Harry L. Goldsmith, Ph.D.

In honor of Dr. Harry L. Goldsmith\u27s 75th birthday, we present a collection of articles from his collaborators and colleagues to commemorate Harry\u27s outstanding contributions to the field of Biorheology. On any particular day, bioengineers around the world may find themselves fortunate enough to peer through a microscope to observe molecular or cellular level phenomena manifested before their eyes. Such observations of single molecule mechanics or blood flows or cellular deformation remind us of the power of clever experimental design and rigorous theoretical constructs as well as the complex beauty of dynamical systems in nature. In this spirit, the investigations reported in this issue of the Annals entitled Cellular Biorheology and Biomechanics have followed down many of the research paths pioneered by Dr. Harry Goldsmith

Recombinant Sialyltransferase Infusion Mitigates Infection-Driven Acute Lung Inflammation

Inappropriate inflammation exacerbates a vast array of chronic and acute conditions with severe health risks. In certain situations, such as acute sepsis, traditional therapies may be inadequate in preventing severe organ damage or death. We have previously shown cell surface glycan modification by the circulating sialyltransferase ST6Gal-1 regulates de novo inflammatory cell production via a novel extrinsic glycosylation pathway. Here, we show that therapeutic administration of recombinant, bioactive ST6Gal-1 (rST6G) mitigates acute inflammation in a murine model mimicking acute exacerbations experienced by patients with chronic obstructive pulmonary disease (COPD). In addition to suppressing proximal neutrophil recruitment at onset of infection-mediated inflammation, rST6G also muted local cytokine production. Histologically, exposure with NTHI, a bacterium associated with COPD exacerbations, in rST6G-treated animals revealed consistent and pronounced reduction of pulmonary inflammation, characterized by smaller inflammatory cuffs around bronchovascular bundles, and fewer inflammatory cells within alveolar walls, alveolar spaces, and on pleural surfaces. Taken together, the data advance the idea that manipulating circulatory ST6Gal-1 levels has potential in managing inflammatory conditions by leveraging the combined approaches of controlling new inflammatory cell production and dampening the inflammation mediator cascade

Thioglycosides Are Efficient Metabolic Decoys of Glycosylation that Reduce Selectin Dependent Leukocyte Adhesion

© 2018 Elsevier Ltd Small-molecule inhibitors of glycosylation can be applied in basic science studies, and clinical investigations as anti-inflammatory, anti-metastatic, and anti-viral therapies. This article demonstrates that thioglycosides represent a class of potent metabolic decoys that resist hydrolysis, and block E-selectin-dependent leukocyte adhesion in models of inflammation

Functional implications of glycans and their curation:insights from the workshop held at the 16th Annual International Biocuration Conference in Padua, Italy

Dynamic changes in protein glycosylation impact human health and disease progression. However, current resources that capture disease and phenotype information focus primarily on the macromolecules within the central dogma of molecular biology (DNA, RNA, proteins). To gain a better understanding of organisms, there is a need to capture the functional impact of glycans and glycosylation on biological processes. A workshop titled "Functional impact of glycans and their curation" was held in conjunction with the 16th Annual International Biocuration Conference to discuss ongoing worldwide activities related to glycan function curation. This workshop brought together subject matter experts, tool developers, and biocurators from over 20 projects and bioinformatics resources. Participants discussed four key topics for each of their resources: (i) how they curate glycan function-related data from publications and other sources, (ii) what type of data they would like to acquire, (iii) what data they currently have, and (iv) what standards they use. Their answers contributed input that provided a comprehensive overview of state-of-the-art glycan function curation and annotations. This report summarizes the outcome of discussions, including potential solutions and areas where curators, data wranglers, and text mining experts can collaborate to address current gaps in glycan and glycosylation annotations, leveraging each other's work to improve their respective resources and encourage impactful data sharing among resources. Database URL: https://wiki.glygen.org/Glycan_Function_Workshop_2023

