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Rodrigues NT, Alves Aarão Reis FD. Adsorption of Diffusing Tracers, Apparent Tortuosity, and Application to Mesoporous Silica. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:11371-11380. [PMID: 38758366 PMCID: PMC11155253 DOI: 10.1021/acs.langmuir.3c03855] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2023] [Revised: 05/08/2024] [Accepted: 05/09/2024] [Indexed: 05/18/2024]
Abstract
The apparent tortuosity due to adsorption of diffusing tracers in a porous material is determined by a scaling approach and is used to analyze recent data on LiCl and alkane diffusion in mesoporous silica. The slope of the adsorption isotherm at small loadings is written as β = qA/qG, where qA is the adsorption-desorption ratio and qG = ϵ/(as) - 1 is a geometrical factor depending on the range a of the tracer-wall interaction, the porosity ϵ, and the specific surface area s. The adsorption leads to a decrease of effective diffusion coefficient, which is quantified by multiplying the geometrical tortuosity factor τgeom by an apparent tortuosity factor τapp. In wide pores or when the adsorption barrier is high, τapp = β + 1, as obtained in previous works, but in narrow pores there is an additional contribution from frequent adsorption-desorption transitions. These results are obtained in media with parallel pores of constant cross sections, where the ratio between the effective pore width ϵ/s and the actual width is ≈0.25. Applications to mesoporous silica samples are justified by the small deviations from this ideal ratio. In the analysis of alkane self-diffusion data, the fractions of adsorbed molecules predicted in a recent theoretical work are used to estimate τgeom of the silica samples, which is ≫1 only in the sample with the narrowest pores (nominal 3 nm). The application of the model to Li+ ion diffusion leads to similar values of τgeom and to a difference of energy barriers of desorption and adsorption for those ions of ∼0.06 eV. Comparatively, alkane self-diffusion provides the correct order of magnitude of τgeom, with adsorption playing a less important role, whereas adsorption effects on Li+ diffusion are much more important.
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Affiliation(s)
- Nathann Teixeira Rodrigues
- Instituto de Física, Universidade Federal Fluminense, Avenida Litorânea s/n, 24210-340 Niterói, RJ, Brazil
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2
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Rajyaguru A, Metzler R, Dror I, Grolimund D, Berkowitz B. Diffusion in Porous Rock Is Anomalous. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:8946-8954. [PMID: 38736287 PMCID: PMC11112742 DOI: 10.1021/acs.est.4c01386] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2024] [Revised: 04/30/2024] [Accepted: 05/01/2024] [Indexed: 05/14/2024]
Abstract
Molecular diffusion of chemical species in subsurface environments─rock formations, soil sediments, marine, river, and lake sediments─plays a critical role in a variety of dynamic processes, many of which affect water chemistry. We investigate and demonstrate the occurrence of anomalous (non-Fickian) diffusion behavior, distinct from classically assumed Fickian diffusion. We measured molecular diffusion through a series of five chalk and dolomite rock samples over a period of about two months. We demonstrate that in all cases, diffusion behavior is significantly different than Fickian. We then analyze the results using a continuous time random walk framework that can describe anomalous diffusion in heterogeneous porous materials such as rock. This methodology shows extreme long-time tailing of tracer advance as compared to conventional Fickian diffusion processes. The finding that distinct anomalous diffusion occurs ubiquitously implies that diffusion-driven processes in subsurface zones should be analyzed using tools that account for non-Fickian diffusion.
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Affiliation(s)
- Ashish Rajyaguru
- Department
of Earth and Planetary Sciences, Weizmann
Institute of Science, Rehovot 7610001, Israel
| | - Ralf Metzler
- Institute
for Physics and Astronomy, University of
Potsdam, 14476 Potsdam, Germany
- Asia
Pacific Centre for Theoretical Physics, Pohang 37673, Republic of Korea
| | - Ishai Dror
- Department
of Earth and Planetary Sciences, Weizmann
Institute of Science, Rehovot 7610001, Israel
| | | | - Brian Berkowitz
- Department
of Earth and Planetary Sciences, Weizmann
Institute of Science, Rehovot 7610001, Israel
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3
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Keogh RR, Kozhukhov T, Thijssen K, Shendruk TN. Active Darcy's Law. PHYSICAL REVIEW LETTERS 2024; 132:188301. [PMID: 38759204 DOI: 10.1103/physrevlett.132.188301] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2023] [Accepted: 03/11/2024] [Indexed: 05/19/2024]
Abstract
While bacterial swarms can exhibit active turbulence in vacant spaces, they naturally inhabit crowded environments. We numerically show that driving disorderly active fluids through porous media enhances Darcy's law. While purely active flows average to zero flux, hybrid active/driven flows display greater drift than purely pressure-driven flows. This enhancement is nonmonotonic with activity, leading to an optimal activity to maximize flow rate. We incorporate the active contribution into an active Darcy's law, which may serve to help understand anomalous transport of swarming in porous media.
