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Quantitative transcription regulation studies in vivo and in vitro often make use of reporter proteins. Here we show that using Broccoli aptamers, quantitative study of transcription in various regulatory scenarios is possible without a translational step. To explore the method we studied several regulatory scenarios that we analyzed using thermodynamic occupancy-based models, and found excellent agreement with previous studies. In the next step we show that non-coding DNA can have a dramatic effect on the level of transcription, similar to the influence of the lac repressor with a strong affinity to operator sites. Finally, we point out the limitations of the method in terms of delay times coupled to the folding of the aptamer. We conclude that the Broccoli aptamer is suitable for quantitative transcription measurements.

Quantitative transcription regulation studies in vivo and in vitro often make use of reporter proteins. Here we show that using Broccoli aptamers, quantitative study of transcription in various regulatory scenarios is possible without a translational step. To explore the method we studied several regulatory scenarios that we analyzed using thermodynamic occupancy-based models, and found excellent agreement with previous studies. In the next step we show that non-coding DNA can have a dramatic effect on the level of transcription, similar to the influence of the lac repressor with a strong affinity to operator sites. Finally, we point out the limitations of the method in terms of delay times coupled to the folding of the aptamer. We conclude that the Broccoli aptamer is suitable for quantitative transcription measurements.

Poorly water-soluble iron-containing compounds are promising iron fortificants. However, ensuring high bioaccessibility and low reactivity of iron is challenging. We present the potential application of ferrous pyrophosphate (Fe(II)PP) and Fe(II)-containing M2(1-x)Fe2xP2O7 salts (0 < x < 1, M = Ca, Zn, or Mn) for delivery of iron and a second essential mineral (M). After preparation by a facile and environment-friendly coprecipitation method, the salts were investigated for their composition, pH-dependent dissolution, iron-mediated discoloration of a black tea solution, and oxidation of vitamin C. Our results suggest that these salts are possible dual-fortificants with tunable composition that compared to Fe(II)PP (i) show lower (<0.5 mM) and enhanced (to 5 mM) iron dissolution in moderate and gastric pH, respectively, (ii) exhibit less discoloration and dissolved iron in tea when x = 0.470 for M = Ca or Zn and x = 0.086 for M = Mn, and (iii) do not increase the oxidation extent of vitamin C over 48 h when x = 0.06, 0.086, or 0.053 for M = Ca, Zn, or Mn, respectively.

Hydrophobic polyelectrolytes (HPEs) can solubilize bilayer membranes, form micelles, or can reversibly aggregate as a function of pH. The transitions are often remarkably sharp. We show that these cooperative transitions occur by a competition between two or more conformational states and can be explained within the framework of Monod–Wymann–Changeux (MWC) theory that was originally formulated for allosteric interactions. Here, we focus on the pH-dependent destabilization and permeation of bilayer membranes by HPEs. We formulate the general conditions that lead to sharp conformational transitions involving simple macromolecules mediated by concentration variations of molecular ligands. That opens up potential applications ranging from medicine to the development of switchable materials.

Genetic feedback loops can be used by cells to regulate internal processes or to keep track of time. It is often thought that, for a genetic circuit to display self-sustained oscillations, a degree of cooperativity is needed in the binding and unbinding of actor species. This cooperativity is usually modeled using a Hill function, regardless of the actual promoter architecture. Furthermore, genetic circuits do not operate in isolation and often transcription factors are shared between different promoters. In this work we show how mathematical modelling of genetic feedback loops can be facilitated with a mechanistic fold-change function that takes into account the titration effect caused by competing binding sites for transcription factors. The model shows how the titration effect facilitates self-sustained oscillations in a minimal genetic feedback loop: a gene that produces its own repressor directly without cooperative transcription factor binding. The use of delay-differential equations leads to a stability contour that predicts whether a genetic feedback loop will show self-sustained oscillations, even when taking the bursty nature of transcription into account.

