C. R. Landry

Patch-walking: Coordinated multi-pipette patch clamp for efficiently finding synaptic connections

The paper introduces a method called patch-walking to improve the efficiency of finding synaptic connections by reusing a single patch clamp electrode, resulting in more connections probed per experiment.

Evolution and inhibition of the FIKK effector kinase family in P. falciparum

This study investigates the evolution and inhibition of FIKK kinases in P. falciparum, showing they can be inhibited by a single compound.

Compensatory mutations potentiate constructive neutral evolution by gene duplication

The paper duplicates and evolves an homodimeric enzyme to show that compensatory mutations can lead to functional heteromers through subfunctionalization.

Most azole antifungal resistance mutations in the drug target provide cross-resistance and carry no intrinsic fitness cost

The paper evaluates 4,000 Erg11 variants to determine azole resistance and fitness costs, finding 33% resistance, 88% cross-resistance, and minimal fitness cost.

Parallel nonfunctionalization of CK1δ/ϵ kinase ohnologs following a whole-genome duplication event

The paper investigates the evolution of HRR25 ohnologs after a whole-genome duplication in yeast, finding that nonfunctionalization, not subfunctionalization, is the main trend.

Deep mutational scanning of Pneumocystis jirovecii dihydrofolate reductase reveals allosteric mechanism of resistance to an antifolate

The paper identifies 355 resistance mutations in P. jirovecii DHFR to methotrexate using deep mutational scanning, revealing an allosteric mechanism at position F199.

Dissection of the role of a SH3 domain in the evolution of binding preference of paralogous proteins

This study investigates how SH3 domains of paralogous yeast myosins evolved their binding preferences, finding that differences in interactions are not due to the SH3 domains themselves but to context-dependent factors.

Lifestyles shape genome size and gene content in fungal pathogens

This study examines how fungal lifestyles, such as pathogenicity and insect association, influence genome size and gene content in Sordariomycetes fungi.

Epistasis between promoter activity and coding mutations shapes gene evolvability

The paper shows that expression level masks the effects of coding mutations, demonstrating that expression level dictates their fitness impact.

Evolutionary trade-off and mutational bias could favor transcriptional over translational divergence within paralog pairs

The paper shows yeast paralogous genes are more divergent in transcription than translation, attributing this to evolutionary trade-offs and mutational bias.

Macroevolutionary diversity of traits and genomes in the model yeast genus Saccharomyces

The paper studies genetic and phenotypic diversity across 1,800 Saccharomyces strains, revealing insights into macroevolutionary processes and gene flow effects on traits.

Asymmetrical dose-responses shape the evolutionary trade-off between antifungal resistance and nutrient use

The paper measures amino acid substitutions in yeast Fcy1 to show a trade-off between 5-FC resistance and enzyme function, with similar patterns in Cryptococcus neoformans.

Heterogeneous mutation rates and spectra in yeast hybrids

The paper examines mutation rates and spectra in yeast hybrids, finding significant variation among crosses that is genotype-specific rather than related to parental divergence.

Closely related budding yeast species respond to different ecological signals for spore activation.

The paper identifies ecological signals that trigger spore activation in closely related budding yeast species, showing divergence in their response to environmental cues.

Expression attenuation as a mechanism of robustness to gene duplication in protein complexes

The paper investigates the fitness effects of gene duplication in budding yeast, finding that most protein complex subunits have minimal fitness impact, while large complexes are protected by reduced protein abundance.

Frequent assembly of chimeric complexes in the protein interaction network of an interspecies yeast hybrid

This study examines protein-protein interactions in a yeast hybrid, finding frequent chimeric complexes with some exceptions due to parental protein incompatibilities.

Mapping Gene-Microbe Interactions: Insights from Functional Genomics Co-culture Experiments between Saccharomyces cerevisiae and Pseudomonas spp.

The paper identifies gene-microbe interactions in co-cultures of Saccharomyces cerevisiae and Pseudomonas spp., showing that 643 genes show fitness differences, with 36% of interactions not replicable in cell-free experiments.

Paralog dependency indirectly affects the robustness of human cells

The paper examines how paralog dependency affects cellular robustness by analyzing gene loss-of-function in human cell lines using CRISPR-Cas9.

The role of structural pleiotropy and regulatory evolution in the retention of heteromers of paralogs

The paper investigates how structural pleiotropy and regulatory evolution influence the retention of heteromers formed by paralogs in budding yeast.

The high turnover of ribosome-associated transcripts from de novo ORFs produces gene-like characteristics available for de novo gene emergence in wild yeast populations

The paper examines de novo ORF emergence in wild yeast, finding some intergenic ORFs show gene-like characteristics despite lower translation efficiency and suggesting functional innovation potential.

Deep transcriptome annotation suggests that small and large proteins encoded in the same genes often cooperate

The paper identifies alternative open reading frames (altORFs) that encode small proteins, showing functional cooperation with larger proteins from the same gene.