Explanipedia

Designer peptide–DNA cytoskeletons regulate the function of synthetic cells Open

Margaret L. Daly, Kengo Nishi, Stephen J. Klawa, Kameryn Y. Hinton, Yuan Gao , et al. · 2024

The bottom-up engineering of artificial cells requires a reconfigurable cytoskeleton that can organize at distinct locations and dynamically modulate its structural and mechanical properties. Here, inspired by the vast array of actin-bindi…

Designer peptide–DNA cytoskeletons regulate the function of synthetic cells Open

Margaret L. Daly, Kengo Nishi, Stephen J. Klawa, Kameryn Y. Hinton, Yuan Gao , et al. · 2024

The bottom-up engineering of artificial cells requires a reconfigurable cytoskeleton that can organize at distinct locations and dynamically modulate its structural and mechanical properties. Here, inspired by the vast array of actin-bindi…

Uncovering supramolecular chirality codes for the design of tunable biomaterials Open

Stephen J. Klawa, Michelle Lee, Kyle D. Riker, Tengyue Jian, Qunzhao Wang , et al. · 2024

Statistical Methods for Microrheology of Airway Mucus with Extreme Heterogeneity Open

Neall Caughman, Micah Papanikolas, Matthew R. Markovetz, Ronit Freeman, David B. Hill , et al. · 2023

The mucus lining of the human airway epithelium contains two gel-forming mucins, MUC5B and MUC5AC. During progression of cystic fibrosis (CF), mucus hyper-concentrates as its mucin ratio changes, coinciding with formation of insoluble, den…

Nonequilibrium bending fluctuations reveal microtubule mechanicsin-vivoand their regulation by glutamylation Open

Kengo Nishi, Sufi O. Raja, An Pham, Ronit Freeman, Antonina Roll‐Mecak , et al. · 2023

Cells can be described as active composite materials. The mechanical properties of cells are controlled by complex polymer networks and are dynamically tuned for diverse cellular processes driven by force-generating motor proteins. Microtu…

The power of weak, transient interactions across biology: A paradigm of emergent behavior Open

Paula A. Vásquez, Ben Walker, Kerry Bloom, Daniel Kolbin, Neall Caughman , et al. · 2023

SARS-CoV-2 evolved variants optimize binding to cellular glycocalyx Open

Sang Hoon Kim, Fiona L. Kearns, Mia A. Rosenfeld, Lane Votapka, Lorenzo Casalino , et al. · 2023

Modeling identifies variability in SARS-CoV-2 uptake and eclipse phase by infected cells as principal drivers of extreme variability in nasal viral load in the 48 h post infection Open

Jason Pearson, Timothy Wessler, Alex Chen, Richard C. Boucher, Ronit Freeman , et al. · 2023

From the lab to the field: handheld surface enhanced Raman spectroscopy (SERS) detection of viral proteins Open

Taylor D. Payne, Stephen J. Klawa, Tengyue Jian, Qunzhao Wang, Sang Hoon Kim , et al. · 2023

This work employs peptide-modified gold nanoparticles to develop a fieldable SERS sensor for direct detection of viral antigens using a handheld platform.

Positively bound: Remapping of Increased Positive Charge Drives SARS-CoV-2 Spike Evolution to Optimize its Binding to Cell Surface Receptors Open

Sang Hoon Kim, Fiona L. Kearns, Mia A. Rosenfeld, Lane Votapka, Lorenzo Casalino , et al. · 2022

The SARS-CoV-2 Omicron sub-lineage contains a significant number of mutations in the spike protein relative to earlier SARS-CoV-2 variants. Most notably, these mutations significantly increased the positive charge of the spike protein that…

Bioactive Fibronectin-III 10 –DNA Origami Nanofibers Promote Cell Adhesion and Spreading Open

Alex Buchberger, Kyle D. Riker, Julio Bernal‐Chanchavac, Raghu Pradeep Narayanan, C.R. Simmons , et al. · 2022