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Affiliation(s)
- Ryan R Keogh
- School of Physics and Astronomy, The University of Edinburgh, Peter Guthrie Tait Road, Edinburgh, EH9 3FD, United Kingdom
| | - Timofey Kozhukhov
- School of Physics and Astronomy, The University of Edinburgh, Peter Guthrie Tait Road, Edinburgh, EH9 3FD, United Kingdom
| | - Kristian Thijssen
- Niels Bohr Institute, University of Copenhagen, Blegdamsvej 17, Copenhagen, Denmark
| | - Tyler N Shendruk
- School of Physics and Astronomy, The University of Edinburgh, Peter Guthrie Tait Road, Edinburgh, EH9 3FD, United Kingdom
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4
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González RM, Maris JJE, Wagner M, Ganjkhanlou Y, Bomer JG, Werny MJ, Rabouw FT, Weckhuysen BM, Odijk M, Meirer F. Fluorescent-Probe Characterization for Pore-Space Mapping with Single-Particle Tracking. Angew Chem Int Ed Engl 2024; 63:e202314528. [PMID: 38037863 DOI: 10.1002/anie.202314528] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Revised: 11/28/2023] [Accepted: 11/29/2023] [Indexed: 12/02/2023]
Abstract
Porous solids often contain complex pore networks with pores of various sizes. Tracking individual fluorescent probes as they diffuse through porous materials can be used to characterize pore networks at tens of nanometers resolution. However, understanding the motion behavior of fluorescent probes in confinement is crucial to reliably derive pore network properties. Here, we introduce well-defined lithography-made model pores developed to study probe behavior in confinement. We investigated the influence of probe-host interactions on diffusion and trapping of confined single-emitter quantum-dot probes. Using the pH-responsiveness of the probes, we were able to largely suppress trapping at the pore walls. This enabled us to define experimental conditions for mapping of the accessible pore space of a one-dimensional pore array as well as a real-life polymerization-catalyst-support particle.
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Affiliation(s)
- Rafael Mayorga González
- Inorganic Chemistry and Catalysis, Debye Institute for Nanomaterials Science and Institute for Sustainable and Circular Chemistry, Utrecht University, Universiteitsweg 99, 3584, CG Utrecht, The Netherlands
| | - J J Erik Maris
- Inorganic Chemistry and Catalysis, Debye Institute for Nanomaterials Science and Institute for Sustainable and Circular Chemistry, Utrecht University, Universiteitsweg 99, 3584, CG Utrecht, The Netherlands
| | - Marita Wagner
- Inorganic Chemistry and Catalysis, Debye Institute for Nanomaterials Science and Institute for Sustainable and Circular Chemistry, Utrecht University, Universiteitsweg 99, 3584, CG Utrecht, The Netherlands
| | - Yadolah Ganjkhanlou
- Inorganic Chemistry and Catalysis, Debye Institute for Nanomaterials Science and Institute for Sustainable and Circular Chemistry, Utrecht University, Universiteitsweg 99, 3584, CG Utrecht, The Netherlands
| | - Johan G Bomer
- BIOS Lab on a Chip Group, MESA+ Institute for Nanotechnology, University of Twente, 7522, ME Enschede, The Netherlands
| | - Maximilian J Werny
- Inorganic Chemistry and Catalysis, Debye Institute for Nanomaterials Science and Institute for Sustainable and Circular Chemistry, Utrecht University, Universiteitsweg 99, 3584, CG Utrecht, The Netherlands
| | - Freddy T Rabouw
- Inorganic Chemistry and Catalysis, Debye Institute for Nanomaterials Science and Institute for Sustainable and Circular Chemistry, Utrecht University, Universiteitsweg 99, 3584, CG Utrecht, The Netherlands
| | - Bert M Weckhuysen
- Inorganic Chemistry and Catalysis, Debye Institute for Nanomaterials Science and Institute for Sustainable and Circular Chemistry, Utrecht University, Universiteitsweg 99, 3584, CG Utrecht, The Netherlands
| | - Mathieu Odijk
- BIOS Lab on a Chip Group, MESA+ Institute for Nanotechnology, University of Twente, 7522, ME Enschede, The Netherlands
| | - Florian Meirer
- Inorganic Chemistry and Catalysis, Debye Institute for Nanomaterials Science and Institute for Sustainable and Circular Chemistry, Utrecht University, Universiteitsweg 99, 3584, CG Utrecht, The Netherlands
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Shi A, Wu H, Schwartz DK. Nanomotor-enhanced transport of passive Brownian particles in porous media. SCIENCE ADVANCES 2023; 9:eadj2208. [PMID: 38039361 PMCID: PMC10691774 DOI: 10.1126/sciadv.adj2208] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2023] [Accepted: 11/02/2023] [Indexed: 12/03/2023]
Abstract
