Shashi Thutupalli
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View article: Physical Confinement Regulates Transitions in Nematode Motility
Physical Confinement Regulates Transitions in Nematode Motility Open
How do worms navigate their complex natural surroundings? Laboratory studies using nematodes such as interrogate motility patterns as an indicator of their behavioral responses using liquid cultures or two-dimensional (2D) agar pads. Howev…
View article: Convergent Cellular Adaptation to Freeze-Thaw Stress via a Quiescence-like State in Yeast
Convergent Cellular Adaptation to Freeze-Thaw Stress via a Quiescence-like State in Yeast Open
Extreme stress, such as freeze-thaw, poses a severe challenge to many organisms, but the mechanisms underlying their adaptation to survive such stress remain elusive. Here, we show that Saccharomyces cerevisiae can rapidly evolve freeze-th…
View article: Convergent Cellular Adaptation to Freeze-Thaw Stress via a Quiescence-like State in Yeast
Convergent Cellular Adaptation to Freeze-Thaw Stress via a Quiescence-like State in Yeast Open
Extreme stress, such as freeze-thaw, poses a severe challenge to many organisms, but the mechanisms underlying their adaptation to survive such stress remain elusive. Here, we show that Saccharomyces cerevisiae can rapidly evolve freeze-th…
View article: Metabolically driven flows enable exponential growth in macroscopic multicellular yeast
Metabolically driven flows enable exponential growth in macroscopic multicellular yeast Open
The ecological and evolutionary success of multicellular lineages stems substantially from their increased size relative to unicellular ancestors. However, large size poses biophysical challenges, especially regarding nutrient transport: T…
View article: Physical confinement regulates transition in nematode motility
Physical confinement regulates transition in nematode motility Open
How do worms navigate their complex natural surroundings? Undulatory microswimmers such as nematodes typically inhabit environments such as soil, vegetable matter, and host tissues. While the natural habitats of nematodes are often three-d…
View article: Temperature switchable self-propulsion activity of liquid crystalline microdroplets
Temperature switchable self-propulsion activity of liquid crystalline microdroplets Open
We report on a switchable emulsion droplet microswimmer by utilizing a temperature-dependent transition of the droplet phase.
View article: Convergent Cellular Adaptation to Freeze-Thaw Stress via a Quiescence-like State in Yeast
Convergent Cellular Adaptation to Freeze-Thaw Stress via a Quiescence-like State in Yeast Open
Extreme stress, such as freeze-thaw, poses a severe challenge to many organisms, but the mechanisms underlying their adaptation to survive such stress remain elusive. Here, we show that Saccharomyces cerevisiae can rapidly evolve freeze-th…
View article: Rigid flocks, undulatory gaits, and chiral foldamers in a chemically active polymer
Rigid flocks, undulatory gaits, and chiral foldamers in a chemically active polymer Open
Active matter systems—such as a collection of active colloidal particles—operate far from equilibrium with complex inter-particle interactions that govern their collective dynamics. Predicting the collective dynamics of such systems may ai…
View article: Metabolically-driven flows enable exponential growth in macroscopic multicellular yeast
Metabolically-driven flows enable exponential growth in macroscopic multicellular yeast Open
The ecological and evolutionary success of multicellular lineages is due in no small part to their increased size relative to unicellular ancestors. However, large size also poses biophysical challenges, especially regarding the transport …
View article: Emergent dynamics due to chemo-hydrodynamic self-interactions in active polymers
Emergent dynamics due to chemo-hydrodynamic self-interactions in active polymers Open
The field of synthetic active matter has, thus far, been led by efforts to create point-like, isolated (yet interacting) self-propelled objects (e.g. colloids, droplets, microrobots) and understanding their collective dynamics. The design …
View article: Rigid flocks, undulatory gaits, and chiral foldamers in a chemically active polymer
Rigid flocks, undulatory gaits, and chiral foldamers in a chemically active polymer Open
Active matter systems - such as a collection of active colloidal particles - operate far from equilibrium with complex inter-particle interactions that govern their collective dynamics. Predicting the collective dynamics of such systems ma…
View article: A molecular rotor FLIM probe reveals dynamic coupling between mitochondrial inner membrane fluidity and cellular respiration
A molecular rotor FLIM probe reveals dynamic coupling between mitochondrial inner membrane fluidity and cellular respiration Open
