Strategy for Designing New Li+ ion Specific Receptors. A Combination of Theoretical Calculations and Experimental Techniques

Our strategy for designing new receptor molecules specific for Li+ ions is to combine two methods, theoretical calculations and the experimental technique. In developing the Li+ ion-specific receptors, we regarded crown ether derivatives of a 12-membered ring and side arms with functional groups as building blocks. This strategy worked well to synthesize new receptor molecules which selectively bind and transport the Li+ ion.     

Targetable fluorescent sensors for advanced cell function analysis

Chemistry-based bioimaging techniques have contributed to the elucidation of intracellular physiological events. During the last few decades, many fluorescent sensors have been developed and used in live cell experiments. Owing to immense efforts by numerous research groups, several strategies have been developed to design fluorescent sensors based on various components such as small molecules and fluorescent proteins. Recently, site-specific targeting of fluorescent sensors has attracted increasing attention. Strategies for fluorescent sensor targeting were surveyed in this review with the aims to expand current knowledge on chemistry-based bioimaging and aid in the emergence of related innovative technologies. The first discussed strategy is based on the intrinsic properties of small molecules for localization at specific organelles, such as mitochondria, nuclei, and lysosomes. As a further elaboration of the topic, our recent study about in vivo targeting of pH sensors was briefly introduced. The second strategy exploits genetically encoded tags and their specific ligands. Here, fluorescent sensors with commercially available tags and corresponding ligands were mainly reviewed. As the final topic, our original protein labeling technique, which enables fluorogenic labeling as an advanced technology, was introduced.     

Styryl molecules light-up RNAs

A combinatorial library of 1336 fluorescent styryl molecules was synthesized aiming to select dyes that are photostable, non-toxic, and specific for RNA molecules in living cells . These dyes are potentially important to the study of gene expression in live cells.     

Mechanochemical Radical Boronation of Aryl Diazonium Salts Promoted by Sodium Chloride

Arylboronates are helpful building blocks in organic synthesis. Here, we present an efficient mechanochemical synthesis of arylboronates from arene diazonium salts. Importantly, this transformation was significantly enhanced by sodium chloride, which probably promotes the decomposition of diazonium salts via anion exchange. Chloride anions also participate in the formation of strongly reducing Cl−B anion radical intermediate that promotes radical chain reaction. The reaction proceeds more efficiently with a small amount of polar solvent as a liquid-assisted grinding additive. Quantum chemical calculations support the mechanistic proposal.     

Delivery and subcellular targeting of dendrimer-based fluorescent pH sensors in living cells

Synthesis and targeted delivery of dendrimer-based fluorescent biosensors in living HeLa cells are reported. Following electroporation dendrimers are shown to display specific subcellular localization depending on their size and surface charge and this property is preserved when they are functionalized with sensing moieties. We analyze the case of double dendrimer conjugation with pH-sensitive and pH-insensitive molecules leading to the realization of ratiometric pH sensors that are calibrated in vitro and in living cells. By tuning the physicochemical properties of the dendrimer scaffold sensors can be targeted to specific cellular compartments allowing selective pH measurements in different organelles in living cells. In order to demonstrate the modularity of this approach we present three different pH sensors with tuned H(+) affinity by appropriately choosing the pH-sensitive dye. We argue that the present methodology represents a general approach toward the realization of targetable ratiometric sensors suitable to monitor biologically relevant ions or molecules in living cells.     

