In Vivo Metal Catalysis in Living Biological Systems

Author(s):  
Kenward Vong ◽  
Katsunori Tanaka
2019 ◽  
Vol 26 (1) ◽  
pp. 55-60 ◽  
Author(s):  
Jen Bohon

Background: First developed in the 1990’s at the National Synchrotron Light Source, xray synchrotron footprinting is an ideal technique for the analysis of solution-state structure and dynamics of macromolecules. Hydroxyl radicals generated in aqueous samples by intense x-ray beams serve as fine probes of solvent accessibility, rapidly and irreversibly reacting with solvent exposed residues to provide a “snapshot” of the sample state at the time of exposure. Over the last few decades, improvements in instrumentation to expand the technology have continuously pushed the boundaries of biological systems that can be studied using the technique. Conclusion: Dedicated synchrotron beamlines provide important resources for examining fundamental biological mechanisms of folding, ligand binding, catalysis, transcription, translation, and macromolecular assembly. The legacy of synchrotron footprinting at NSLS has led to significant improvement in our understanding of many biological systems, from identifying key structural components in enzymes and transporters to in vivo studies of ribosome assembly. This work continues at the XFP (17-BM) beamline at NSLS-II and facilities at ALS, which are currently accepting proposals for use.


2021 ◽  
Author(s):  
Monojit Das ◽  
Debdeep Maity ◽  
Tusar Kanta Acharya ◽  
Sudip Sau ◽  
Chandan Giri ◽  
...  

A water-soluble PET-based chemosensor is developed which can detect Al(iii) and F− ions up to nano- and picomolar (lowest detection so far) detection limit, respectively, also utilized to establish aluminum-toxicity effect in biological systems.


2021 ◽  
Author(s):  
Rebecca L Pinals ◽  
Nicholas Ouassil ◽  
Jackson Travis Del Bonis-O'Donnell ◽  
Jeffrey W Wang ◽  
Markita P Landry

Engineered nanoparticles are advantageous for numerous biotechnology applications, including biomolecular sensing and delivery. However, testing the compatibility and function of nanotechnologies in biological systems requires a heuristic approach, where unpredictable biofouling often prevents effective implementation. Such biofouling is the result of spontaneous protein adsorption to the nanoparticle surface, forming the "protein corona" and altering the physicochemical properties, and thus intended function, of the nanotechnology. To better apply engineered nanoparticles in biological systems, herein, we develop a random forest classifier (RFC) trained with proteomic mass spectrometry data that identifies which proteins adsorb to nanoparticles. We model proteins that populate the corona of a single-walled carbon nanotube (SWCNT)-based optical nanosensor. We optimize the classifier and characterize the classifier performance against other models. To evaluate the predictive power of our model, we then apply the classifier to rapidly identify and experimentally validate proteins with high binding affinity to SWCNTs. Using protein properties based solely on amino acid sequence, we further determine protein features associated with increased likelihood of SWCNT binding: proteins with high content of solvent-exposed glycine residues and non-secondary structure-associated amino acids. Furthermore, proteins with high leucine residue content and beta-sheet-associated amino acids are less likely to form the SWCNT protein corona. The classifier presented herein provides an important tool to undertake the otherwise intractable problem of predicting protein-nanoparticle interactions, which is needed for more rapid and effective translation of nanobiotechnologies from in vitro synthesis to in vivo use.


Internal images of structured objects may be obtained with n.m.r. by labelling component parts with different magnetic field strengths and therefore recognizably different n.m.r. frequencies. A linear field gradient generates a one-dimensional projection of nuclear density and a variety of techniques are employed to manipulate this one-dimensional probe to yield internal images in two and three dimensions. In the past few years, n.m.r. imaging, sometimes also called zeugmatography or spin mapping, has been applied progressively to provide proton images of small phantoms, fruit, vegetables and small animals, and finally to in vivo imaging of the human body; it promises to provide a valuable means of interior investigation of intact biological systems generally. For medical imaging the method is non-invasive, does not use ionizing radiations, appears to be without hazard and penetrates bony cavities without attenuation. Furthermore, other n.m.r. parameters, for example, relaxation times and fluid flow, may also be mapped; there is evidence that the relaxation times from tumours are significantly longer than those from corresponding normal tissue. Effort to date has mostly been concentrated on proton n.m.r., but some work has been done with other nuclei. Three examples are shown of n.m.r. images of intact biological systems: a fruit, an animal and a human system. The discussion includes the quantitative nature of the images, tissue discrimination, the relation between resolution in the image and image acquisition time, attenuation and phase shift of the r.f. field in the biological tissue, and magnets suitable for n.m.r. imaging. In principle, all conventional n.m.r. techniques can be combined with n.m.r. imaging methods in order to investigate heterogeneous systems. Overhauser imaging is briefly discussed.


2003 ◽  
Vol 162 (5) ◽  
pp. 899-908 ◽  
Author(s):  
Lilia Topol ◽  
Xueyuan Jiang ◽  
Hosoon Choi ◽  
Lisa Garrett-Beal ◽  
Peter J. Carolan ◽  
...  

Wnts are secreted signaling molecules that can transduce their signals through several different pathways. Wnt-5a is considered a noncanonical Wnt as it does not signal by stabilizing β-catenin in many biological systems. We have uncovered a new noncanonical pathway through which Wnt-5a antagonizes the canonical Wnt pathway by promoting the degradation of β-catenin. This pathway is Siah2 and APC dependent, but GSK-3 and β-TrCP independent. Furthermore, we provide evidence that Wnt-5a also acts in vivo to promote β-catenin degradation in regulating mammalian limb development and possibly in suppressing tumor formation.


2019 ◽  
Author(s):  
A. Z. Płochocka ◽  
N. A. Bulgakova ◽  
L. Chumakova

Cytoplasm is densely packed with macromolecules causing cellular crowding, which alters interactions inside cells and differs between biological systems. Here we investigate the impact of crowding on microtubule cytoskeleton organization. Using mathematical modelling, we find that only anisotropic crowding affects the mean microtubule direction, but any crowding reduces the number of microtubules that form bundles. We validate these predictions in vivo using Drosophila follicular epithelium. Since cellular components are transported along microtubules, our results identify cellular crowding as a novel regulator of this transport and cell organization.


There is little doubt that the most important inorganic radicals involved in biological systems are those which are intermediates in the oxygen-water redox cycle, i.e. OH’, O - 2 and HO’ 2' . Aspects of the structures and reactivities of these radicals are considered, together with methods of detection. In particular, the use of e.s.r. spectroscopy is outlined, including rapid-freeze and spin-trapping techniques. Attention is called to comparisons and contrasts between these radicals and corresponding sulphur-centred radicals, although these are not strictly ‘inorganic’. The oxygen-centred radicals are usually generated in vivo by redox reactions, but they are also of importance in radioly tic processes because they are formed from water. Other Radicals formed in this way whose structures and reactivities are considered include solvated electrons and hydrogen atoms.


2016 ◽  
Vol 11 (7) ◽  
pp. 1020-1027 ◽  
Author(s):  
Neha Gupta ◽  
Shahi Imam Reja ◽  
Vandana Bhalla ◽  
Muskan Gupta ◽  
Gurcharan Kaur ◽  
...  

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