Artificial micro/nanomotors are expected to perform tasks in interface-rich and species-rich environments for biomedical and environmental applications. In these highly confined and interconnected pore spaces, active species may influence the motion of coexisting passive participants in unexpected ways. Using three-dimensional super-resolution single-nanoparticle tracking, we observed enhanced motion of passive nanoparticles due to the presence of dilute well-separated nanomotors in an interconnected pore space. This enhancement acted at distances that are large compared to the sizes of the particles and cavities, in contrast with the insignificant effect on the passive particles with the same dilute concentration of nanomotors in an unconfined liquid. Experiments and simulations suggested an amplification of hydrodynamic coupling between self-propelled and passive nanoparticles in the interconnected confined environment, which enhanced the effective energy for passive particles to escape cavities through small holes. This finding represents an emergent behavior of confined nanomotors and suggests new strategies for the development of antifouling membranes and drug delivery systems.
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Affiliation(s)
- Anni Shi
- Department of Chemical and Biological Engineering, University of Colorado Boulder, Boulder, CO 80309, USA
| | - Haichao Wu
- School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, 02138, USA
| | - Daniel K. Schwartz
- Department of Chemical and Biological Engineering, University of Colorado Boulder, Boulder, CO 80309, USA
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6
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Ito T. Single-Molecule Fluorescence Investigations of Solute Transport Dynamics in Nanostructured Membrane Separation Materials. J Phys Chem B 2023. [PMID: 37364247 DOI: 10.1021/acs.jpcb.3c02807] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/28/2023]
Abstract
Many materials used for membrane separations are composed of nanoscale structures such as pores and domains. Such nanostructures often control the solute permeability and selectivity of the separation membranes. Thus, for future development of highly efficient separation membranes, it is important to understand the structural and chemical properties of these nanostructures and also their influences on solute transport dynamics. For the last two decades, single-molecule fluorescence techniques have been used to measure the detailed dynamics of solute molecules diffusing in various nanostructured materials, giving valuable insights into molecular transport mechanisms influenced by nanoscale material heterogeneity. This Perspective discusses recent single-molecule fluorescence studies on solute diffusion in materials relevant to membrane separations, including dense polymer films and nanoporous materials. These studies have revealed the formation and properties of nanostructures and unique transport dynamics of solute molecules manipulated by their confinement and partitioning to the nanostructures, which play key roles in membrane separations. This Perspective will also point out scientific challenges toward a thorough understanding of molecular-level mechanisms in membrane separations.
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Affiliation(s)
- Takashi Ito
- Department of Chemistry, Kansas State University, Manhattan, Kansas 66506-0401, United States
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7
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Leverant CJ, Greathouse JA, Harvey JA, Alam TM. Machine Learning Predictions of Simulated Self-Diffusion Coefficients for Bulk and Confined Pure Liquids. J Chem Theory Comput 2023. [PMID: 37192538 DOI: 10.1021/acs.jctc.2c01040] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Diffusion properties of bulk fluids have been predicted using empirical expressions and machine learning (ML) models, suggesting that predictions of diffusion also should be possible for fluids in confined environments. The ability to quickly and accurately predict diffusion in porous materials would enable new discoveries and spur development in relevant technologies such as separations, catalysis, batteries, and subsurface applications. In this work, we apply artificial neural network (ANN) models to predict the simulated self-diffusion coefficients of real liquids in both bulk and pore environments. The training data sets were generated from molecular dynamics (MD) simulations of Lennard-Jones particles representing a diverse set of 14 molecules ranging from ammonia to dodecane over a range of liquid pressures and temperatures. Planar, cylindrical, and hexagonal pore models consisted of walls composed of carbon atoms. Our simple model for these liquids was primarily used to generate ANN training data, but the simulated self-diffusion coefficients of bulk liquids show excellent agreement with experimental diffusion coefficients. ANN models based on simple descriptors accurately reproduced the MD diffusion data for both bulk and confined liquids, including the trend of increased mobility in large pores relative to the corresponding bulk liquid.