SUBCELLULAR LOCALIZATION OF HEMATOPORPHYRIN DERIVATIVE IN BLADDER TUMOR CELLS IN CULTURE

Mitochondria have been implicated as a primary subcellular site of porphyrin localization and photodestruction. However, other organelles including the cell membrane, lysosomes and nucleus have been shown to be damaged by hematoporphyrin derivative (HpD) photosensitized destruction as well. In this study we attempted to follow the translocation of the fluorescent components of HpD in human bladder tumor cells (MGH-U1) in culture to determine whether specific subcellular localization occurs over time. Following a 30 min exposure to HpD the cellular fluorescence was examined immediately and 1, 2, 4, and 24 h after HpD removal using fluorescence microscopy and an interactive laser cytometer. The in vitro translocation of dye appeared to be fairly rapid with fluorescence present at the cell membrane and later (1-2 h) within a perinuclear area of the cytoplasm. To determine whether HpD had become concentrated into a specific subcellular organelle, these fluorescence distribution patterns were compared with fluorescent marker dyes specific for mitochondria, endoplasmic reticulum and other membranous organelles. The HpD fluorescence did not appear to be as discrete as the dyes specific for mitochondria or endoplasmic reticulum but appeared similar to the diffuse cytomembrane stain. Finally, the interaction between the fluorescent components of HpD and the cellular constituents was evaluated using a "fluorescence redistribution after photobleaching" technique. The results indicated that the mean lateral diffusion for HpD in MGH-U1 cells was 1.05 x 10(-8) cm2/s, a rate closer to that of lipid diffusion (10(-8)) than that of protein diffusion (10(-10)).(ABSTRACT TRUNCATED AT 250 WORDS)     

New branched DNA constructs

The Watson-Crick base pairing of DNA is an advantageous phenomenon that can be exploited when using DNA as a scaffold for directed self-organization of nanometer-sized objects. Several reports have appeared in the literature that describe the generation of branched DNA (bDNA) with variable numbers of arms that self-assembles into predesigned architectures. These bDNA units are generated by using cleverly designed rigid crossover DNA molecules. Alternatively, bDNA can be generated by using synthetic branch points derived from either nucleoside or non-nucleoside building blocks. Branched DNA has scarcely been explored for use in nanotechnology or from self-assembling perspectives. Herein, we wish to report our results for the synthesis, characterization, and assembling properties of asymmetrical bDNA molecules that are able to generate linear and circular bDNA constructs. Our strategy for the generation of bDNA is based on a branching point that makes use of a novel protecting-group strategy. The bDNA units were generated by means of automated DNA synthesis methods and were used to generate novel objects by employing chemical and biological techniques. The entities generated might be useful building blocks for DNA-based nanobiotechnology.     

Self-assembly of fluorescent inclusion complexes in competitive media including the interior of living cells

Anthracene-containing tetralactam macrocycles are prepared and found to have an extremely high affinity for squaraine dyes in chloroform (log Ka = 5.2). Simply mixing the two components produces highly fluorescent, near-infrared inclusion complexes in quantitative yield. An X-ray crystal structure shows the expected hydrogen bonding between the squaraine oxygens and the macrocycle amide NH residues, and a high degree of cofacial aromatic stacking. The kinetics and thermodynamics of the assembly process are very sensitive to small structural changes in the binding partners. For example, a macrocycle containing two isophthalamide units associates with the squaraine dye in chloroform 400,000 times faster than an analogous macrocycle containing two 2,6-dicarboxamidopyridine units. Squaraine encapsulation also occurs in highly competitive media such as mixed aqueous/organic solutions, vesicle membranes, and the organelles within living cells. The highly fluorescent inclusion complexes possess emergent properties; that is, as compared to the building blocks, the complexes have improved chemical stabilities, red-shifted absorption/emission maxima, and different cell localization propensities. These are useful properties for new classes of near-infrared fluorescent imaging probes.     

Directed assembly of gold nanoparticles

As a complement to common “top–down” lithography techniques, “bottom–up” assembly techniques are emerging as promising tools to build nanoscale structures in a predictable way. Gold nanoparticles that are stable and relatively easy to synthesize are important building blocks in many such structures due to their useful optical and electronic properties. Programmed assembly of gold nanoparticles in one, two, and three dimensions is therefore of large interest. This review focuses on the progress from the last three years in the field of directed gold nanoparticle and nanorod assembly using, for example, DNA or specific chemical interactions as template.     

