Emergent microenvironments of nucleoli

In higher eukaryotes, the nucleolus harbors at least three sub-phases that facilitate multiple functionalities including ribosome biogenesis. The three prominent coexisting sub-phases are the fibrillar center (FC), the dense fibrillar component (DFC), and the granular component (GC). Here, we review recent efforts in profiling sub-phase compositions that shed light on the types of physicochemical properties that emerge from compositional biases and territorial organization of specific types of macromolecules. We highlight roles played by molecular grammars which refers to protein sequence features including the substrate binding domains, the sequence features of intrinsically disordered regions, and the multivalence of these distinct types of domains / regions. We introduce the concept of a barcode of emergent physicochemical properties of nucleoli. Although our knowledge of the full barcode remains incomplete, we hope that the concept prompts investigations into undiscovered emergent properties and engenders an appreciation for how and why unique microenvironments control biochemical reactions.

Photoenergy Harvesting by Photoacid Solution

Solar energy has seen 180 years of development since the discovery of the photovoltaic effect, having achieved the most successful commercialization in the energy-harvesting fields. Despite its long history, even the most state-of-the-art photovoltaics remain confined to solid-state devices, limiting spatial and light utilization efficiencies. Herein, a liquid-state photoenergy harvester based on a photoacid (PA), a chemical that releases protons upon light irradiation and recombines with them in the dark through a fully reversible reaction, is demonstrated. Asymmetric light exposure on a PA solution contained in a transparent tube generates a pH gradient (ΔpH = 2) along the exposed and dark regions, which charges the Nernst potential up to 0.7 V across the two electrodes embedded at each end, as if a capacitor. Owing to the reversibility of PAs, a PA-driven liquid-state photoenergy harvester (PLPH) generates capacitive currents up to 0.72 mA m^-2  on an irradiation. Notably, the transparent nature of the PLPH enables vertical stacking up to 25 units, which multiplies the light-harvesting efficiencies by over 1000%. This unique approach provides a new route to harness solar energy with a form-factor-free design that maximizes spatial and light-use efficiencies.

Separating Extreme pH Gradients Using Amphiphilic Copolymer Membranes

Polymeric vesicles, also called polymersomes, are highly efficient biomimetic systems. They can generate compartmentalized volumes at the nanoscale supported by synthetic amphiphilic membranes that closely mimic their biological counterparts. Membrane permeability and the ability to separate extreme pH gradients is a crucial condition a successful biomimetic system must meet. We show that polymersomes formed by non-ionic polybutadiene-b-polyethylene oxide (PBd-b-PEO) amphiphilic block copolymers engineer robust and stable membranes that are able to sustain pH gradients of 10 for a minimum of eight days. The cells' endo-lysomal compartments separate gradients between three and one, while we generated a pH gradient of threefold as great. This feature clearly is of great importance for applications as nanoreactors and drug-delivery systems where separating different aqueous volumes at the nanoscale level is an essential requirement.

The life story of hydrogen peroxide II: a periodic pH and thermochemical drive for the RNA world

It is now accepted that primordial non-cellular RNA communities must have been subject to a periodic drive in order to replicate and prosper. We have proposed the oxidation of thiosulfate by hydrogen peroxide as this drive. This reaction system behaves as (i) a thermochemical and (ii) a pH oscillator, and in this work, we unify (i) and (ii) for the first time. We report thermally self-consistent, dynamical simulations in which the system transitions smoothly from nearly isothermal pH to fully developed thermo-pH oscillatory regimes. We use this oscillator to drive simulated replication of a 39-bp RNA species. Production of replicated duplex under thermo-pH drive was significantly enhanced compared with that under purely thermochemical drive, effectively allowing longer strands to replicate. Longer strands are fitter, with more potential to evolve enzyme activity and resist degradation. We affirm that concern over the alleged toxicity of hydrogen peroxide to life is largely misplaced in the current context, we survey its occurrence in the solar system to motivate its inclusion as a biosignature in the search for life on other worlds and highlight that pH oscillations in a spatially extended, bounded system manifest as the fundamental driving force of life: a proton gradient.

Use of bipolar membranes for maintaining steady-state pH gradients in membrane-supported, solar-driven water splitting

A bipolar membrane can maintain a steady-state pH difference between the sites of oxidation and reduction in membrane-supported, solar-driven water-splitting systems without changing the overall thermodynamics required to split water. A commercially available bipolar membrane that can serve this purpose has been identified, its performance has been evaluated quantitatively, and is demonstrated to meet the requirements for this application. For effective utilization in integrated solar-driven water-splitting systems, such bipolar membranes must, however, be modified to simultaneously optimize their physical properties such as optical transparency, electronic conductivity and kinetics of water dissociation.

Two-photon ratiometric fluorescent mapping of intracellular transport pathways of pH-responsive block copolymer micellar nanocarriers

Ultrasensitive ratiometric fluorescent pH probes based on dual dye-labeled pH-responsive diblock copolymer micellar scaffold are constructed. The pH-sensitive emitting nature of BTPE dyes and emission turn-on of CMA moieties triggered by pH-actuated micelle-to-unimer of diblock scaffold synergistically contribute to the observed ≈250-fold changes of BTPE/CMA emission intensity ratios in the whole pH range. Two-photon ratiometric fluorescent pH mapping of intracellular gradients subjected by pH-responsive micellar nanoparticles in their endocytic pathway has been thus achieved.