What measurable physical properties allow one to distinguish surfactant-stabilised from Pickering emulsions? Whereas surfactants influence oil/water interfaces by lowering the oil/water interfacial tension, particles are assumed to have little effect on the interfacial tension. Here we perform interfacial tension (IFT) measurements on three different systems: (1) soybean oil and water with ethyl cellulose nanoparticles (ECNPs), (2) silicone oil and water with the globular protein bovine serum albumin (BSA), and (3) sodium dodecyl sulfate (SDS) solutions and air. The first two systems contain particles, while the third system contains surfactant molecules. We observe a significant decrease in interfacial tension with increasing particle/molecule concentration in all three systems. We analyse the surface tension data using the Gibbs adsorption isotherm and the Langmuir equation of state for the surface, resulting in surprisingly high adsorption densities for the particle-based systems. These seem to behave very much like the surfactant system: the decrease in tension is due to the presence of many particles at the interface, each with an adsorption energy of a few kBT. Dynamic interfacial tension measurements show that the systems are in equilibrium, and that the characteristic time scale for adsorption is much longer for particle-based systems than for surfactants, in line with their size difference. In addition, the particle-based emulsion is shown to be less stable against coalescence than the surfactant-stabilised emulsion. This leaves us with the conclusion that we are not able to make a clear distinction between the surfactant-stabilised and Pickering emulsions.

Mixed pyrophosphate salts with the general formula Ca2(1-x)Fe4x(P2O7)(1+2x) potentially possess less iron-phenolic reactivity compared to ferric pyrophosphate (FePP), due to decreased soluble Fe in the food-relevant pH range 3–7. We investigated reactivity (i.e., complexation, oxidation, and surface interaction) of FePP and mixed salts (with x = 0.14, 0.15, 0.18, and 0.35) in presence of structurally diverse phenolics. At pH 5–7, increased soluble iron from all salts was observed in presence of water-soluble phenolics. XPS confirmed that water-soluble phenolics solubilize iron after coordination at the salt surface, resulting in increased discoloration. However, color changes for mixed salts with x ≤ 0.18 remained acceptable for slightly water-soluble and insoluble phenolics. Furthermore, phenolic oxidation in presence of mixed salts was significantly reduced compared to FePP at pH 6. In conclusion, these mixed Ca-Fe(III) pyrophosphate salts with x ≤ 0.18 can potentially be used in designing iron-fortified foods containing slightly water-soluble and/or insoluble phenolics.

Genetic feedback loops can be used by cells to regulate internal processes or to keep track of time. It is often thought that, for a genetic circuit to display self-sustained oscillations, a degree of cooperativity is needed in the binding and unbinding of actor species. This cooperativity is usually modeled using a Hill function, regardless of the actual promoter architecture. Furthermore, genetic circuits do not operate in isolation and often transcription factors are shared between different promoters. In this work we show how mathematical modelling of genetic feedback loops can be facilitated with a mechanistic fold-change function that takes into account the titration effect caused by competing binding sites for transcription factors. The model shows how the titration effect facilitates self-sustained oscillations in a minimal genetic feedback loop: a gene that produces its own repressor directly without cooperative transcription factor binding. The use of delay-differential equations leads to a stability contour that predicts whether a genetic feedback loop will show self-sustained oscillations, even when taking the bursty nature of transcription into account.

Pickering emulsions stabilized by ethyl cellulose nanoparticles have recently received –great attention for their remarkable stability and numerous industrial applications. De- spite this, the exact stabilization mechanism of such Pickering emulsions is still not fully understood. Both the stabilization of the emulsion by particle adsorption at the inter- face and through network formation in the continuous phase (leading to a yield stress) have been suggested. In this work we study soybean oil-in-water emulsions stabilized by ethyl cellulose nanoparticles and find, by the use of confocal microscopy and interfa- cial tension measurements, that the main stabilization mechanism of this nanoparticle- stabilized emulsions is the adsorption of the particles at the interface, instead of forming a network in the continuous phase. At the same time, oscillatory rheology measurements reveal that the emulsions exhibit a yield stress well below the random close-packing limit for hard spheres, suggesting short-range interactions between the droplets caused by the presence of the particles at the interface. The presence of the particles at the interface in combination with the observed rheological behavior of an attractive emulsion gives a strong indication for a particle-bridged stabilized emulsions.