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Affiliation(s)
- Calen J Leverant
- Nanoscale Sciences Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
| | - Jeffery A Greathouse
- Nuclear Waste Disposal Research & Analysis Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
| | - Jacob A Harvey
- Geochemistry Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
| | - Todd M Alam
- Department of Organic Materials Science, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
- ACC Consulting New Mexico, Cedar Crest, New Mexico 87008, United States
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8
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Hong D, Huang Q, Xu X, Chen B, Niu B, Zhang Y, Long D. Ascertaining Uncertain Nanopore Boundaries in 2D Images of Porous Materials for Accurate 3D Microstructural Reconstruction and Heat Transfer Performance Prediction. Ind Eng Chem Res 2023. [DOI: 10.1021/acs.iecr.2c04602] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/12/2023]
Affiliation(s)
- Donghui Hong
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Qingfu Huang
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Xiaxi Xu
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Bingbin Chen
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Bo Niu
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Yayun Zhang
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Donghui Long
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
- Key Laboratory of Specially Functional Polymeric Materials and Related Technology (Ministry of Education), School of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
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9
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Monge Neria R, Kisley L. Single-Molecule Imaging in Commercial Stationary Phase Particles Using Highly Inclined and Laminated Optical Sheet Microscopy. Anal Chem 2023; 95:2245-2252. [PMID: 36652205 DOI: 10.1021/acs.analchem.2c03753] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
We resolve the three-dimensional, nanoscale locations of single-molecule analytes within commercial stationary phase materials using highly inclined and laminated optical sheet (HILO) microscopy. Single-molecule fluorescence microscopy of chromatography can reveal the molecular heterogeneities that lead to peak broadening, but past work has focused on surfaces designed to mimic stationary phases, which have different physical and chemical properties than the three-dimensional materials used in real columns and membranes. To extend single-molecule measurements to commercial stationary phases, we immobilize individual stationary phase particles and modify our microscope for imaging at further depths with HILO, a method which was originally developed to resolve single molecules in cells of comparable size to column packing materials (∼5-10 μm). We describe and characterize how to change the angle of incidence to achieve HILO so that other researchers can easily incorporate this method onto their existing epi- or total internal reflection fluorescence microscopes. We show improvements up to a 32% in signal-to-background ratio and 118% in the number of single molecules detected within stationary phase particles when using HILO compared to epifluorescence. By controlling the objective position relative to the sample, we produce three-dimensional maps of molecule locations throughout entire stationary phase particles at nanoscale lateral and axial resolutions. The number of localized molecules remains constant axially throughout isolated stationary phase particles and between different particles, indicating that heterogeneity in a separation would not be caused by such affinity differences at microscales but instead kinetic differences at nanoscales on identifiable and distinct adsorption sites.
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Affiliation(s)
- Ricardo Monge Neria
- Department of Physics, Case Western Reserve University, Cleveland, Ohio44106-7079, United States
| | - Lydia Kisley
- Department of Physics, Case Western Reserve University, Cleveland, Ohio44106-7079, United States.,Department of Chemistry, Case Western Reserve University, Cleveland, Ohio44106-7079, United States
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10
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Transport in the Brain Extracellular Space: Diffusion, but Which Kind? Int J Mol Sci 2022; 23:ijms232012401. [PMID: 36293258 PMCID: PMC9604357 DOI: 10.3390/ijms232012401] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Revised: 10/10/2022] [Accepted: 10/12/2022] [Indexed: 11/17/2022] Open
Abstract
The mechanisms of transport of substances in the brain parenchyma have been a hot topic in scientific discussion in the past decade. This discussion was triggered by the proposed glymphatic hypothesis, which assumes a directed flow of cerebral fluid within the parenchyma, in contrast to the previous notion that diffusion is the main mechanism. However, when discussing the issue of “diffusion or non-diffusion”, much less attention was given to the question that diffusion itself can have a different character. In our opinion, some of the recently published results do not fit into the traditional understanding of diffusion. In this regard, we outline the relevant new theoretical approaches on transport processes in complex random media such as concepts of diffusive diffusivity and time-dependent homogenization, which expands the understanding of the forms of transport of substances based on diffusion.
