Sunil Laxman
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View article: Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways
Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways Open
Degradation of many yeast mRNAs involves decapping by the Dcp1:Dcp2 complex. Previous studies on decapping activators Edc3 and Scd6 suggested their limited roles in mRNA decay. RNA-seq analysis of mutants lacking one or both proteins revea…
View article: Evolutionary analysis of Trehalose breakdown pathways
Evolutionary analysis of Trehalose breakdown pathways Open
Trehalose is a widely prevalent, abundant disaccharide that acts as a cellular stress protectant, and functions as an energy source that enters central carbon metabolism when broken down. The evolution and distribution of trehalose breakdo…
View article: Bioenergetic reprogramming of macrophages reduces drug tolerance in Mycobacterium tuberculosis
Bioenergetic reprogramming of macrophages reduces drug tolerance in Mycobacterium tuberculosis Open
Effective clearance of Mycobacterium tuberculosis (Mtb) requires targeting drug-tolerant populations within host macrophages. Here, we show that macrophage metabolic states govern redox heterogeneity and drug response in intracellular Mtb.…
View article: Plasma membrane folate transport in fungi and plants is mediated by members of the oligopeptide transporter (OPT) family
Plasma membrane folate transport in fungi and plants is mediated by members of the oligopeptide transporter (OPT) family Open
Folates are essential for all organisms. They are acquired either through de novo biosynthesis or from the diet. Yeast, fungi, and plants make their own folates, and it has not been clear if plasma membrane folate transporters exist in the…
View article: Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways
Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways Open
Degradation of many yeast mRNAs involves decapping by the Dcp1:Dcp2 complex. Previous studies on decapping activators Edc3 and Scd6 suggested their limited roles in mRNA decay. RNA-seq analysis of mutants lacking one or both proteins revea…
View article: Author response: Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways
Author response: Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways Open
View article: Cell clusters are programmed towards a reductive metabolic state by adherence junctions
Cell clusters are programmed towards a reductive metabolic state by adherence junctions Open
Solitary cells form stable clusters via cell-cell adhesion using adherens junctions. The role of these junctions in early cell-state changes as cells form clusters is unclear. Here, we uncover that the formation of cadherin junctions as ce…
View article: 3D confinement physically regulates cell cycle progression in budding yeast
3D confinement physically regulates cell cycle progression in budding yeast Open
Molecular control over cell division is traditionally studied using liquid broths or 2D flat-plate cultures — neither of which recapitulate the complex visco-elasto-plastic properties of 3D natural habitats such as tissues, mucus, and soil…
View article: Quantitative, temporal dynamics of the cellular amino acid economy reveals public vs private goods and enables syntrophic yeast community design
Quantitative, temporal dynamics of the cellular amino acid economy reveals public vs private goods and enables syntrophic yeast community design Open
The biosynthetic capacity of the cell governs the production and exchange of amino acids. Amino acids have diverse metabolic origins and intracellular requirements. Therefore, to understand the cellular amino acid economy we require a quan…
View article: Gcn4 mediates SAM allocations and methylation balance between phospholipids and histones
Gcn4 mediates SAM allocations and methylation balance between phospholipids and histones Open
Balancing SAM allocations for methylation reactions, and maintaining the SAM/SAH ratio is crucial for cellular homeostasis. How cells balance the allocation of methyl pools between different sinks, remains under studied. In this study usin…
View article: Plasma membrane folate transport in fungi and plants is mediated by members of the oligopeptide transporter (OPT) family
Plasma membrane folate transport in fungi and plants is mediated by members of the oligopeptide transporter (OPT) family Open
Folates are essential for all organisms. They are acquired either through de novo biosynthesis or from the diet. Yeast, fungi and plants make their own folates and it has not been clear if plasma membrane folate transporters exist in these…
View article: Seo1p, a high-affinity, plasma membrane transporter of the γ-Glu-met dipeptide in yeasts and fungi
Seo1p, a high-affinity, plasma membrane transporter of the γ-Glu-met dipeptide in yeasts and fungi Open
γ-Glu dipeptides are ubiquitous in nature, and yet their metabolism and transport are poorly understood. Here we investigate this using the dipeptide γ-Glu-met in Saccharomyces cerevisiae. γ-Glu-met was efficiently utilized by S. cerevisia…
View article: Protocol to quantitatively assess glycolysis and related carbon metabolic fluxes using stable isotope tracing in Crabtree-positive yeasts
Protocol to quantitatively assess glycolysis and related carbon metabolic fluxes using stable isotope tracing in Crabtree-positive yeasts Open
View article: Active control of mitochondrial network morphology by metabolism-driven redox state
Active control of mitochondrial network morphology by metabolism-driven redox state Open
Mitochondria are dynamic organelles that constantly change morphology. What controls mitochondrial morphology however remains unresolved. Using actively respiring yeast cells growing in distinct carbon sources, we find that mitochondrial m…
View article: Diurnal variation in skeletal muscle mitochondrial function dictates time‐of‐day‐dependent exercise capacity