The inner mitochondrial membrane (IMM), housing components of the electron transport chain (ETC), is the site for respiration. The ETC relies on mobile carriers; therefore, it has long been argued that the fluidity of the densely packed IM…
View article: Multispecies autocatalytic RNA reaction networks in coacervates
Multispecies autocatalytic RNA reaction networks in coacervates Open
Robust localization of self-reproducing autocatalytic chemistries is a key step in the realization of heritable and evolvable chemical systems. While autocatalytic chemical reaction networks already possess attributes such as heritable sel…
View article: Two-component molecular motor driven by a GTPase cycle
Two-component molecular motor driven by a GTPase cycle Open
ATPases are a group of enzymes that can cyclically convert the free energy of ATP hydrolysis into mechanical work. GTPases are another class of enzymes that are predominantly associated with signal transduction processes, but their role in…
View article: Emergent dynamics due to chemo-hydrodynamic self-interactions in active polymers
Emergent dynamics due to chemo-hydrodynamic self-interactions in active polymers Open
The field of synthetic active matter has, thus far, been led by efforts to create point-like, isolated (yet interacting) self-propelled objects (\emph{e.g.} colloids, droplets, microrobots) and understanding their collective dynamics. The …
View article: Dynamical demographic phases explain how population growth and mutation control the evolutionary impact of bottlenecks
Dynamical demographic phases explain how population growth and mutation control the evolutionary impact of bottlenecks Open
Population bottlenecks involve steep declines in population size as well as changes to composition; they are an important aspect of contemporary evolution, and have been implicated across a wide range of taxa. However, the precise mechanis…
View article: Constrained dynamics of oligonucleotides in the phase-separated droplets
Constrained dynamics of oligonucleotides in the phase-separated droplets Open
Phase-separated droplets are excellent means of compartmentalizing functional molecules and have been shown as excellent models for protocells. Although complex functions based on oligonucleotides have been studied, we still lack an unders…
View article: Robustness of compositional heredity to the growth and division dynamics of prebiotic compartments
Robustness of compositional heredity to the growth and division dynamics of prebiotic compartments Open
An important transition after the origin of life was the first emergence of a Darwinian population, self-reproducing entities exhibiting differential reproduction, phenotypic variation, and inheritance of phenotypic traits. The simplest sy…
View article: Multispecies autocatalytic RNA reaction networks in coacervates
Multispecies autocatalytic RNA reaction networks in coacervates Open
Robust and dynamic localization of self-reproducing autocatalytic chemistries is a key step in the realization of heritable and evolvable chemical systems. While autocatalytic chemical reaction networks already possess attributes such as h…
View article: Irregular particle morphology and membrane rupture facilitate ion gradients in the lumen of phagosomes
Irregular particle morphology and membrane rupture facilitate ion gradients in the lumen of phagosomes Open
Localized fluxes, production, and/or degradation coupled to limited diffusion are well known to result in stable spatial concentration gradients of biomolecules in the cell. In this study, we demonstrate that this also holds true for small…
View article: Rethinking Population Bottlenecks: Intrinsic Fluctuations, Mutation and Dynamical Demographic Phases
Rethinking Population Bottlenecks: Intrinsic Fluctuations, Mutation and Dynamical Demographic Phases Open
By abruptly changing the size and composition of a population, bottlenecks can dramatically alter evolutionary trajectories. In the traditional picture, the faster a population recovers from a bottleneck, the more rapidly finite-size intri…
View article: Depletion-Force Measurements Get Active
Depletion-Force Measurements Get Active Open
Measurements of the attractive force experienced by a passive particle in a bath of active ones and of the microstructure of that system, raise the tantalizing possibility of simple and generic quantitative descriptions of the organization…
View article: GTPase-dependent cyclic flexibility transitions drive the two-component EEA1-Rab5 molecular motor
GTPase-dependent cyclic flexibility transitions drive the two-component EEA1-Rab5 molecular motor Open
The recognition of vesicles by their correct target compartment depends on the pairing of small GTPases with effector proteins (1–3). Whereas ATPases can cyclically convert the free energy of ATP hydrolysis into mechanical work, the functi…