Mechanism and efficiency of cell death of type II photosensitizers: effect of zinc chelation

A series of meso-substituted tetra-cationic porphyrins, which have methyl and octyl substituents, was studied in order to understand the effect of zinc chelation and photosensitizer subcellular localization in the mechanism of cell death. Zinc chelation does not change the photophysical properties of the photosensitizers (all molecules studied are type II photosensitizers) but affects considerably the interaction of the porphyrins with membranes, reducing mitochondrial accumulation. The total amount of intracellular reactive species induced by treating cells with photosensitizer and light is similar for zinc-chelated and free-base porphyrins that have the same alkyl substituent. Zinc-chelated porphyrins, which are poorly accumulated in mitochondria, show higher efficiency of cell death with features of apoptosis (higher MTT response compared with trypan blue staining, specific acridine orange/ethidium bromide staining, loss of mitochondrial transmembrane potential, stronger cytochrome c release and larger sub-G1 cell population), whereas nonchelated porphyrins, which are considerably more concentrated in mitochondria, triggered mainly necrotic cell death. We hypothesized that zinc-chelation protects the photoinduced properties of the porphyrins in the mitochondrial environment.     

Bottom-up assembly of molecular wagons on a surface

The bottom-up assembly of molecular building blocks, carrying specific functions, is a promising strategy for the construction of nanomachines. In this study we show how molecules with a mechanical function, i.e., being equipped with wheels, can be connected in a controlled way directly on a surface. By choosing suitable building blocks, assembled dimers and wagon trains can be formed, whereas the length of the chains can be limited by using a heterogeneous mixture of molecules. By using low temperature scanning tunneling microscopy, the chemical nature of the intermolecular connection is determined as a metal-ligand bond, which is stable enough to maintain the wagon train structure at room temperature. The intermolecular bonds can be controllably changed from trans to cis configurations thereby achieving bond angles of almost 90°.     

Microfluidic Programming of Compositional Hydrogel Landscapes

A droplet microfluidics strategy to rapidly synthesize, process, and screen up to hundreds of thousands of compositionally distinct synthetic hydrogels is presented. By programming the flow rates of multiple microfluidic inlet channels supplying individual hydrogel building blocks, microgel compositions and properties are systematically modulated. The use of fluorescent labels as proxies for the physical and chemical properties of the microgel permits the rapid screening and discovery of specific formulations through fluorescence microscopy or flow cytometry. This concept should accelerate the discovery of new hydrogel formulations for various novel applications.

     

Biosynthesis of Modular Ascarosides in C. elegans

The nematode Caenorhabditis elegans uses simple building blocks from primary metabolism and a strategy of modular assembly to build a great diversity of signaling molecules, the ascarosides, which function as a chemical language in this model organism. In the ascarosides, the dideoxysugar ascarylose serves as a scaffold to which diverse moieties from lipid, amino acid, neurotransmitter, and nucleoside metabolism are attached. However, the mechanisms that underlie the highly specific assembly of ascarosides are not understood. We show that the acyl‐CoA synthetase ACS‐7, which localizes to lysosome‐related organelles, is specifically required for the attachment of different building blocks to the 4′‐position of ascr#9. We further show that mutants lacking lysosome‐related organelles are defective in the production of all 4′‐modified ascarosides, thus identifying the waste disposal system of the cell as a hotspot for ascaroside biosynthesis.     

Self-Assembling Sieves

A modular strategy has been applied to synthesize large, porous, self-assembling capsules. The coupling of tricyclic building blocks incorporating glycoluril hydrogen-bonding units and derivatives of triethylbenzene produces monomers which readily form homo- and heterodimeric assemblies (calculated structure is shown). Large guests can be trapped while small solvent molecules flow freely through the pores of the capsules.     

Designed Synthesis of van der Waals Heterostructures: The Power of Kinetic Control

Selecting specific 2D building blocks and specific layering sequences of van der Waals heterostructures should allow the formation of new materials with designed properties for specific applications. Unfortunately, the synthetic ability to prepare such structures at will, especially in a manner that can be manufactured, does not exist. Herein, we report the targeted synthesis of new metal–semiconductor heterostructures using the modulated elemental‐reactant technique to nucleate specific 2D building blocks, control their thickness, and avoid epitaxial structures with long‐range order. The building blocks, VSe₂ and GeSe₂, have different crystal structures, which inhibits cation intermixing. The precise control of this approach enabled us to synthesize heterostructures containing GeSe₂ monolayers alternating with VSe₂ structural units with specific sequences. The transport properties systematically change with nanoarchitecture and a charge‐density wave‐like transition is observed.     

