Erythrose and Threose: Carbonyl Migrations, Epimerizations, Aldol, and Oxidative Fragmentation Reactions under Plausible Prebiotic Conditions.

The prebiotic generation of sugars in the context of origins of life studies is of considerable interest. Among the important intramolecular processes of sugars are carbonyl migrations and accompanying epimerizations. Herein we describe the carbonyl migration-epimerization process occurring down the entire carbon chain of chirally pure d-tetroses sugars under mild conditions. Employing chirally pure 1-13 C-erythrose, 4-13 C-erythrose and 1-13 C-threose, we (1) identify all the species formed as the carbonyl migrates down the four-carbon chain and (2) assess the rates associated with the production of each of these species. Competing aldol reactions and oxidative fragmentation processes were also observed. Further observations of self-condensation of glycolaldehyde mainly yielding 2-keto-hexoses (sorbose and tagatose) and tetrulose also provides a basis for understanding the effect of carbonyl migrations on the product distribution in plausible prebiotic scenarios.

A blueprint for academic laboratories to produce SARS-CoV-2 quantitative RT-PCR test kits.

Widespread testing for the presence of the novel coronavirus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in individuals remains vital for controlling the COVID-19 pandemic prior to the advent of an effective treatment. Challenges in testing can be traced to an initial shortage of supplies, expertise, and/or instrumentation necessary to detect the virus by quantitative RT-PCR (RT-qPCR), the most robust, sensitive, and specific assay currently available. Here we show that academic biochemistry and molecular biology laboratories equipped with appropriate expertise and infrastructure can replicate commercially available SARS-CoV-2 RT-qPCR test kits and backfill pipeline shortages. The Georgia Tech COVID-19 Test Kit Support Group, composed of faculty, staff, and trainees across the biotechnology quad at Georgia Institute of Technology, synthesized multiplexed primers and probes and formulated a master mix composed of enzymes and proteins produced in-house. Our in-house kit compares favorably with a commercial product used for diagnostic testing. We also developed an environmental testing protocol to readily monitor surfaces for the presence of SARS-CoV-2. Our blueprint should be readily reproducible by research teams at other institutions, and our protocols may be modified and adapted to enable SARS-CoV-2 detection in more resource-limited settings.

The Oligomerization of Glucose Under Plausible Prebiotic Conditions.

The prebiotic origin of polysaccharides, the largest class of biopolymers by mass in extant biology, has seldom been investigated experimentally. Herein, we report on the acid-catalyzed condensation of aqueous solutions of glucose, a model monosaccharide, under plausible prebiotic conditions employing a wet-dry (night-day) protocol with 0.01 M HCl at 50 °C. This protocol leads to the formation of oligosaccharides containing up to eight monomeric units identified by high resolution mass spectrometry. The regio- and stereochemistry of the oligomeric acetal linkages, as well as the quantitative analysis of glucose conversion, are elucidated by combining 1H, 13C and 2D NMR spectroscopy. Ten out of eleven possible acetal linkages, including α- and ß- anomers, have been identified with the α- and ß- 1,6-acetals being the dominant linkages observed. In addition, the acid-catalyzed oligomerization of several glucose disaccharides such as cellobiose, maltose, and gentiobiose are presented along with an accompanying comparison with the corresponding oligomerization of glucose.

Aqueous Suzuki Coupling Reactions of Basic Nitrogen-Containing Substrates in the Absence of Added Base and Ligand: Observation of High Yields under Acidic Conditions.

A series of aqueous heterogeneous Suzuki coupling reactions of substrates containing basic nitrogen centers with phenylboronic acid in the absence of added base and ligand is presented. High yields of products were obtained by employing aryl bromides containing aliphatic 1°, 2°, and 3° amine substituents, and good to high yields were obtained by employing a variety of substituted bromopyridines. In the former series, the pH of the aqueous phase changed from basic to acidic during the course of the reaction, while in the latter series the aqueous phase was on the acidic side of the pH scale throughout the entire course of reaction. A mechanistic interpretation for these observations, which generally preserves the oxo palladium catalytic cycle widely accepted in the literature, is presented.

Production of tartrates by cyanide-mediated dimerization of glyoxylate: a potential abiotic pathway to the citric acid cycle.

An abiotic formation of meso- and DL-tartrates in 80% yield via the cyanide-catalyzed dimerization of glyoxylate under alkaline conditions is demonstrated. A detailed mechanism for this conversion is proposed, supported by NMR evidence and (13)C-labeled reactions. Simple dehydration of tartrates to oxaloacetate and an ensuing decarboxylation to form pyruvate are known processes that provide a ready feedstock for entry into the citric acid cycle. While glyoxylate and high hydroxide concentration are atypical in the prebiotic literature, there is evidence for natural, abiotic availability of each. It is proposed that this availability, coupled with the remarkable efficiency of tartrate production from glyoxylate, merits consideration of an alternative prebiotic pathway for providing constituents of the citric acid cycle.

