Conductance of a biomolecular wire

Molecular Graphene Nanoribbon Junctions

One of the challenges for the realization of molecular electronics is the design of nanoscale molecular wires displaying long-range charge transport. Graphene nanoribbons are an attractive platform for the development of molecular wires with long-range conductance owing to their unique electrical properties. Despite their potential, the charge transport properties of single nanoribbons remain underexplored. Herein, we report a synthetic approach to prepare N-doped pyrene-pyrazinoquinoxaline molecular graphene nanoribbons terminated with diamino anchoring groups at each end. These terminal groups allow for the formation of stable molecular graphene nanoribbon junctions between two metal electrodes that were investigated by scanning tunneling microscope-based break-junction measurements. The experimental and computational results provide evidence of long-range tunneling charge transport in these systems characterized by a shallow conductance length dependence and electron tunneling through >6 nm molecular backbone.

Application potential of Vaccinium ashei R. for cadmium migration retention in the mining area soil

Despite numerous reports on phytoremediation of heavy metals contaminated soil, there are few reports on plant retention of heavy metals in the mining area slope. This study was the first of its kind to explore the cadmium (Cd) retention capacity of the blueberry (Vaccinium ashei Reade). Firstly, we investigated the stress response of blueberry to different soil Cd concentrations (1, 5, 10, 15, 20 mg/kg) to assess its potential for phytoremediation by pot experiments. The results showed that the blueberry biomass exposed to 10 and 15 mg/kg Cd was significantly increased compared with the control (1 mg/kg Cd); the blueberry crown increased by 0.40% and 0.34% in 10 and 15 mg/kg Cd-contaminated soil, respectively, compared with control; the blueberry heigh did not even change significantly in each treatment group; the total chlorophyll content, peroxidase and catalase activity of blueberry were enhanced in 5-20 mg/kg Cd treatments. Furthermore, the Cd contents of blueberry in the root, stem and leaf increased significantly as the Cd concentration of soil increased. We found that more Cd accumulated in blueberry root: the bioaccumulation concentration factor was root > stem > leaf for all groups; the residual-Cd (Cd speciation) in soil increased by 3.83%-411.11% in blueberry-planted versus unplanted groups; blueberry improved the Cd-contaminated soil micro-ecological environment including soil organic matter, available K and P, as well as microbial communities. Then, to investigate the effect of blueberry cultivation on Cd migration, we developed a bioretention model and revealed that soil Cd transport along the model slope was significantly weakened by blueberry cultivation, especially at the bottom of the model. In a word, this research suggests a promising method for the phytoremediation of Cd-contaminated soil and the reduction of Cd migration in mining areas.

Living electronics: A catalogue of engineered living electronic components

Biology leverages a range of electrical phenomena to extract and store energy, control molecular reactions and enable multicellular communication. Microbes, in particular, have evolved genetically encoded machinery enabling them to utilize the abundant redox-active molecules and minerals available on Earth, which in turn drive global-scale biogeochemical cycles. Recently, the microbial machinery enabling these redox reactions have been leveraged for interfacing cells and biomolecules with electrical circuits for biotechnological applications. Synthetic biology is allowing for the use of these machinery as components of engineered living materials with tuneable electrical properties. Herein, we review the state of such living electronic components including wires, capacitors, transistors, diodes, optoelectronic components, spin filters, sensors, logic processors, bioactuators, information storage media and methods for assembling these components into living electronic circuits.

Biodegradable bioelectronics for biomedical applications

Biodegradable polymers have been widely used in tissue engineering with the potential to be replaced by regenerative tissue. While conventional bionic interfaces are designed to be implanted in living tissue and organs permanently, biocompatible and biodegradable electronic materials are now progressing a paradigm shift towards transient and regenerative bionic engineering. For example, biodegradable bioelectronics can monitor physiologies in a body, transiently rehabilitate disease symptoms, and seamlessly form regenerative interfaces from synthetic electronic devices to tissues by reducing inflammatory foreign-body responses. Conventional electronic materials have not readily been considered biodegradable. However, several strategies have been adopted for designing electroactive and biodegradable materials systems: (1) conductive materials blended with biodegradable components, (2) molecularly engineered conjugated polymers with biodegradable moieties, (3) naturally derived conjugated biopolymers, and (4) aqueously dissolvable metals with encapsulating layers. In this review, we endeavor to present the technical bridges from electrically active and biodegradable material systems to edible and biodegradable electronics as well as transient bioelectronics with pre-clinical bio-instrumental applications, including biodegradable sensors, neural and tissue engineering, and intelligent drug delivery systems.