Subcellular localization of merocyanine 540 (MC540) and induction of apoptosis in murine myeloid leukemia cells

Subcellular localization of photosensitizers is thought to play a critical role in determining the mode of cell death after photodynamic treatment (PDT) of leukemia cells. Using confocal laser scanning microscopy and fluorescent organelle probes, we examined the subcellular localization of merocyanine 540 (MC540) in the murine myeloid leukemia M1 and WEHI 3B (JCS) cells. Two patterns of localization were observed: in JCS cells, MC540 was found to localize on the plasma membrane and mitochondria; and in M1 leukemia cells, MC540 was found to localize on lysosomes. The relationship between subcellular localization of MC540 and PDT-induced apoptosis was investigated. Apoptotic cell death, as judged by the formation of apoptotic nuclei, was observed 4 h after irradiation in both leukemia cell lines. Typical ladders of apoptotic DNA fragments were also detected by DNA gel electrophoresis in PDT-treated JCS and M1 cells. At the irradiation dose of 46 kJ/m2 (LD90 for JCS and LD86 for M1 cells), the percentage of apoptotic JCS and M1 cells was 78 and 38%, respectively. This study provided substantial evidence that MC540 localized differentially in the mitochondria, and the subsequent photodamage of the organelle played an important role in PDT-mediated apoptosis in myeloid leukemia cells.     

Interaction of Crown Ether‐Annelated Styryl Dyes with Double‐Stranded DNA

DNA‐binding properties of 15‐crown‐5‐derived mono‐ and bis‐styryl dyes were investigated in the presence of calf thymus DNA. To access the factors that influence the DNA association in the series of these ligands, the structure of the molecules was varied by either changing size of the heterocyclic moiety or altering the position of the styryl substituents. The major binding mode for the monostyryl dyes is intercalation. Notably, binding of the dyes to the nucleic acids leads to a fluorescence enhancement by a factor of up to 54. Therefore, these cationic styryl derivatives may be applied as fluorescent “light‐up” probes for DNA detection.     

Molecular Alignment-Induced Chemically Patchy Uniaxial Nanoparticles and Their Applications in Anti-Counterfeiting and Self-Assembled Superstructures

We report an unusual strategy for synthesizing patchy nanoparticles (NPs) by controlling the orientation of the molecules that form the NPs. This is realized by synchronous polymerization and crystallization of liquid crystal (LC) monomers during scalable precipitation polymerization. The resulting NPs are cylinders with highly uniform shapes and have only a single LC domain. The patchy properties originate from the discrepancy of surface chemical compositions on flat and side surfaces and can be switched on and off by solvent. Extra colloidal blocks can be grown onto the patches, resulting in highly uniform triblock patchy dumbbells, which have integrated optical properties, and as demonstrated, show triple-mode optical authentication in anti-counterfeiting labels or patterns. We also demonstrate that the triblock patchy cylinders are attractive building blocks for long LC rods or porous colloidal materials through polymerization-induced self-assembly.     

Self-assembly of inorganic nanoparticle vesicles and tubules driven by tethered linear block copolymers

Controllable self-assembly of nanoscale building blocks into larger specific structures provides an effective route for the fabrication of new materials with unique optical, electronic, and magnetic properties. The ability of nanoparticles (NPs) to self-assemble like molecules is opening new research frontiers in nanoscience and nanotechnology. We present a new class of amphiphilic "colloidal molecules" (ACMs) composed of inorganic NPs tethered with amphiphilic linear block copolymers (BCPs). Driven by the conformational changes of tethered BCP chains, such ACMs can self-assemble into well-defined vesicular and tubular nanostructures comprising a monolayer shell of hexagonally packed NPs in selective solvents. The morphologies and geometries of these assemblies can be controlled by the size of NPs and molecular weight of BCPs. Our approach also allows us to control the interparticle distance, thus fine-tuning the plasmonic properties of the assemblies of metal NPs. This strategy provides a general means to design new building blocks for assembling novel functional materials and devices.