Organic aqueous tunable solvents (OATS): a vehicle for coupling reactions and separations.

In laboratory-based chemical synthesis, the choice of the solvent and the means of product purification are rarely determined by cost or environmental impact considerations. When a reaction is scaled up for industrial applications, however, these choices are critical: the separation of product from the solvent, starting materials, and byproduct usually constitutes 60-80% of the overall cost of a process. In response, researchers have developed solvents and solvent-handling methods to optimize both the reaction and the subsequent separation steps on the manufacturing scale. These include "switchable" solvents, which are designed so that their physical properties can be changed abruptly, as well as "tunable" solvents, wherein the solvent's properties change continuously through the application of an external stimulus. In this Account, we describe the organic aqueous tunable solvent (OATS) system, examining two instructive and successful areas of application of OATS as well as its clear potential for further refinement. OATS systems address the limitations of biphasic processes by optimizing reactions and separations simultaneously. The reaction is performed homogeneously in a miscible aqueous-organic solvent mixture, such as water-tetrahydrofuran (THF). The efficient product separation is conducted heterogeneously by the simple addition of modest pressures of CO(2) (50-60 bar) to the system. Under these conditions, the water-THF phase splits into two relatively immiscible phases: the organic THF phase contains the hydrophobic product, and the aqueous phase contains the hydrophilic catalyst. We take advantage of the unique properties of OATS to develop environmentally benign and cost-competitive processes relevant in industrial applications. Specifically, we describe the use of OATS for optimizing the reaction, separation, design, and recycling of (i) Rh-catalyzed hydroformylation of olefins such as 1-octene and (ii) enzyme-catalyzed hydrolysis of 2-phenylacetate. We discuss the advantages of these OATS systems over more traditional processes. We also consider future directions that can be taken with these proven systems as well as related innovations that have recently been reported, including the use of poly(ethylene glycol) (PEG) as a tunable adjunct in the solvent and the substitution of propane for CO(2) as the external stimulus. OATS systems in fact represent the ultimate goal for a sustainable process, because in an idealized setup there is only reactant coming in and product going out; in principle, there is no waste stream.

Combining homogeneous catalysis with heterogeneous separation using tunable solvent systems.

Tunable solvent systems couple homogeneous catalytic reactions to heterogeneous separations, thereby combining multiple unit operations into a single step and subsequently reducing waste generation and improving process economics. In addition, tunable solvents can require less energy than traditional separations, such as distillation. We extend the impact of such solvents by reporting on the application of two previously described carbon dioxide tunable solvent systems: polyethylene glycol (PEG)/organic tunable solvents (POTS) and organic/aqueous tunable solvents (OATS). In particular, we studied: (1) the palladium catalyzed carbon-oxygen coupling of 1-bromo-3,5-dimethylbenzene and o-cresol to potassium hydroxide to produce o-tolyl-3,5-xylyl ether and 1-bromo-3,5-di-tert-butylbenzene to potassium hydroxide to produce 3,5-di-tert-butylphenol in PEG400/1,4-dioxane/water and (2) the rhodium-catalyzed hydroformylation of p-methylstyrene in water/acetonitrile to form 2-(p-tolyl) propanal. In addition, we introduce a novel tunable solvent system based on a modified OATS where propane replaces carbon dioxide. This represents the first use of propane in a tunable solvent system.

Combining the benefits of homogeneous and heterogeneous catalysis with tunable solvents and nearcritical water.

The greatest advantage of heterogeneous catalysis is the ease of separation, while the disadvantages are often limited activity and selectivity. We report solvents that use tunable phase behavior to achieve homogeneous catalysis with ease of separation. Tunable solvents are homogeneous mixtures of water or polyethylene glycol with organics such as acetonitrile, dioxane, and THF that can be used for homogeneously catalyzed reactions. Modest pressures of a soluble gas, generally CO2, achieve facile post-reaction heterogeneous separation of products from the catalyst. Examples shown here are rhodium-catalyzed hydroformylation of 1-octene and p-methylstyrene and palladium catalyzed C-O coupling to produce o-tolyl-3,5-xylyl ether and 3,5-di-tert-butylphenol. Both were successfully carried out in homogeneous tunable solvents followed by separation efficiencies of up to 99% with CO2 pressures of 3 MPa. Further examples in tunable solvents are enzyme catalyzed reactions such as kinetic resolution of rac-1-phenylethyl acetate and hydrolysis of 2-phenylethyl acetate (2PEA) to 2-phenylethanol (2PE). Another tunable solvent is nearcritical water (NCW), whose unique properties offer advantages for developing sustainable alternatives to traditional processes. Some examples discussed are Friedel-Crafts alkylation and acylation, hydrolysis of benzoate esters, and water-catalyzed deprotection of N-Boc-protected amine compounds.