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11
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Zhu Q, Zhou Y, Marchesoni F, Zhang HP. Colloidal Stochastic Resonance in Confined Geometries. PHYSICAL REVIEW LETTERS 2022; 129:098001. [PMID: 36083679 DOI: 10.1103/physrevlett.129.098001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Revised: 04/01/2022] [Accepted: 08/04/2022] [Indexed: 06/15/2023]
Abstract
We investigate the dynamical properties of a colloidal particle in a double cavity. Without external driving, the particle hops between two free-energy minima with transition mean time depending on the system's entropic and energetic barriers. We then drive the particle with a periodic force. When the forcing period is set at twice the transition mean time, a statistical synchronization between particle motion and forcing phase marks the onset of a stochastic resonance mechanism. Comparisons between experimental results and predictions from the Fick-Jacobs theory and Brownian dynamics simulation reveal significant hydrodynamic effects, which change both resonant amplification and noise level. We further show that hydrodynamic effects can be incorporated into existing theory and simulation by using an experimentally measured particle diffusivity.
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Affiliation(s)
- Qian Zhu
- School of Physics and Astronomy and Institute of Natural Sciences, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Yang Zhou
- School of Physics and Astronomy and Institute of Natural Sciences, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Fabio Marchesoni
- Center for Phononics and Thermal Energy Science, School of Physics Science and Engineering, Tongji University, Shanghai 200092, China
- Dipartimento di Fisica, Universitá di Camerino, I-62032 Camerino, Italy
| | - H P Zhang
- School of Physics and Astronomy and Institute of Natural Sciences, Shanghai Jiao Tong University, Shanghai 200240, China
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12
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Shende T, Mangal D, Conrad JC, Niasar V, Babaei M. Nanoparticle transport within non-Newtonian fluid flow in porous media. Phys Rev E 2022; 106:015103. [PMID: 35974600 DOI: 10.1103/physreve.106.015103] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2021] [Accepted: 06/15/2022] [Indexed: 06/15/2023]
Abstract
Control over dispersion of nanoparticles in polymer solutions through porous media is important for subsurface applications such as soil remediation and enhanced oil recovery. Dispersion is affected by the spatial heterogeneity of porous media, the non-Newtonian behavior of polymer solutions, and the Brownian motion of nanoparticles. Here, we use the Euler-Lagrangian method to simulate the flow of nanoparticles and inelastic non-Newtonian fluids (described by Meter model) in a range of porous media samples and injection rates. In one case, we use a fine mesh of more than 3 million mesh points to model nanoparticles transport in a sandstone sample. The results show that the velocity distribution of nanoparticles in the porous medium is non-Gaussian, which leads to the non-Fickian behavior of nanoparticles dispersion. Due to pore-space confinement, the long-time mean-square displacement of nanoparticles depends nonlinearly on time. Additionally, the gradient of shear stress in the pore space of the porous medium dictates the transport behavior of nanoparticles in the porous medium. Furthermore, the Brownian motion of nanoparticles increases the dispersion of nanoparticles along the longitudinal and transverse direction.
