-based gene targeting in isolates of the non-conventional yeast Debaryomyces hansenii

The paper describes an efficient PCR-based method for gene targeting in wild-type Debaryomyces hansenii isolates, achieving high integration rates through homologous recombination.

The type of carbon source not the growth rate it supports can determine diauxie

This study shows that budding yeast prefer galactose over palatinose despite faster growth on palatinose, challenging the idea that carbon flux-sensing alone determines carbon source preference.

Quantitative trait locus mapping of osmotic stress response in the wheat pathogen Zymoseptoria tritici

This study maps quantitative trait loci (QTL) for osmotic stress response in Zymoseptoria tritici, identifying candidate genes and QTL associated with salt tolerance.

Multi-signal regulation of the GSK-3β homolog Rim11 governs meiosis entry in yeast

The paper shows how Rim11 integrates signals from PKA, TORC1, and Ime1 to regulate Ume6 phosphorylation and drive meiotic gene expression in yeast.

High-efficiency transformation and expression of genomic libraries in yeast

This paper presents an optimized electroporation protocol for high-efficiency yeast transformation, enabling efficient expression of whole-genome libraries with minimal DNA input.

Control of meiotic entry by dual inhibition of a key mitotic transcription factor

The paper identifies two mechanisms that restrict SBF activity during meiotic entry in budding yeast, highlighting their role in regulating gene expression and meiotic progression.

Beyond the reach of homology: successive computational filters find yeast pheromone genes

The paper identifies yeast pheromone genes using computational filters, finding candidates in 238 out of 332 fungal genomes across 13 distant clades.

Core gene set of the species Saccharomyces cerevisiae

The paper identifies the core gene set of Saccharomyces cerevisiae by analyzing 94 strains, revealing 5885 core genes and highlighting annotation issues and genomic variability.

Towards universal synthetic heterotrophy using a metabolic coordinator

This paper introduces a metabolic coordinator, Gal3pMC, that enables efficient activation of the GAL regulon across diverse substrates, improving growth rates and substrate utilization in yeast.

Molecular Mechanisms Underlying Phenotypic Degeneration in Cordyceps militaris: Insights from Transcriptome Reanalysis and Osmotic Stress Studies

This study investigates molecular mechanisms of phenotypic degeneration in Cordyceps militaris through transcriptome reanalysis and osmotic stress experiments, identifying dysregulated pathways and gene expression patterns.

Kar4 is Required for the Normal Pattern of Meiotic Gene Expression

This paper shows Kar4p is required for meiotic gene expression, with defects in early and late gene expression that can be partially rescued by overexpressing IME1 and RIM4.

Absence of chromosome axis proteins recruitment prevents meiotic recombination chromosome-wide in the budding yeast Lachancea kluyveri

The paper shows that absence of Red1 and Hop1 recruitment prevents meiotic recombination on a chromosome arm containing the sex locus in Lachancea kluyveri, affecting genome evolution and fitness.

The Bcvic1 and Bcvic2 vegetative incompatibility genes in Botrytis cinerea encode proteins with domain architectures involved in allorecognition in other filamentous fungi

The paper identifies and characterizes two genes, Bcvic1 and Bcvic2, in Botrytis cinerea that are involved in vegetative incompatibility, a fungal allorecognition system.

Identification and functional characterisation of a locus for target site integration in Fusarium graminearum

The paper identifies a conserved intergenic region in Fusarium graminearum suitable for targeted integration, develops a cloning system, and validates its utility for gene studies and protein secretion analysis.

Rapid, efficient auxin-inducible protein degradation in Candida pathogens

This paper demonstrates the efficient use of auxin-inducible degradation systems in Candida pathogens for rapid protein inactivation.

Synthetic chromosome fusion: effects on genome structure and function

The paper synthesizes a shorter yeast chromosome and studies its fusion with other chromosomes, revealing new 3D structural interactions and Red1 binding patterns.

Frequent transitions in mating-type locus chromosomal organization in Malassezia and early steps in sexual reproduction

This study identifies genomic transitions in mating-type locus organization in Malassezia and shows engineered strains exhibit hyphal development and upregulated mating-related genes.

Omics driven onboarding of the carotenoid producing red yeast Xanthophyllomyces dendrorhous CBS 6938

This paper develops a modular genetic part library for Xanthophyllomyces dendrorhous using transcriptomics and genomics, identifying 26 promoters and revealing light-responsive regulatory mechanisms.

High-quality co-expression networks for accurate gene function predictions in the fungal cell factory Aspergillus niger and beyond

The paper constructs a high-quality co-expression network for Aspergillus niger using RNA-seq data, showing improved gene function prediction compared to a previous microarray-based network.

Yeast cell responses and survival during periodic osmotic stress are controlled by glucose availability

This study shows that yeast cell proliferation, survival, and signaling under periodic osmotic stress depend on the phasing of stress with glucose deprivation, highlighting the role of metabolic fluctuations in stress responses.

Homeobox Transcription Factor HbxA Influences Expression of over One ThousandGenes in the Model Fungus Aspergillus nidulans

The paper investigates the role of HbxA in Aspergillus nidulans, showing it regulates over 1,000 genes and affects secondary metabolite production.

The dominant role of post-transcriptional regulation in Yarrowia lipolytica to repeated O2 limitations

This study investigates Yarrowia lipolytica's response to repeated oxygen limitations using a multi-omics approach, revealing that post-transcriptional regulation dominates its adaptation to industrial conditions.

The Transcriptional Regulator Ume6 is a Major Driver of Early Gene Expression during Gametogenesis

This study resolves the mechanism of early meiotic gene activation by showing that Ime1 and Ume6 function as a coactivator complex, with Ume6 directly regulating EMG expression.

Identification of the yeast mannoprotein gene HZY1 as a key genetic determinant for yeast-derived haze in beer

The paper identifies HZY1 as a key gene for yeast-derived haze in beer and shows genetic variation in HZY1 correlates with haze phenotypes.

Transcription factor FfmA interacts both physically and genetically with AtrR to properly regulate gene expression in the fungus Aspergillus fumigatus

The paper investigates the interaction between transcription factors FfmA and AtrR in Aspergillus fumigatus, showing their physical and genetic interaction affects gene expression and azole resistance.

Large-scale genomic rearrangements boost SCRaMbLE in Saccharomyces cerevisiae

This study demonstrates that genomic rearrangements in yeast can be efficiently induced using SCRaMbLE, leading to diverse genetic changes and phenotypic effects.