A blueprint for academic labs to produce SARS-CoV-2 RT-qPCR test kits.

Widespread testing for the presence of the novel coronavirus SARS-CoV-2 in individuals remains vital for controlling the COVID-19 pandemic prior to the advent of an effective treatment. Challenges in testing can be traced to an initial shortage of supplies, expertise and/or instrumentation necessary to detect the virus by quantitative reverse transcription polymerase chain reaction (RT-qPCR), the most robust, sensitive, and specific assay currently available. Here we show that academic biochemistry and molecular biology laboratories equipped with appropriate expertise and infrastructure can replicate commercially available SARS-CoV-2 RT-qPCR test kits and backfill pipeline shortages. The Georgia Tech COVID-19 Test Kit Support Group, composed of faculty, staff, and trainees across the biotechnology quad at Georgia Institute of Technology, synthesized multiplexed primers and probes and formulated a master mix composed of enzymes and proteins produced in-house. Our in-house kit compares favorably to a commercial product used for diagnostic testing. We also developed an environmental testing protocol to readily monitor surfaces across various campus laboratories for the presence of SARS-CoV-2. Our blueprint should be readily reproducible by research teams at other institutions, and our protocols may be modified and adapted to enable SARS-CoV-2 detection in more resource-limited settings.

Reversible in situ catalyst formation.

Acid catalysts play a vital role in the industrial synthesis and production of a plethora of organic chemicals. But, their subsequent neutralization and disposal is also a giant source of waste. For example, for a Friedel-Crafts acylation with AlCl 3, a kilogram of product yields up to 20 kg of (contaminated) waste salt. Other processes are even worse, and this waste is both an environmental and economic shortcoming. Here we address this issue by showing a series of acid catalysts where the neutralization is "built in" to the system and thus eliminates waste. Clearly these will not replace all organic and mineral acid catalysts, but they can replace many. Further, we show how these self-neutralizing catalysts can often eliminate unwanted byproducts, improve selectivity, or elimination of mass transfer limitations by changing from heterogeneous to homogeneous systems. They readily facilitate separations and promote recycling, to promote both green chemistry and good economics. First is near-critical water, or liquid water under pressure, where the K W for dissociation goes up 3-4 decades between 0 degrees C and 250 degrees C, thus facilitating both acid and base catalysis. Moreover, as the exothermic hydrogen bonding diminishes, the dielectric constant goes down to the point at which both salts and organics are soluble in this very hot water. For example, toluene and water are completely miscible at 305 degrees C. This eliminates mass transfer limitations for the reactions, and postreaction cooling not only lowers the K W to neutralize the ions without waste but also results in facile separations from simple liquid-liquid immiscibility. Further, we show the formation of catalysts with alkylcarbonic acids from alcohols and CO2, analogous to carbonic acid from water and CO2. We show a number of applications for these self-neutralizing catalysts, including the formation of ketals, the formation of diazonium intermediates to couple with electron-rich aromatics to produce dye molecules, and the hydration of beta-pinene. Here also these systems often enhance phase behavior to cut mass transfer resistance. In an analogous application we show that peroxide and CO2 gives peroxycarbonic acid, also reversible upon the removal of the CO2, and we show application to epoxidation reactions. The bottom line is that these catalysts afford profound advantages for both green chemistry and improved economics. The methods outlined here have potential for abundant applications, and we hope that this work will motivate such opportunities.

One-component, switchable ionic liquids derived from siloxylated amines.

A new class of one-component, thermally reversible, neutral to ionic liquid solvents derived from siloxylated amines is presented and characterized.

Continuous Flow Chemistry: Reaction of Diphenyldiazomethane with p-Nitrobenzoic Acid.