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Affiliation(s)
- Takshak Shende
- Department of Chemical Engineering, The University of Manchester, Manchester, United Kingdom
| | - Deepak Mangal
- Department of Chemical and Biomolecular Engineering, University of Houston, Houston, Texas 77004, USA
| | - Jacinta C Conrad
- Department of Chemical and Biomolecular Engineering, University of Houston, Houston, Texas 77004, USA
| | - Vahid Niasar
- Department of Chemical Engineering, The University of Manchester, Manchester, United Kingdom
| | - Masoud Babaei
- Department of Chemical Engineering, The University of Manchester, Manchester, United Kingdom
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Zhang H, Zhao M, Li Y, Li C, Ge W. Concentration fluctuation caused by reaction-diffusion coupling near catalytic active sites. Chin J Chem Eng 2022. [DOI: 10.1016/j.cjche.2022.06.023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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15
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Chen J. Simulating stochastic adsorption of diluted solute molecules at interfaces. AIP ADVANCES 2022; 12:015318. [PMID: 35070490 PMCID: PMC8758205 DOI: 10.1063/5.0064140] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Accepted: 12/27/2021] [Indexed: 06/14/2023]
Abstract
This report uses Monte Carlo simulations to connect stochastic single-molecule and ensemble surface adsorption of molecules from dilute solutions. Monte Carlo simulations often use a fundamental time resolution to simulate each discrete step for each molecule. The adsorption rate obtained from such a simulation surprisingly contains an error compared to the results obtained from the traditional method. Simulating adsorption kinetics is interesting in many processes, such as mass transportation within cells, the kinetics of drug-receptor interactions, membrane filtration, and other general reaction kinetics in diluted solutions. Thus, it is important to understand the origin of the disagreement and find a way to correct the results. This report reviews the traditional model, explains the single-molecule simulations, and introduces a method to correct the results of adsorption rate. For example, one can bin finer time steps into time steps of interest to simulate the fractal diffusion or simply introduce a correction factor for the simulations. Then two model systems, self-assembled monolayer (SAM) and biosensing on the patterned surface, are simulated to check the accuracy of the equations. It is found that the adsorption rate of SAM is highly dependent on the conditions and the uncertainty is large. However, the biosensing system is relatively accurate. This is because the concentration gradient near the interface varies significantly with reaction conditions for SAMs while relatively stable for the biosensing system.
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Affiliation(s)
- Jixin Chen
- Author to whom correspondence should be addressed:
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16
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Johnson SA, Chen S, Bolton G, Chen Q, Lute S, Fisher J, Brorson K. Virus filtration: A Review of Current and Future Practices in Bioprocessing. Biotechnol Bioeng 2021; 119:743-761. [PMID: 34936091 DOI: 10.1002/bit.28017] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2021] [Revised: 12/01/2021] [Accepted: 12/02/2021] [Indexed: 11/06/2022]
Abstract
For drug products manufactured in mammalian cells, safety assurance practices are needed during production to assure that the final medicinal product is safe from the potential risk of viral contamination. Virus filters provide viral retention for a range of viruses through robust, largely size-based retention mechanism. Therefore, a virus filtration step is commonly utilized in a well-designed recombinant therapeutic protein purification process and is a key component in an overall strategy to minimize the risks of adventitious and endogenous viral particles during the manufacturing of biotechnology products. This review summarizes the history of virus filtration, currently available virus filters and prefilters, and virus filtration integrity test methods and study models. There is also discussion of current understanding and gaps with an eye toward future trends and emerging filtration technologies. This article is protected by copyright. All rights reserved.
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Affiliation(s)
- Sarah A Johnson
- Office of Biotechnology Products, CDER, FDA 10903 New Hampshire Ave., Silver Spring, Maryland, 20903
| | - Shuang Chen
- NGM Biopharmaceuticals Inc., 333 Oyster Point Blvd., South San Francisco, CA, 94080
| | - Glen Bolton
- Amgen Inc., 360 Binney Street, Cambridge, MA, 02142
| | - Qi Chen
- Genentech Inc. One DNA Way,, South San Francisco, CA, 94080
| | - Scott Lute
- Office of Biotechnology Products, CDER, FDA 10903 New Hampshire Ave., Silver Spring, Maryland, 20903
| | - John Fisher
- Genentech Inc. One DNA Way,, South San Francisco, CA, 94080
| | - Kurt Brorson
- Parexel International., 275 Grove Street Suite 101C, Newton, MA, 02466
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17
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Misiura A, Shen H, Tauzin L, Dutta C, Bishop LDC, Carrejo NC, Zepeda O J, Ramezani S, Moringo NA, Marciel AB, Rossky PJ, Landes CF. Single-Molecule Dynamics Reflect IgG Conformational Changes Associated with Ion-Exchange Chromatography. Anal Chem 2021; 93:11200-11207. [PMID: 34346671 DOI: 10.1021/acs.analchem.1c01799] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Conformational changes of antibodies and other biologics can decrease the effectiveness of pharmaceutical separations. Hence, a detailed mechanistic picture of antibody-stationary phase interactions that occur during ion-exchange chromatography (IEX) can provide critical insights. This work examines antibody conformational changes and how they perturb antibody motion and affect ensemble elution profiles. We combine IEX, three-dimensional single-protein tracking, and circular dichroism spectroscopy to investigate conformational changes of a model antibody, immunoglobulin G (IgG), as it interacts with the stationary phase as a function of salt conditions. The results indicate that the absence of salt enhances electrostatic attraction between IgG and the stationary phase, promotes surface-induced unfolding, slows IgG motion, and decreases elution from the column. Our results reveal previously unreported details of antibody structural changes and their influence on macroscale elution profiles.