Mechanisms of homotypic lymphocyte aggregation and cell motility characteristics induced by activation of VLA integrins

Cell Adhesion may be modulated at the plasma membrane by intracellular signals or antibodies which confer an active ligand-binding conformation. Lymphocyte homotypic aggregation measured in tissue culture constitutes a model system in which to study the mechanism of \beta\sb1 integrin dependent function. First, a quantitative assay for homotypic cellular aggregation has been described. This procedure applies a digital image analysis technique to measure aggregation kinetics both in terms of evolution of aggregate size and changes in cell stacking. The method allows us to automate the image processing and data analysis steps in order to minimize user intervention and to improve the reproducibility of the measurements. Second, we studied the mechanism of homotypic aggregation induced by various monoclonal antibodies to the \beta\sb1 integrin. Our findings indicate that the rate and extent of adhesion in Jurkat cells can be modulated by the stoichiometry of sites occupied by the aggregation inducing antibody, 33B6, and the inhibiting antibody, 18D3. We also hypothesize that homotypic aggregation is induced by a change in the conformation of the \beta\sb1 integrin. Further, this conformation of the VLA integrin mediating aggregation is novel and distinct from the conformation recognized by mAb 15/7 which supports cell binding to VCAM-1 and fibronectin. Third, image analysis techniques were applied to track the motion of individual Jurkat cells to study the effect of cell activation and substrate modifications on cell motility characteristics. The data was analyzed using stochastic models based on the persistent random walk model and the Markov chain analysis. Cell activation by monoclonal antibody 33B6 reduced both the speed and persistence time of Jurkat cells. 18D3 did not affect the motility characteristics. When the substrate was modified by a fibronectin coating, activation of the Jurkat cells by 33B6 increased the speed and diffusion coefficient of Jurkat cells in comparison with the OKT11 control and anti-\beta\sb1 mAb 18D3. Last, a mathematical model based on the Smoluchowski's theory of flocculation was developed to model homotypic aggregation. The model parameters were measured using independent experiments described earlier. Comparison of simulation results with experimental findings allowed us to correctly interpret the experimental data and to identify important physico-chemical parameters involved in aggregation. Results indicate that aggregation rates strongly depend upon the motility of cells and cell aggregates, the frequency of cell-cell collision and the strength of inter-cellular bonds

Application of microfluidic devices in studies of thrombosis and hemostasis

Due to the importance of fluid flow during thrombotic episodes, it is quite appropriate to study clotting and bleeding processes in devices that have well-defined fluid shear environments. Two common devices for applying these defined shear stresses include the cone-and-plate viscometer and parallel-plate flow chamber. While such tools have many salient features, they require large amounts of blood or other protein components. With growth in the area of microfluidics over the last two decades, it has become feasible to miniaturize such flow devices. Such miniaturization not only enables saving of precious samples but also increases the throughput of fluid shear devices, thus enabling the design of combinatorial experiments and making the technique more accessible to the larger scientific community. In addition to simple flows that are common in traditional flow apparatus, more complex geometries that mimic stenosed arteries and the human microvasculature can also be generated. The composition of the microfluidics cell substrate can also be varied for diverse basic science investigations, and clinical investigations that aim to assay either individual patient coagulopathy or response to anti-coagulation treatment. This review summarizes the current state of the art for such microfluidic devices and their applications in the field of thrombosis and hemostasis

Estimating the efficiency of cell capture and arrest in flow chambers: study of neutrophil binding via E-selectin and ICAM-1.