Food-fortification using poorly water-soluble mineral-containing compounds is a common approach to deliver iron. However, it comes with the challenge of ensuring iron bio-accessibility and limiting iron-phenolic interactions that can change organoleptic properties. Mixed Ca-Fe(III) pyrophosphate salts with the general formula Ca2(1-x)Fe4x(P2O7)(1+2x) were designed as a system for simultaneous delivery of iron and calcium. The salts were synthesized via a co-precipitation method and characterized by TEM-EDX, XRD, and FT-IR. All mixed salts with 0.14 ≤ x ≤ 0.35 yielded homogenous amorphous particles. The iron dissolution from these mixed salts showed a fourfold increase at gastric pH compared to Fe(III) pyrophosphate. In the food-relevant pH range, the salts with x ≤ 0.15 showed up to an eight-fold decrease in iron solubility. Despite this, reactivity of the mixed salts in tea was similar to that of FePP. Our results indicate that these mixed salts are potential dual-fortificants with tunable iron content and solubility.

Disclosed is a food product comprising multimineral iron-containing particles of general formula i MlwM2xM3yM4zLlaL2bL3cL4ct, wherein• Ml is Fe2+, • M2 is Fe3+, • M3 is selected from Na+, K+, NH4+ and combinations thereof, M4 is selected from Ca2+, Mg2+, Mn2+, Zn2+ and combinations thereof, • LI is selected from Off, HCO3-, H2PO4-, H3P2O7- and combinations thereof, L2 is selected from CO32, HPO42, H2PsO72 and combinations thereof, L3 is selected form PO43, HP2O73 and combinations thereof, • L4 is P O7 4-, • 2w + 3x + y + 2z = a+ 2b + 3c + 4d, • each of w, x, y, a, b, c and dare 2: 0, • z > 0, • wx > 0, and• [(w + x) I (w + x + y 2+ z)] < 0.50

Food-fortification using poorly water-soluble mineral-containing compounds is a common approach to deliver iron. However, it comes with the challenge of ensuring iron bio-accessibility and limiting iron-phenolic interactions that can change organoleptic properties. Mixed Ca-Fe(III) pyrophosphate salts with the general formula Ca2(1-x)Fe4x(P2O7)(1+2x) were designed as a system for simultaneous delivery of iron and calcium. The salts were synthesized via a co-precipitation method and characterized by TEM-EDX, XRD, and FT-IR. All mixed salts with 0.14 ≤ x ≤ 0.35 yielded homogenous amorphous particles. The iron dissolution from these mixed salts showed a fourfold increase at gastric pH compared to Fe(III) pyrophosphate. In the food-relevant pH range, the salts with x ≤ 0.15 showed up to an eight-fold decrease in iron solubility. Despite this, reactivity of the mixed salts in tea was similar to that of FePP. Our results indicate that these mixed salts are potential dual-fortificants with tunable iron content and solubility.

The destabilization of emulsions is important for many applications but remains incompletely understood. We perform squeeze flow measurements on oil-in-water emulsions, finding that the spontaneous destabilization of emulsions is generally very slow under normal conditions, with a characteristic time scale given by the drainage of the continuous phase and the coalescence of the dispersed phase. We show that if the emulsion is compressed between two plates, the destabilization can be sped up significantly; on the one hand, the drainage is faster due to the application of the squeezing force. On the other hand, creep processes lead to rearrangements that also contribute to the destabilization.

Hypothesis: Well-defined two-dimensional colloidal crystal monolayers (CCM) have numerous applications, such as photonic crystal, sensors, and masks for colloidal lithography. Therefore, significant effort was devoted to the preparation of preparing CCM. However, the fabrication of CCM that can float in the continuous phase and readily transfer to other substrate remains an elusive challenge. Experiments: In this article a facile approach to prepare floating CCM from polymeric colloids as building blocks is reported. The key to obtain floating CCM is the selection of an appropriate solvent to release the formed CCM from the substrate. There are two steps involved in the preparation of floating CCM: formation and peeling off. Findings: First, colloids are dispersed in a solvent. Evaporation of this solvent results in the formation of a meniscus structure of the air–liquid interface between the colloids that are on the substrate. The deformation of the meniscus gives rise to capillary attraction, driving the colloids together in a dense monolayer. Once a crystallization nucleus is formed, a convective flow containing additional colloids sets in, resulting in the formation of CCM on the substrate. Second, the remaining bulk dispersion is replaced by an extracting solvent that wets the substrate and peels the formed CCM off. The influence of the several solvents, the substrate materials, and the types of colloids on the CCM formation are investigated systematically. The robustness of the approach facilitates the preparation of CCM. Furthermore, the floating feature of the CCM in principle makes transfer of the CCM to other substrates possible, which broadens its applications.