The integration of proteins with DNA nanotechnology would enable materials with diverse applications in biology, medicine, and engineering. Here, we describe a method for the incorporation of bioactive fibronectin domain proteins with DNA …

Bioinspired Spindles using Peptide-DNA Nanotechnology Open

Margaret L. Daly, Kengo Nishi, Stephen J. Klawa, Kameryn Y. Hinton, Yuan Gao , et al. · 2022

Cytoskeletal assemblies produce functionality through multiscale structural reconfiguration by exploiting a family of protein crosslinkers. Inspired by these principles, we designed an array of complementary peptide-DNA monomers able to fo…

Bioinspired Spindles using Peptide-DNA Nanotechnology Open

Margaret L. Daly, Kengo Nishi, Stephen J. Klawa, Kameryn Y. Hinton, Yuan Gao , et al. · 2022

Cytoskeletal assemblies produce functionality through multiscale structural reconfiguration by exploiting a family of protein crosslinkers. Inspired by these principles, we designed an array of complementary peptide-DNA monomers able to fo…

Bioactive Fibronectin-III10-DNA Origami Nanofibers Promote Cell Adhesion and Spreading Open

Alex Buchberger, Kyle D. Riker, Julio Bernal‐Chanchavac, Raghu Pradeep Narayanan, C.R. Simmons , et al. · 2022

Integrating proteins with DNA nanotechnology would enable materials with diverse applications in biology, medicine, and engineering. Here, we describe a method for incorporating bioactive fibronectin domain proteins with DNA nanostructures…

Mucus concentration–dependent biophysical abnormalities unify submucosal gland and superficial airway dysfunction in cystic fibrosis Open

Takafumi Kato, Giorgia Radicioni, Micah Papanikolas, Georgi Stoychev, Matthew R. Markovetz , et al. · 2022

Cystic fibrosis (CF) is characterized by abnormal transepithelial ion transport. However, a description of CF lung disease pathophysiology unifying superficial epithelial and submucosal gland (SMG) dysfunctions has remained elusive. We hyp…

Modeling insights into SARS-CoV-2 respiratory tract infections prior to immune protection Open

Alexander Chen, Timothy Wessler, Katherine Daftari, Kameryn Y. Hinton, Richard C. Boucher , et al. · 2022

Modeling predicts mechanisms altered by mutations of the SARS-CoV-2 delta and omicron variants Open

Jason Pearson, Timothy Wessler, Alex Chen, Richard C. Boucher, Ronit Freeman , et al. · 2022

We apply our mechanistic, within-host, pre-immunity , respiratory tract infection model for unvaccinated, previously uninfected, and immune-compromised individuals. Starting from published cell infection and viral replication data for the …

Probing key interactions between SARS-CoV-2 spike and heparan sulfate Open

Fiona L. Kearns, Mia A. Rosenfeld, Sang Hoon Kim, Lorenzo Casalino, Micah J. Papanikolas , et al. · 2022

Computational investigation of glycosaminoglycan cofactors in SARS-CoV-2 infection dynamics Open

Mia A. Rosenfeld, Fiona L. Kearns, Sang Hoon Kim, Lorenzo Casalino, Micah J. Papanikolas , et al. · 2022

Mucus concentration–dependent biophysical abnormalities unify submucosal gland and superficial airway dysfunction in cystic fibrosis Open

Takafumi Kato, Giorgia Radicioni, Micah Papanikolas, Georgi Stoychev, M.R. Markovetz , et al. · 2022

Cystic fibrosis (CF) is characterized by abnormal transepithelial ion transport. However, a description of CF lung disease pathophysiology unifying superficial epithelial and submucosal gland (SMG) dysfunctions has remained elusive. We hyp…

Mucus and mucus flake composition and abundance reflect inflammatory and infection status in cystic fibrosis Open

Matthew R. Markovetz, I.C. Garbarine, C.B. Morrison, William J. Kissner, Ian Seim , et al. · 2022

BACKGROUND: Mucus hyperconcentration in cystic fibrosis (CF) lung disease is marked by increases in both mucin and DNA concentration. Additionally, it has been shown that half of the mucins present in bronchial alveolar lavage fluid (BALF)…