A mathematical model was developed to quantify the efficiency of cell-substrate attachment in the parallel-plate flow chamber. The model decouples the physical features of the system that affect cell-substrate collision rates from the biological features that influence cellular adhesivity. Thus, experimental data on cell rolling and adhesion density are converted into "frequency" parameters that quantify the "efficiency" with which cells in the flow chamber progress from the free stream to rolling, and transition from rolling to firm arrest. The model was partially validated by comparing simulation results with experiments where neutrophils rolled and adhered onto substrates composed of cotransfected cells bearing E-selectin and intercellular adhesion molecule-1 (ICAM-1). Results suggest that: 1) Neutrophils contact the E-selectin substrate on average for 4-8.5s before tethering. This contact duration is insensitive to applied shear stress. 2) At 2 dyn/cm(2), approximately 28% of the collisions between the cells and substrate result in primary capture. Also, approximately 5-7% of collisions between neutrophils in the free stream and previously recruited neutrophils bound on the substrate result in secondary capture. These percentages were higher at lower shears. 3) An adherent cell may influence the flow streams in its vicinity up to a distance of 2.5 cell diameters away. 4) Our estimates of selectin on-rate in cellular systems compare favorably with data from reconstituted systems with immobilized soluble E-selectin. In magnitude, the observed on-rates occur in the order, L-selectin > P-selectin > E-selectin

A computational framework for the automated construction of glycosylation reaction networks.

Glycosylation is among the most common and complex post-translational modifications identified to date. It proceeds through the catalytic action of multiple enzyme families that include the glycosyltransferases that add monosaccharides to growing glycans, and glycosidases which remove sugar residues to trim glycans. The expression level and specificity of these enzymes, in part, regulate the glycan distribution or glycome of specific cell/tissue systems. Currently, there is no systematic method to describe the enzymes and cellular reaction networks that catalyze glycosylation. To address this limitation, we present a streamlined machine-readable definition for the glycosylating enzymes and additional methodologies to construct and analyze glycosylation reaction networks. In this computational framework, the enzyme class is systematically designed to store detailed specificity data such as enzymatic functional group, linkage and substrate specificity. The new classes and their associated functions enable both single-reaction inference and automated full network reconstruction, when given a list of reactants and/or products along with the enzymes present in the system. In addition, graph theory is used to support functions that map the connectivity between two or more species in a network, and that generate subset models to identify rate-limiting steps regulating glycan biosynthesis. Finally, this framework allows the synthesis of biochemical reaction networks using mass spectrometry (MS) data. The features described above are illustrated using three case studies that examine: i) O-linked glycan biosynthesis during the construction of functional selectin-ligands; ii) automated N-linked glycosylation pathway construction; and iii) the handling and analysis of glycomics based MS data. Overall, the new computational framework enables automated glycosylation network model construction and analysis by integrating knowledge of glycan structure and enzyme biochemistry. All the implemented features are provided as part of the Glycosylation Network Analysis Toolbox (GNAT), an open-source, platform-independent, MATLAB based toolbox for studies of Systems Glycobiology

Hydrodynamic Forces Applied on Intercellular Bonds, Soluble Molecules, and Cell-Surface Receptors

Cells and biomolecules exposed to blood circulation experience hydrodynamic forces that affect their function. We present a methodology to estimate fluid forces and force loading rates applied on cellular aggregates, cell-surface proteins, and soluble molecules. Low Reynolds-number hydrodynamic theory is employed. Selected results are presented for biological cases involving platelets, neutrophils, tumor cells, GpIb-like cell-surface receptors, and plasma von Willebrand factor (vWF)-like soluble proteins. Calculations reveal the following: 1), upon application of constant linear shear, cell aggregates and biomolecules experience time-varying forces due to their tumbling motion. 2), In comparison to neutrophil homotypic aggregates, the maximum force applied on neutrophil-platelet aggregates is approximately threefold lower. Thus, alterations in cell size may dramatically alter adhesion molecule requirement for efficient cell binding. Whereas peak forces on homotypic cell doublets are tensile, shear forces dominate in heterotypic doublets with radius ratio <0.3. 3), The peak forces on platelet GpIb and von Willebrand factor are of comparable magnitude. However, they are orders-of-magnitude lower than those applied on intercellular bonds. Charts are provided to rapidly evaluate the magnitude of hydrodynamic force and rotation time-period occurring in any given experiment. The calculation scheme may find application in studies of vascular biology and receptor biophysics