For biologically relevant macromolecules such as intrinsically disordered proteins, internal degrees of freedom that allow for shape changes have a large influence on both the motion and function of the compound. A detailed understanding of the effect of flexibility is needed in order to explain their behavior. Here, we study a model system of freely-jointed chains of three to six colloidal spheres, using both simulations and experiments. We find that in spite of their short lengths, their conformational statistics are well described by two-dimensional Flory theory, while their average translational and rotational diffusivity follow the Kirkwood–Riseman scaling. Their maximum flexibility does not depend on the length of the chain, but is determined by the near-wall in-plane translational diffusion coefficient of an individual sphere. Furthermore, we uncover shape-dependent effects in the short-time diffusivity of colloidal tetramer chains, as well as non-zero couplings between the different diffusive modes. Our findings may have implications for understanding both the diffusive behavior and the most likely conformations of macromolecular systems in biology and industry, such as proteins, polymers, single-stranded DNA and other chain-like molecules.

Hypothesis: Self-assembly using anisotropic colloidal building blocks may lead to superstructures similar to those found in molecular systems yet can have unique optical, electronic, and structural properties. To widen the spectrum of achievable superstructures and related properties, significant effort was devoted to the synthesis of new types of colloidal particles. Despite these efforts, the preparation of anisotropic colloids carrying chemically orthogonal anchor groups on distinct surface patches remains an elusive challenge. Experiments: We report a simple yet effective method for synthesizing patchy particles via seed-mediated heterogeneous nucleation. Key to this procedure is the use of 3-(trimethoxysilyl)propyl methacrylate (TPM) or 3-(trimethoxysilyl)propyl acrylate (TMSPA), which can form patches on a variety of functional polymer seeds via a nucleation and growth mechanism. Findings: A family of anisotropic colloids with tunable numbers of patches and patch arrangements were prepared. By continuously feeding TPM or TMSPA the geometry of the colloids could be adjusted accurately. Furthermore, the patches could be reshaped by selectively polymerizing and/or solvating the individual colloidal compartments. Relying on the chemically distinct properties of the TPM/TMSPA and seed-derived domains, both types of patches could be functionalized independently. Combining detailed control over the patch chemistry and geometry opens new avenues for colloidal self-assembly.

Chemotactic interactions are ubiquitous in nature and can lead to non-reciprocal and complex emergent behaviour in multibody systems. However, developing synthetic, inanimate embodiments of a chemomechanical framework to generate non-reciprocal interactions of tunable strength and directionality has been challenging. Here we show how chemotactic signalling between microscale oil droplets of different chemistries in micellar surfactant solutions can result in predator–prey-like non-reciprocal chasing interactions. The interactions and dynamic self-organization result from the net directional, micelle-mediated transport of oil between emulsion droplets of differing composition and are powered by the free energy of mixing. We systematically elucidated chemical design rules to tune the interactions between droplets by varying the oil and surfactant chemical structure and concentration. Through the integration of experiment and simulation, we also investigated the active behaviour and dynamic reorganization of multidroplet clusters. Our findings demonstrate how chemically minimal systems can be designed with controllable, non-reciprocal chemotactic interactions to generate emergent self-organization and collective behaviours reminiscent of biological systems. [Figure not available: see fulltext.]

There is a large debate on the destabilization mechanism of emulsions. We present a simple technique using mechanical compression to destabilize oil-in-water emulsions. Upon compression of the emulsion, the continuous aqueous phase is squeezed out, while the dispersed oil phase progressively deforms from circular to honeycomb-like shapes. The films that separate the oil droplets are observed to thin and break at a critical oil/water ratio, leading to coalescence events. Electrostatic interactions and local droplet rearrangements do not determine film rupture. Instead, the destabilization occurs like an avalanche propagating through the system, starting at areas where the film thickness is smallest.