GlycoGrip: Cell Surface-Inspired Universal Sensor for Betacoronaviruses Open

Sang Hoon Kim, Fiona L. Kearns, Mia A. Rosenfeld, Lorenzo Casalino, Micah J. Papanikolas , et al. · 2021

Inspired by the role of cell-surface glycoproteins as coreceptors for pathogens, we report the development of GlycoGrip: a glycopolymer-based lateral flow assay for detecting SARS-CoV-2 and its variants. GlycoGrip utilizes gl…

Hyperconcentrated Mucus Unifies Submucosal Gland and Superficial Airway Dysfunction in Cystic Fibrosis Open

Takafumi Kato, Giorgia Radicioni, Micah Papanikolas, Georgi Stoychev, Matthew R. Markovetz , et al. · 2021

Cystic fibrosis (CF) is characterized by abnormal transepithelial ion transport. However, a description of CF lung disease pathophysiology unifying superficial epithelial and submucosal gland (SMG) dysfunctions has remained elusive. We hyp…

Catching COVID: Engineering Peptide-Modified Surface-Enhanced Raman Spectroscopy Sensors for SARS-CoV-2 Open

Taylor D. Payne, Stephen J. Klawa, Tengyue Jian, Sang Hoon Kim, Micah J. Papanikolas , et al. · 2021

COVID-19 remains an ongoing issue across the globe, highlighting the need for a rapid, selective, and accurate sensor for SARS-CoV-2 and its emerging variants. The chemical specificity and signal amplification of surface-enhanced Raman spe…

Hydrogen Bonding Stiffens Peptide Amphiphile Supramolecular Filaments by Aza-Glycine Residues Open

Jacqueline M. Godbe, Ronit Freeman, Jacob A. Lewis, Ivan R. Sasselli, M. Hussain Sangji , et al. · 2021

Molecular dynamics simulations to explore the structure and rheological properties of normal and hyperconcentrated airway mucus Open

Andrew G. Ford, Xue‐Zheng Cao, Micah Papanikolas, Takafumi Kato, Richard C. Boucher , et al. · 2021

We develop the first molecular dynamics model of airway mucus based on the detailed physical properties and chemical structure of the predominant gel‐forming mucin MUC5B. Our airway mucus model leverages the LAMMPS open‐source code [ https…

A Programmable Toolkit to Dynamically Signal Cells using Peptide Strand Displacement Open

Kyle D. Riker, Margaret L. Daly, Micah J. Papanikolas, Tengyue Jian, Stephen J. Klawa , et al. · 2021

The native extracellular matrix communicates and interacts with cells by dynamically displaying signals to control their behavior. Mimicking this dynamic environment in vitro is essential in order to unravel how cell-matrix interactions gu…

Molecular dynamics simulations to explore the structure and rheological properties of normal and hyperconcentrated airway mucus Open

Andrew G. Ford, Xue‐Zheng Cao, Micah Papanikolas, Takafumi Kato, Richard C. Boucher , et al. · 2021

We develop the first molecular dynamics model of airway mucus based on the detailed physical properties and chemical structure of the predominant gel-forming mucin MUC5B. Our airway mucus model leverages the LAMMPS open-source code [https:…

GlycoGrip: Cell Surface-Inspired Universal Sensor for Betacoronaviruses Open

S.H. Kim, F.L. Kearns, M.A. Rosenfeld, L. Casalino, Micah Papanikolas , et al. · 2021

Inspired by the role of cell-surface glycoproteins as coreceptors for pathogens, we report the development of GlycoGrip: a glycopolymer-based lateral flow assay for detecting SARS-CoV-2 and its variants. GlycoGrip utilizes glycopolymers fo…

Multivalent Clustering of Adhesion Ligands in Nanofiber-Nanoparticle Composites Open

Dounia Dems, Ronit Freeman, Kyle D. Riker, Thibaud Coradin, Samuel I. Stupp , et al. · 2020

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