scholarly journals A proof of concept application of aptachain: ligand-induced self-assembly of a DNA aptamer

RSC Advances ◽  
2019 ◽  
Vol 9 (3) ◽  
pp. 1690-1695 ◽  
Author(s):  
Miguel A. D. Neves ◽  
Sladjana Slavkovic ◽  
Oren Reinstein ◽  
Aron A. Shoara ◽  
Philip E. Johnson
Keyword(s):  
Ligand Binding ◽  
Self Assembly ◽  
Dna Aptamer ◽  
Proof Of Concept ◽  
Concept Application

We present the concept of aptachain. An aptamer is split into two overlapping strands that form an oligomer when it binds its target. Aptachain formation can be used to detect ligand binding and may be beneficial in other biotechnology applications.

Stochastic Computing via In Operando Modulation of Rectification in Molecular Tunneling Junctions

2020 ◽  
Author(s):  
Xinkai Qiu ◽  
Sylvia Rousseva ◽  
Gang Ye ◽  
Jan C. Hummelen ◽  
Ryan Chiechi
Keyword(s):  
Self Assembly ◽  
Variable Temperature ◽  
Self Assembled Monolayers ◽  
Microfluidic Channels ◽  
Proof Of Concept ◽  
Glycol Ethers ◽  
Stochastic Computing ◽  
Assembled Monolayers ◽  
In Operando ◽  
Tunneling Junctions

This paper describes the reconfiguration of molecular tunneling junctions during operation via the self-assembly of bilayers of glycol ethers. We use well-established functional groups to modulate the magnitude and direction of rectification in assembled tunneling junctions by exposing them to solutions containing different glycol ethers. Variable-temperature measurements establish that rectification occurs by a bias-dependent tunneling-hopping mechanism and that glycol ethers, beside being an unusually efficient tunneling medium, behave identically to alkanes. We fabricated memory bits from crossbar junctions prepared by injecting eutectic Ga-In into microfluidic channels. Two 8-bit registers were able to perform logical AND operations on bit strings encoded into chemical packets as microfluidic droplets that alter the composition of the crossbar junctions through self-assembly to effect memristor-like properties. This proof of concept work demonstrates the potential for fieldable molecular-electronic devices based on tunneling junctions of self-assembled monolayers and bilayers.

scholarly journals Self-assembly induced luminescence of Eu3+-complexes and application in bioimaging

2021 ◽  
Author(s):  
Ping-Ru Su ◽  
Tao Wang ◽  
Pan-Pan Zhou ◽  
Xiao-Xi Yang ◽  
Xiao-Xia Feng ◽  
...  
Keyword(s):  
Aqueous Solution ◽  
Rare Earth ◽  
Luminescence Intensity ◽  
Self Assembly ◽  
Room Temperature ◽  
Molecular Motion ◽  
Proof Of Concept ◽  
Room Temperature Phosphorescence ◽  
New Strategy ◽  
Size Controlled

Abstract Design and engineering of highly efficient emitting materials with assembly-induced luminescence, such as room temperature phosphorescence (RTP) and aggregation-induced emission (AIE), have stimulated extensive efforts. Here, we propose a new strategy to obtain size-controlled Eu3+-complex nanoparticles (Eu-NPs) with self-assembly induced luminescence (SAIL) characteristics without encapsulation or hybridization. Compared with previous RTP or AIE materials, the SAIL phenomena of increased luminescence intensity and lifetime in aqueous solution for the proposed Eu-NPs are due to the combined effect of self-assembly in confining the molecular motion and shielding the water quenching. As a proof of concept, we also show that this system can be further applied in bioimaging, temperature measurement and HClO sensing. The SAIL activity of the rare-earth (RE) system proposed here offers a further step forward on the roadmap for the development of RE light conversion systems and their integration in bioimaging and therapy applications.

scholarly journals Herbaria Mundi: An image centric approach to manipulation of specimens from multiple collections

2020 ◽  
Vol 4 ◽  
Author(s):  
Roger Hyam
Keyword(s):  
User Interface ◽  
Proof Of Concept ◽  
Virus Spread ◽  
Biodiversity Crisis ◽  
International Image ◽  
Voucher Specimens ◽  
Tropical Areas ◽  
Concept Application ◽  
Extensive Reference ◽  
As If

Addressing the challenges of the Climate Emergency and the Biodiversity Crisis requires us to understand how the world's vegetation is changing. This is not a trivial task,especially in highly diverse tropical areas. Frequently, the only way to characterise vegetation is to make voucher specimens of the plants present and identify them later in the lab. Fortunately there are extensive reference collections carefully curated in herbaria. Unfortunately specimens and expertise are dispersed over hundreds of different herbaria spread across many countries. It would be more efficient if scientists could see and manipulate specimens independently of where they are stored, especially as travel becomes more difficult due to both the need to reduce carbon emissions and virus spread. Herbaria Mundi is an application demonstrating how how this can be achieved using CETAF Specimen IDs and IIIF (International Image Interoperability Framework). The application mimics the way a botanist might work in a physical herbarium by enabling the gathering of specimens into groups and side-by-side comparison of specimens, but differs in that one can search for and manipulate specimens in multiple herbaria as if they were stored in a single collection. Voucher specimens are often not added to herbaria mainly because they do not add enough value to material already in the collections. Herbaria Mundi therefore includes the ability for researchers to upload specimen images to Zenodo and for them to appear in the user interface as if they were in an institutional herbarium. This proof of concept application is being developed as part of Task 4.3 of the Synthesys+ project funded by the European Commission. Two things need to occur to take this concept into production. More herbaria need to adopt the use of CETAF specimen identifiers and the IIIF image API. Botanists need to prioritise which features they would like developed first. More herbaria need to adopt the use of CETAF specimen identifiers and the IIIF image API. Botanists need to prioritise which features they would like developed first. The poster will be a catalyst to discuss how these things can be achieved.