Continuous flow technology has been identified as instrumental for its environmental and economic advantages leveraging superior mixing, heat transfer and cost savings through the "scaling out" strategy as opposed to the traditional "scaling up". Herein, we report the reaction of diphenyldiazomethane with p-nitrobenzoic acid in both batch and flow modes. To effectively transfer the reaction from batch to flow mode, it is essential to first conduct the reaction in batch. As a consequence, the reaction of diphenyldiazomethane was first studied in batch as a function of temperature, reaction time, and concentration to obtain kinetic information and process parameters. The glass flow reactor set-up is described and combines two types of reaction modules with "mixing" and "linear" microstructures. Finally, the reaction of diphenyldiazomethane with p-nitrobenzoic acid was successfully conducted in the flow reactor, with up to 95% conversion of the diphenyldiazomethane in 11 min. This proof of concept reaction aims to provide insight for scientists to consider flow technology's competitiveness, sustainability, and versatility in their research.

High-pressure sapphire cell for phase equilibria measurements of CO2/organic/water systems.

The high pressure sapphire cell apparatus was constructed to visually determine the composition of multiphase systems without physical sampling. Specifically, the sapphire cell enables visual data collection from multiple loadings to solve a set of material balances to precisely determine phase composition. Ternary phase diagrams can then be established to determine the proportion of each component in each phase at a given condition. In principle, any ternary system can be studied although ternary systems (gas-liquid-liquid) are the specific examples discussed herein. For instance, the ternary THF-Water-CO2 system was studied at 25 and 40 °C and is described herein. Of key importance, this technique does not require sampling. Circumventing the possible disturbance of the system equilibrium upon sampling, inherent measurement errors, and technical difficulties of physically sampling under pressure is a significant benefit of this technique. Perhaps as important, the sapphire cell also enables the direct visual observation of the phase behavior. In fact, as the CO2 pressure is increased, the homogeneous THF-Water solution phase splits at about 2 MPa. With this technique, it was possible to easily and clearly observe the cloud point and determine the composition of the newly formed phases as a function of pressure. The data acquired with the sapphire cell technique can be used for many applications. In our case, we measured swelling and composition for tunable solvents, like gas-expanded liquids, gas-expanded ionic liquids and Organic Aqueous Tunable Systems (OATS)(1-4). For the latest system, OATS, the high-pressure sapphire cell enabled the study of (1) phase behavior as a function of pressure and temperature, (2) composition of each phase (gas-liquid-liquid) as a function of pressure and temperature and (3) catalyst partitioning in the two liquid phases as a function of pressure and composition. Finally, the sapphire cell is an especially effective tool to gather accurate and reproducible measurements in a timely fashion.

Design, synthesis, and evaluation of nonaqueous silylamines for efficient CO2 capture.

A series of silylated amines have been synthesized for use as reversible ionic liquids in the application of post-combustion carbon capture. We describe a molecular design process aimed at influencing industrially relevant carbon capture properties, such as viscosity, temperature of reversal, and enthalpy of regeneration, while maximizing the overall CO2 -capture capacity. A strong structure-property relationship among the silylamines is demonstrated in which minor structural modifications lead to significant changes in the bulk properties of the reversible ionic liquid formed from reaction with CO2 .

The synthesis and the chemical and physical properties of non-aqueous silylamine solvents for carbon dioxide capture.

Silylamine reversible ionic liquids were designed to achieve specific physical properties in order to address effective CO2 capture. The reversible ionic liquid systems reported herein represent a class of switchable solvents where a relatively non-polar silylamine (molecular liquid) is reversibly transformed to a reversible ionic liquid (RevIL) by reaction with CO2 (chemisorption). The RevILs can further capture additional CO2 through physical absorption (physisorption). The effects of changes in structure on (1) the CO2 capture capacity (chemisorption and physisorption), (2) the viscosity of the solvent systems at partial and total conversion to the ionic liquid state, (3) the energy required for reversing the CO2 capture process, and (4) the ability to recycle the solvents systems are reported.

Novel solvents for sustainable production of specialty chemicals.

We discuss novel solvents that improve the sustainability of various chemical reactions and processes. These alternative solvents include organic-aqueous tunable solvents; near-critical water; switchable piperylene sulfone, a volatile dimethylsulfoxide substitute; and reversible ionic liquids. These solvents are advantageous to a wide variety of reactions because they reduce waste and energy demand by coupling homogeneous reactions with heterogeneous separations, acting as in situ acid or base catalysts, and providing simple and efficient postreaction separations.

Regioselective syntheses of 2,3,4-tribromopyrrole and 2,3,5-tribromopyrrole.

2,3,4-Tribromopyrrole (1) and 2,3,5-tribromopyrrole (2) were each synthesized from pyrrole. Spectral data and antifeedant effects for synthetic 1 and the antipredatory chemical defense compound of the marine hemichordate Saccoglossus kowalevskii were in agreement, confirming the structure of the deterrent natural product as 1. Spectral data for 2 differed from synthetic and natural 1.