Electrochemical gating for single-molecule electronics with hybrid Au|graphene contacts

The single-molecular conductance of a redox active viologen molecular bridge between Au|graphene electrodes has been studied in an electrochemical gating configuration in an ionic liquid medium. A clear "off-on-off" conductance switching behaviour has been achieved through gating of the redox state when the electrochemical potential is swept. The Au|viologen|graphene junctions show single-molecule conductance maxima centred close to the equilibrium redox potentials for both reduction steps. The peak conductance of Au|viologen|graphene junctions during the first reduction is significantly higher than that of previously measured Au|viologen|Au junctions. This shows that even though the central viologen moiety is not directly linked to the enclosing electrodes, substituting one gold contact for a graphene one nevertheless has a significant impact on junction conductance values. The experimental data was compared against two theoretical models, namely a phase coherent tunnelling and an incoherent "hopping" model. The former is a simple gating monoelectronic model within density functional theory (DFT) which discloses the charge state evolution of the molecule with electrode potential. The latter model is the collective Kuznetsov Ulstrup model for 2-step sequential charge transport through the redox centre in the adiabatic limit. The comparison of both models to the experimental data is discussed for the first time. This work opens perspectives for graphene-based molecular transistors with more effective gating and fundamental understanding of electrochemical electron transfer at the single molecular level.

Achieving Ultralow, Zero, and Inverted Tunneling Attenuation Coefficients in Molecular Wires with Extended Conjugation

Molecular tunnel junctions are organic devices miniaturized to the molecular scale. They serve as a versatile toolbox that can systematically examine charge transport behaviors at the atomic level. The electrical conductance of the molecular wire that bridges the two electrodes in a junction is significantly influenced by its chemical structure, and an intrinsically poor conductance is a major barrier for practical applications toward integrating individual molecules into electronic circuitry. Therefore, highly conjugated molecular wires are attractive as active components for the next-generation electronic devices, owing to the narrow highest occupied molecular orbital-lowest occupied molecular orbital gaps provided by their extended π-building blocks. This article aims to highlight the significance of highly conductive molecular wires in molecular electronics, the structures of which are inspired from conductive organic polymers, and presents a body of discussion on molecular wires exhibiting ultralow, zero, or inverted attenuation of tunneling probability at different lengths, along with future directions.

Unusual Length Dependence of the Conductance in Cumulene Molecular Wires

Cumulenes are sometimes described as "metallic" because an infinitely long cumulene would have the band structure of a metal. Herein, we report the single-molecule conductance of a series of cumulenes and cumulene analogues, where the number of consecutive C=C bonds in the core is n=1, 2, 3, and 5. The [n]cumulenes with n=3 and 5 have almost the same conductance, and they are both more conductive than the alkene (n=1). This is remarkable because molecular conductance normally falls exponentially with length. The conductance of the allene (n=2) is much lower, because of its twisted geometry. Computational simulations predict a similar trend to the experimental results and indicate that the low conductance of the allene is a general feature of [n]cumulenes where n is even. The lack of length dependence in the conductance of [3] and [5]cumulenes is attributed to the strong decrease in the HOMO-LUMO gap with increasing length.

Near Length-Independent Conductance in Polymethine Molecular Wires

Polymethine dyes are linear π-conjugated compounds with an odd number of carbons that display a much greater delocalization in comparison to polyenes that have an even number of carbon atoms in their main chain. Herein, we perform scanning tunneling microscope based break-junction measurements on a series of three cyanine dyes of increasing length. We demonstrate, at the single molecule level, that these short chain polymethine systems exhibit a substantially smaller decay in conductance with length (attenuation factor β = 0.04 Å^-1) compared to traditional polyenes (β ≈ 0.2 Å^-1). Furthermore, we show that by changing solvent we are able to shift the β value, demonstrating a remarkable negative β value, with conductance increasing with molecular length. First principle calculations provide support for the experimentally observed near-uniform length dependent conductance and further suggest that the variations in β with solvent are due to solvent-induced changes in the alignment of the frontier molecular orbitals relative to the Fermi energy of the leads. A simplified Hückel model suggests that the smaller decay in conductance correlates with the smaller degree of bond order alternation present in polymethine compounds compared to polyenes. These findings may enable the design of molecular wires without a length-dependent decay for efficient electron transport at the nanoscale.