scholarly journals Label-free profiling of DNA aptamer-small molecule binding using T5 exonuclease

2020 ◽  
Vol 48 (20) ◽  
pp. e120-e120 ◽  
Author(s):  
Obtin Alkhamis ◽  
Weijuan Yang ◽  
Rifat Farhana ◽  
Haixiang Yu ◽  
Yi Xiao
Keyword(s):  
Ligand Binding ◽  
Small Molecule ◽  
High Throughput ◽  
Dna Aptamer ◽  
Label Free ◽  
General Applicability ◽  
Gold Standard Method ◽  
Characterization Methods ◽  
Increased Risk

Abstract In vitro aptamer isolation methods can yield hundreds of potential candidates, but selecting the optimal aptamer for a given application is challenging and laborious. Existing aptamer characterization methods either entail low-throughput analysis with sophisticated instrumentation, or offer the potential for higher throughput at the cost of providing a relatively increased risk of false-positive or -negative results. Here, we describe a novel method for accurately and sensitively evaluating the binding between DNA aptamers and small-molecule ligands in a high-throughput format without any aptamer engineering or labeling requirements. This approach is based on our new finding that ligand binding inhibits aptamer digestion by T5 exonuclease, where the extent of this inhibition correlates closely with the strength of aptamer-ligand binding. Our assay enables accurate and efficient screening of the ligand-binding profiles of individual aptamers, as well as the identification of the best target binders from a batch of aptamer candidates, independent of the ligands in question or the aptamer sequence and structure. We demonstrate the general applicability of this assay with a total of 106 aptamer-ligand pairs and validate these results with a gold-standard method. We expect that our assay can be readily expanded to characterize small-molecule-binding aptamers in an automated, high-throughput fashion.

Amide–triazole isosteric substitution for tuning self-assembly and incorporating new functions into soft supramolecular materials

2015 ◽  
Vol 51 (25) ◽  
pp. 5294-5297 ◽  
Author(s):  
Jürgen Bachl ◽  
Judith Mayr ◽  
Francisco J. Sayago ◽  
Carlos Cativiela ◽  
David Díaz Díaz
Keyword(s):  
Self Assembly ◽  
Proof Of Concept ◽  
Supramolecular Materials

We report the proof-of-concept demonstration for the synthesis of novel supramolecular soft gel materials based on amide–triazole isometric substitution.

scholarly journals Asymmetric bifunctional protein nanoparticles through redesign of self-assembly

2019 ◽  
Vol 1 (5) ◽  
pp. 1833-1846 ◽  
Author(s):  
Santiago Sosa ◽  
Andrés H. Rossi ◽  
Alan M. Szalai ◽  
Sebastián Klinke ◽  
Jimena Rinaldi ◽  
...  
Keyword(s):  
Self Assembly ◽  
Eukaryotic Cells ◽  
Proof Of Concept ◽  
Bifunctional Protein ◽  
Protein Scaffold ◽  
Protein Nanoparticles ◽  
Novel Scaffold

In this work we rationally redesign and engineer a decameric protein scaffold to generate an asymmetric Janus-like protein nanoparticle. As a proof of concept this novel scaffold is functionalized (i) to fluorescently label eukaryotic cells and (ii) to generate a multichromophoric FRET nanoparticle.

scholarly journals Engineering transferrable microvascular meshes for subcutaneous islet transplantation

2019 ◽  
Vol 10 (1) ◽  
Author(s):  
Wei Song ◽  
Alan Chiu ◽  
Long-Hai Wang ◽  
Robert E. Schwartz ◽  
Bin Li ◽  
...  
Keyword(s):  
Self Assembly ◽  
Induced Pluripotent Stem Cell ◽  
Patient Specific ◽  
Proof Of Concept ◽  
Vascular Regeneration ◽  
Assembly Method ◽  
Chemically Induced ◽  
Subcutaneous Space ◽  
Induced Pluripotent

Abstract The success of engineered cell or tissue implants is dependent on vascular regeneration to meet adequate metabolic requirements. However, development of a broadly applicable strategy for stable and functional vascularization has remained challenging. We report here highly organized and resilient microvascular meshes fabricated through a controllable anchored self-assembly method. The microvascular meshes are scalable to centimeters, almost free of defects and transferrable to diverse substrates, ready for transplantation. They promote formation of functional blood vessels, with a density as high as ~220 vessels mm-2, in the poorly vascularized subcutaneous space of SCID-Beige mice. We further demonstrate the feasibility of fabricating microvascular meshes from human induced pluripotent stem cell-derived endothelial cells, opening a way to engineer patient-specific microvasculature. As a proof-of-concept for type 1 diabetes treatment, we combine microvascular meshes and subcutaneously transplanted rat islets and achieve correction of chemically induced diabetes in SCID-Beige mice for 3 months.

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