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Affiliation(s)
- Anastasiia Misiura
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Hao Shen
- Department of Chemistry and Biochemistry, Kent State University, 800 E Summit Street, Kent, Ohio 44240, United States
| | - Lawrence Tauzin
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Chayan Dutta
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Logan D C Bishop
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Nicole C Carrejo
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Jorge Zepeda O
- Department of Electrical and Computer Engineering, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Shahryar Ramezani
- Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Nicholas A Moringo
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Amanda B Marciel
- Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Peter J Rossky
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States.,Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, Houston, Texas 77005, United States.,Smalley-Curl Institute, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Christy F Landes
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States.,Department of Electrical and Computer Engineering, Rice University, 6100 Main Street, Houston, Texas 77005, United States.,Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, Houston, Texas 77005, United States.,Smalley-Curl Institute, Rice University, 6100 Main Street, Houston, Texas 77005, United States
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18
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Mechanisms of transport enhancement for self-propelled nanoswimmers in a porous matrix. Proc Natl Acad Sci U S A 2021; 118:2101807118. [PMID: 34183394 DOI: 10.1073/pnas.2101807118] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Micro/nanoswimmers convert diverse energy sources into directional movement, demonstrating significant promise for biomedical and environmental applications, many of which involve complex, tortuous, or crowded environments. Here, we investigated the transport behavior of self-propelled catalytic Janus particles in a complex interconnected porous void space, where the rate-determining step involves the escape from a cavity and translocation through holes to adjacent cavities. Surprisingly, self-propelled nanoswimmers escaped from cavities more than 20× faster than passive (Brownian) particles, despite the fact that the mobility of nanoswimmers was less than 2× greater than that of passive particles in unconfined bulk liquid. Combining experimental measurements, Monte Carlo simulations, and theoretical calculations, we found that the escape of nanoswimmers was enhanced by nuanced secondary effects of self-propulsion which were amplified in confined environments. In particular, active escape was facilitated by anomalously rapid confined short-time mobility, highly efficient surface-mediated searching for holes, and the effective abolition of entropic and/or electrostatic barriers at the exit hole regions by propulsion forces. The latter mechanism converted the escape process from barrier-limited to search-limited. These findings provide general and important insights into micro/nanoswimmer mobility in complex environments.
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19
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Ito T, Higgins DA. Fluorescence Microscopic Investigations of Molecular Dynamics in Self-Assembled Nanostructures. CHEM REC 2021; 21:1417-1429. [PMID: 33533548 DOI: 10.1002/tcr.202000173] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2020] [Revised: 01/17/2021] [Accepted: 01/18/2020] [Indexed: 11/05/2022]
Abstract
Many analytical methods employ self-assembled nanostructured materials as chemical recognition media. Molecular permeation through these materials exhibits unique selectivity owing to nanoconfinement-induced enhancement of permeant-nanostructure interactions. This Personal Account introduces our efforts to investigate the detailed dynamics of single or a small number of molecules in nanostructured materials. We developed new experimental and analysis approaches built upon laser-based fluorescence microscopy to measure the detailed translational and orientational dynamics of molecules diffusing in horizontally-oriented, cylindrical nanostructures, including surfactant micelles, silica mesopores, block copolymer microdomains, and bolaamphiphile-based organic nanotubes. Our studies clarified nanoscale details on the structural/chemical heterogeneity of the nanostructures, and their impacts on molecular mass transport dynamics.
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Affiliation(s)
- Takashi Ito
- Department of Chemistry, Kansas State University, 213 CBC Building, Manhattan, KS 66506-0401, USA
| | - Daniel A Higgins
- Department of Chemistry, Kansas State University, 213 CBC Building, Manhattan, KS 66506-0401, USA
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