Fungal and yeast genetics research

Identification of genetic bases of male fertility in Pyricularia oryzae by Genome Wide Association Study (GWAS).

This study identifies a genomic region associated with microconidia production in Pyricularia oryzae using GWAS, suggesting potential genes involved in male fertility.

L-SCRaMbLE creates large-scale genome rearrangements in synthetic Sc2.0 chromosomes

The paper demonstrates the use of L-SCRaMbLE to generate large-scale genome rearrangements in synthetic Sc2.0 yeast chromosomes through light-inducible Cre recombinase.

Modulators of MAPK pathway activity during filamentous growth in Saccharomyces cerevisiae

The paper identifies new alleles and regulatory mechanisms of the fMAPK pathway in yeast through genetic screening and whole-genome sequencing.

Cbf11 and Mga2 function as a single regulatory entity to activate transcription of lipid metabolism genes and promote mitotic fidelity in fission yeast

This study shows Cbf11 and Mga2 work together to regulate lipid metabolism and mitotic fidelity in fission yeast, with similar single and double deletion phenotypes.

H3K4 methylation regulates development, DNA repair, and virulence in Mucorales

This paper investigates the role of H3K4 methylation in Mucorales fungi, showing it regulates development, DNA repair, and virulence through genetic and phenotypic analyses of set1 knockout strains.

A yeast modular cloning (MoClo) toolkit expansion for optimization of heterologous protein secretion and surface display in Saccharomyces cerevisiae.

The paper expands a yeast cloning toolkit to include optimized signal peptides and surface display anchors for improved protein secretion and display in S. cerevisiae.

The PP2A-like phosphatase Ppg1 mediates assembly of the Far complex to balance gluconeogenic outputs and adapt to glucose depletion

The paper identifies Ppg1 as a phosphatase that regulates Far complex assembly to maintain gluconeogenic outputs during glucose depletion in yeast.

Systems level analysis of time and stimuli specific signaling through PKA

The paper analyzes PKA signaling in yeast using phosphoproteomics to show how different cAMP concentrations and conditions affect phosphorylation thresholds and growth states.

Transfer of disulfide bond formation modules via yeast artificial chromosomes promotes the expression of heterologous proteins in Kluyveromyces marxianus

This paper develops a yeast artificial chromosome system in K. marxianus to enhance heterologous protein expression by incorporating disulfide bond formation modules, achieving record-high glucoamylase yields.

Telomere-to-telomere Schizosaccharomyces japonicus genome assembly reveals hitherto unknown genome features

The paper presents a telomere-to-telomere genome assembly of S. japonicus, revealing a previously unknown second centromere-like region and revising the genome size estimate.

Characterization and Organization of Telomeric-Linked Helicase (TLH) Gene Families in Fusarium oxysporum

The paper characterizes TLH gene families in four Fusarium oxysporum strains, identifying conserved motifs, phylogenetic clustering, and subtelomeric regions associated with genome stability.

Exploring adaptation routes to low temperatures in the Saccharomyces genus

This study investigates cold adaptation routes in Saccharomyces species by analyzing gene expression and allelic variation across multiple strains.

The interkingdom horizontal gene transfer in 44 early diverging fungi boosted their metabolic, adaptive and immune capabilities

The paper identifies 829 xenologs in 44 early diverging fungi, revealing patterns of horizontal gene transfer and its impact on fungal metabolism, adaptation, and immunity.

Recurrent loss of crossover interference punctuates the recombination landscape across yeast species

The paper analyzes meiotic recombination landscapes across five yeast species, finding species-specific differences in recombination rates, crossover interference, and hotspot conservation.

Snowball: a novel gene family required for developmental patterning in fruiting bodies of mushroom-forming fungi (Agaricomycetes)

The paper identifies a novel gene family, Snowball (snb), essential for fruiting body development in Agaricomycetes fungi, showing its role in differentiation through mutant analysis and transcriptomics.

The integration of tandem gene repeats via a bacterial type-II toxin-antitoxin-mediated gene amplification (ToxAmp) system and stability visualisation in Saccharomyces cerevisiae

The paper develops a bacterial toxin-antitoxin system to manipulate and visualize tandem gene repeat copy numbers in yeast.

Impact of inter-species hybridisation on antifungal drug response in the Saccharomyces genus.

This study investigates how hybridisation in Saccharomyces species affects antifungal drug resistance by identifying QTLs and potential causal genes involved in resistance to fluconazole, micafungin, and flucytosine.

Profiling The Compendium Of Changes In Saccharomyces cerevisiae Due To Mutations That Alter Availability Of The Main Methyl Donor S-Adenosylmethionine

This study profiles the effects of SAM1 and SAM2 gene deletions on S. cerevisiae by analyzing growth and gene expression changes across multiple conditions.

Improving the Z3EV promoter system to create the strongest yeast promoter

The paper improves the Z3EV promoter system to create the strongest yeast promoter, P36, which is 1.4 times stronger than TDH3 and can express up to 50% of total protein as a heterologous protein.

Modular and integrative activity reporters enhance biochemical studies in the yeast ER.

This paper expands the YESS system by creating integrative plasmids for modular and uniform activity reporting of PTM-enzymes in yeast.

Building synthetic chromosomes from natural DNA

This paper introduces CReATiNG, a method to build synthetic chromosomes from natural DNA in yeast, enabling chromosome recombination, modification, and deletion of non-adjacent regions.

Recombination hotspots in Neurospora crassa controlled by idiomorphic sequences and meiotic silencing.

The paper identifies recombination hotspots in Neurospora crassa controlled by idiomorphic sequences and meiotic silencing, showing dominant suppression is due to silencing of the active allele.

het-B allorecognition in Podospora anserina is determined by pseudo-allelic interaction of genes encoding a HET and lectin fold domain protein and a PII-like protein

This paper identifies the het-B locus in Podospora anserina, showing that incompatibility is determined by non-allelic interaction between Bh1 and Bp2, with the lectin fold domain of BH dictating specificity.

Engineering heterothallic strains in fission yeast

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

Domestication signatures in the non-conventional yeast Lachancea cidri

This study identifies structural variants in a domesticated Lachancea cidri yeast strain associated with improved fermentation traits compared to wild isolates.

Expression Patterns of Mal genes and its Association with Differential Maltose and Maltotriose Transport rate of Two Saccharomyces pastorianus Yeasts

This study examines the expression patterns of Mal genes in two Saccharomyces pastorianus strains and links them to differences in maltose and maltotriose transport rates.

Non-additive genetic components contribute significantly to population-wide gene expression variation

The paper estimates heritability of gene expression traits in yeast hybrids and finds non-additive components account for 36% of phenotypic variance.

Mitochondrial Genome Diversity across the Subphylum Saccharomycotina

The paper expands mitochondrial genome sampling across Saccharomycotina yeasts by extracting sequences from nuclear genome datasets, revealing trends in size, GC content, and gene presence.

Natural variation in yeast reveals multiple paths for acquiring higher stress resistance

This study identifies molecular mechanisms underlying stress resistance in yeast by analyzing natural genetic variation and cross protection responses to different stressors.

FUN-PROSE: A Deep Learning Approach to Predict Condition-Specific Gene Expression in Fungi

FUN-PROSE predicts condition-specific gene expression in fungi using promoter sequences and transcription factor data, achieving high correlation with observed expression.