Multi-dimensional charge transport in supramolecular helical foldamer assemblies

Aromatic foldamers are bioinspired architectures whose potential use in materials remains largely unexplored. Here we report our investigation of vertical and horizontal charge transport over long distances in helical oligo-quinolinecarboxamide foldamers organized as single monolayers on Au or SiO2. Conductive atomic force microscopy showed that vertical conductivity is efficient and that it displays a low attenuation with foldamer length (0.06 Å-1). In contrast, horizontal charge transport is found to be negligible, demonstrating the strong anisotropy of foldamer monolayers. Kinetic Monte Carlo calculations were used to probe the mechanism of charge transport in these helical molecules and revealed the presence of intramolecular through-space charge transfer integrals approaching those found in pentacene and rubrene crystals, in line with experimental results. Kinetic Monte Carlo simulations of charge hopping along the foldamer chain evidence the strong contribution of multiple 1D and 3D pathways in these architectures and their dependence on conformational order. These findings show that helical foldamer architectures may provide a route for achieving charge transport over long distance by combining multiple charge transport pathways.

Synthesis and Single-Molecule Conductance Study of Redox-Active Ruthenium Complexes with Pyridyl and Dihydrobenzo[b]thiophene Anchoring Groups

The ancillary ligands 4'-(4-pyridyl)-2,2':6',2''-terpyridine and 4'-(2,3-dihydrobenzo[b]thiophene)-2,2'-6',2"-terpyridine were used to synthesize two series of mono- and dinuclear ruthenium complexes differing in their lengths and anchoring groups. The electrochemical and single-molecular conductance properties of these two series of ruthenium complexes were studied experimentally by means of cyclic voltammetry and the scanning tunneling microscopy-break junction technique (STM-BJ) and theoretically by means of density functional theory (DFT). Cyclic voltammetry data showed clear redox peaks corresponding to both the metal- and ligand-related redox reactions. Single-molecular conductance demonstrated an exponential decay of the molecular conductance with the increase in molecular length for both the series of ruthenium complexes, with decay constants of βPY =2.07±0.1 nm(-1) and βBT =2.16±0.1 nm(-1) , respectively. The contact resistance of complexes with 2,3-dihydrobenzo[b]thiophene (BT) anchoring groups is found to be smaller than the contact resistance of ruthenium complexes with pyridine (PY) anchors. DFT calculations support the experimental results and provided additional information on the electronic structure and charge transport properties in those metal|ruthenium complex|metal junctions.

Exponential Attenuation of Through-Bond Transmission in a Polyene: Theory and Potential Realizations

An exponential falloff with separation of electron transfer and transport through molecular wires is observed and has attracted theoretical attention. In this study, the attenuation of transmission in linear and cyclic polyenes is related to bond alternation. The explicit form of the zeroth Green's function in a Hückel model for bond-alternated polyenes leads to an analytical expression of the conductance decay factor β. The β values calculated from our model (β(CN) values, per repeat unit of double and single bond) range from 0.28 to 0.37, based on carotenoid crystal structures. These theoretical β values are slightly smaller than experimental values. The difference can be assigned to the effect of anchoring groups, which are not included in our model. A local transmission analysis for cyclic polyenes, and for [14]annulene in particular, shows that bond alternation affects dramatically not only the falloff behavior but also the choice of a transmission pathway by electrons. Transmission follows a well-demarcated system of π bonds, even when there is a shorter-distance path with roughly the same kind of "electronic matter" intervening.

Bridge- and solvent-mediated intramolecular electronic communications in ubiquinone-based biomolecular wires

Intramolecular electronic communications of molecular wires play a crucial role for developing molecular devices. In the present work, we describe different degrees of intramolecular electronic communications in the redox processes of three ubiquinone-based biomolecular wires (Bis-CoQ₀s) evaluated by electrochemistry and Density Functional Theory (DFT) methods in different solvents. We found that the bridges linkers have a significant effect on the electronic communications between the two peripheral ubiquinone moieties and solvents effects are limited and mostly depend on the nature of solvents. The DFT calculations for the first time indicate the intensity of the electronic communications during the redox processes rely on the molecular orbital elements V_L for electron transfer (half of the energy splitting of the LUMO and LUMO+1), which is could be affected by the bridges linkers. The DFT calculations also demonstrates the effect of solvents on the latter two-electron transfer of Bis-CoQ₀s is more significant than the former two electrons transfer as the observed electrochemical behaviors of three Bis-CoQ₀s. In addition, the electrochemistry and theoretical calculations reveal the intramolecular electronic communications vary in the four-electron redox processes of three Bis-CoQ₀s.