Diurnal variation in skeletal muscle mitochondrial function dictates time‐of‐day‐dependent exercise capacity Open
Exercise impinges on almost all physiological processes at an organismal level and is a potent intervention to treat various diseases. Exercise performance is well established to display diurnal rhythm, peaking during the late active phase…
View article: Seo1p, a high affinity, plasma membrane transporter of the γ-Glu-met dipeptide in yeasts and fungi
Seo1p, a high affinity, plasma membrane transporter of the γ-Glu-met dipeptide in yeasts and fungi Open
γ-Glu dipeptides are ubiquitous in nature, and yet their metabolism and transport are poorly understood. Here we investigate this using the dipeptide γ-Glu-met in Saccharomyces cerevisiae . γ-Glu-met was efficiently utilized by S. cerevisi…
View article: Isolation of Mitochondria From Yeast to Estimate Mitochondrial Pools of Inorganic Phosphate
Isolation of Mitochondria From Yeast to Estimate Mitochondrial Pools of Inorganic Phosphate Open
Mitochondria are dynamic organelles with essential roles in energetics and metabolism. Several metabolites are common to both the cytosolic and mitochondrial fractions of the cell. The compartmentalization of metabolites within the mitocho…
View article: Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways
Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways Open
Degradation of many yeast mRNAs involves decapping by the Dcp1:Dcp2 complex. Previous studies on decapping activators Edc3 and Scd6 suggested their limited roles in mRNA decay. RNA-seq analysis of mutants lacking one or both proteins revea…
View article: Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways
Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways Open
Degradation of many yeast mRNAs involves decapping by the Dcp1:Dcp2 complex. Previous studies on decapping activators Edc3 and Scd6 suggested their limited roles in mRNA decay. RNA-seq analysis of mutants lacking one or both proteins revea…
View article: The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting
The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting Open
Many cells in high glucose repress mitochondrial respiration, as observed in the Crabtree and Warburg effects. Our understanding of biochemical constraints for mitochondrial activation is limited. Using a Saccharomyces cerevisiae screen, w…
View article: Author response: The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting
Author response: The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting Open
View article: Biochemical curiosities
Biochemical curiosities Open
View article: Diurnal variation in skeletal muscle mitochondrial function dictates time of day-dependent differences in exercise capacity
Diurnal variation in skeletal muscle mitochondrial function dictates time of day-dependent differences in exercise capacity Open
Exercise impinges on almost all physiological processes at an organismal level and is a potent intervention to treat various diseases. Exercise performance is well established to display diurnal rhythm, peaking during the late active phase…
View article: Author response: The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting
Author response: The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting Open
View article: The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting
The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting Open
Many cells in high glucose repress mitochondrial respiration, as observed in the Crabtree and Warburg effects. Our understanding of biochemical constraints for mitochondrial activation is limited. Using a Saccharomyces cerevisiae screen, w…
View article: Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways
Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in post-transcriptional repression of starvation-induced pathways Open
Degradation of many yeast mRNAs involves decapping by the Dcp1:Dcp2 complex. Previous studies on decapping activators Edc3 and Scd6 suggested their limited roles in mRNA decay. RNA-seq analysis of mutants lacking one or both proteins revea…
View article: An economic demand-based framework for prioritization strategies in response to transient amino acid limitations
An economic demand-based framework for prioritization strategies in response to transient amino acid limitations Open
Cells contain disparate amounts of distinct amino acids, each of which has different metabolic and chemical origins, but the supply cost vs demand requirements of each is unclear. Here, using yeast we quantify the restoration-responses aft…
View article: Active control of mitochondrial network morphology by metabolism driven redox state
Active control of mitochondrial network morphology by metabolism driven redox state Open
Mitochondria are dynamic organelles that constantly change morphology. What controls mitochondrial morphology however remains unresolved. Using actively respiring yeast cells growing in distinct carbon sources, we find that mitochondrial m…
View article: Metabolic adaptation pilots the differentiation of human hematopoietic cells
Metabolic adaptation pilots the differentiation of human hematopoietic cells Open
A continuous supply of energy is an essential prerequisite for survival and represents the highest priority for the cell. We hypothesize that cell differentiation is a process of optimization of energy flow in a changing environment throug…
View article: The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting
The deubiquitinase Ubp3/Usp10 constrains glucose-mediated mitochondrial repression via phosphate budgeting Open
Many cells in high glucose repress mitochondrial respiration, as observed in the Crabtree and Warburg effects. Our understanding of biochemical constraints for mitochondrial activation is limited. Using a Saccharomyces cerevisiae screen, w…