Shape changes resulting from segmental flexibility are ubiquitous in molecular and biological systems, and are expected to affect both the diffusive motion and (biological) function of dispersed objects. The recent development of colloidal structures with freely-jointed bonds have now made a direct experimental investigation of diffusive shape-changing objects possible. Here, we show the effect of segmental flexibility on the simplest possible model system, a freely-jointed cluster of three spherical particles, and validate long-standing theoretical predictions. We find that in addition to the rotational diffusion time, an analogous conformational diffusion time governs the relaxation of the diffusive motion, unique to flexible assemblies, and that their translational diffusivity differs by a small but measurable amount. We also uncovered a Brownian quasiscallop mode, where diffusive motion is coupled to Brownian shape changes. Our findings could have implications for molecular and biological systems where diffusion plays an important role, such as functional site availability in lock-and-key protein interactions.

Transient assembled structures play an indispensable role in a wide variety of processes fundamental to living organisms including cellular transport, cell motility, and proliferation. Typically, the formation of these transient structures is driven by the consumption of molecular fuels via dissipative reaction networks. In these networks, building blocks are converted from inactive precursor states to active (assembling) states by (a set of) irreversible chemical reactions. Since the activated state is intrinsically unstable and can be maintained only in the presence of sufficient fuel, fuel depletion results in the spontaneous disintegration of the formed superstructures. Consequently, the properties and behavior of these assembled structures are governed by the kinetics of fuel consumption rather than by their thermodynamic stability. This fuel dependency endows biological systems with unprecedented spatiotemporal adaptability and inherent self-healing capabilities. Fascinated by these unique material characteristics, coupling the assembly behavior to molecular fuel or light-driven reaction networks was recently implemented in synthetic (supra)molecular systems. In this invited feature article, we discuss recent studies demonstrating that dissipative assembly is not limited to the molecular world but can also be translated to building blocks of colloidal dimensions. We highlight crucial guiding principles for the successful design of dissipative colloidal systems and illustrate these with the current state of the art. Finally, we present our vision on the future of the field and how marrying nonequilibrium self-assembly with the functional properties associated with colloidal building blocks presents a promising route for the development of next-generation materials.

We report the (spontaneous) formation of colloidal strings, Bernal spiral-like, and tubular clusters comprising spherical, isotropically functionalized colloidal particles in an aqueous environment. The formation of colloidal strings and Bernal spiral-like clusters is guided by an interplay between short-ranged hydrophobic attraction and relatively longer-ranged electrostatic repulsion acting between the colloids. When a dispersion of these colloids is densifiedviacentrifugation, well-defined tubular aggregates were observed.

Transient assembled structures play an indispensable role in a wide variety of processes fundamental to living organisms including cellular transport, cell motility, and proliferation. Typically, the formation of these transient structures is driven by the consumption of molecular fuels via dissipative reaction networks. In these networks, building blocks are converted from inactive precursor states to active (assembling) states by (a set of) irreversible chemical reactions. Since the activated state is intrinsically unstable and can be maintained only in the presence of sufficient fuel, fuel depletion results in the spontaneous disintegration of the formed superstructures. Consequently, the properties and behavior of these assembled structures are governed by the kinetics of fuel consumption rather than by their thermodynamic stability. This fuel dependency endows biological systems with unprecedented spatiotemporal adaptability and inherent self-healing capabilities. Fascinated by these unique material characteristics, coupling the assembly behavior to molecular fuel or light-driven reaction networks was recently implemented in synthetic (supra)molecular systems. In this invited feature article, we discuss recent studies demonstrating that dissipative assembly is not limited to the molecular world but can also be translated to building blocks of colloidal dimensions. We highlight crucial guiding principles for the successful design of dissipative colloidal systems and illustrate these with the current state of the art. Finally, we present our vision on the future of the field and how marrying nonequilibrium self-assembly with the functional properties associated with colloidal building blocks presents a promising route for the development of next-generation materials., ChemE/Advanced Soft Matter