Multinuclear metal-binding ability of a carotene

Carotenes are naturally abundant unsaturated hydrocarbon pigments, and their fascinating physical and chemical properties have been studied intensively not only for better understanding of the roles in biological processes but also for the use in artificial chemical systems. However, their metal-binding ability has been virtually unexplored. Here we report that β-carotene has the ability to assemble and align ten metal atoms to afford decanuclear homo- and heterometal chain complexes. The metallo–carotenoid framework shows reversible metalation–demetalation reactivity with multiple metals, which allows us to control the size of metal chains as well as the heterobimetallic composition and arrangement of the carotene-supported metal chains.

Carotenes are naturally abundant, widely studied unsaturated hydrocarbon pigments but their metal-binding ability has been virtually unexplored. Here, the authors demonstrate that they can be used to reversibly assemble and align homo- and hetero-metallic decanuclear chain complexes.

Temperature-dependent in-plane structure formation of an X-shaped bolapolyphile within lipid bilayers

Polyphilic compound B12 is an X-shaped molecule with a stiff aromatic core, flexible aliphatic side chains, and hydrophilic end groups. Forming a thermotropic triangular honeycomb phase in the bulk between 177 and 182 °C but no lyotropic phases, it is designed to fit into DPPC or DMPC lipid bilayers, in which it phase separates at room temperature, as observed in giant unilamellar vesicles (GUVs) by fluorescence microscopy. TEM investigations of bilayer aggregates support the incorporation of B12 into intact membranes. The temperature-dependent behavior of the mixed samples was followed by differential scanning calorimetry (DSC), FT-IR spectroscopy, fluorescence spectroscopy, and X-ray scattering. DSC results support in-membrane phase separation, where a reduced main transition and new B12-related transitions indicate the incorporation of lipids into the B12-rich phase. The phase separation was confirmed by X-ray scattering, where two different lamellar repeat distances are visible over a wide temperature range. Polarized ATR-FTIR and fluorescence anisotropy experiments support the transmembrane orientation of B12, and FT-IR spectra further prove a stepwise "melting" of the lipid chains. The data suggest that in the B12-rich domains the DPPC chains are still rigid and the B12 molecules interact with each other via π-π interactions. All results obtained at temperatures above 75 °C confirm the formation of a single, homogeneously mixed phase with freely mobile B12 molecules.

Length dependence of electron transport through molecular wires – a first principles perspective

The length dependence of coherent electron transport through molecular wires is discussed in the context of a survey of state-of-the-art first principles calculation methods.

Electronic transport via proteins

A central vision in molecular electronics is the creation of devices with functional molecular components that may provide unique properties. Proteins are attractive candidates for this purpose, as they have specific physical (optical, electrical) and chemical (selective binding, self-assembly) functions and offer a myriad of possibilities for (bio-)chemical modification. This Progress Report focuses on proteins as potential building components for future bioelectronic devices as they are quite efficient electronic conductors, compared with saturated organic molecules. The report addresses several questions: how general is this behavior; how does protein conduction compare with that of saturated and conjugated molecules; and what mechanisms enable efficient conduction across these large molecules? To answer these questions results of nanometer-scale and macroscopic electronic transport measurements across a range of organic molecules and proteins are compiled and analyzed, from single/few molecules to large molecular ensembles, and the influence of measurement methods on the results is considered. Generalizing, it is found that proteins conduct better than saturated molecules, and somewhat poorer than conjugated molecules. Significantly, the presence of cofactors (redox-active or conjugated) in the protein enhances their conduction, but without an obvious advantage for natural electron transfer proteins. Most likely, the conduction mechanisms are hopping (at higher temperatures) and tunneling (below ca. 150-200 K).

Rudnev A, Moreno-García P, Baghernejad M, Huang C, Hong W, Wandlowski T. Promising anchoring groups for single-molecule conductance measurements

Qualitative and quantitative comparison of the results obtained with different anchoring groups reveals structural and mechanistic details of the different types of single molecular junctions.

Universal temperature crossover behavior of electrical conductance in a single oligothiophene molecular wire

We have observed and analyzed a universal temperature crossover behavior of electrical conductance in a single oligothiophene molecular wire. The crossover between the Arrhenius-type temperature dependence at high temperature and the temperature-invariant behavior at low temperature is found at a critical molecular wire length of 5.6 nm, where we found a change from the exponential length dependence to the length-invariant behavior. We have derived a scaling function analysis for the origin of the crossover behavior. After assuring that the analysis fits the explanation of the Keldysh Green's function calculation for the temperature dependence, we have applied it to our experimental results and found successfully that our scaling function gives a universal description of the temperature dependence for all over the temperature range.

Chemical recognition and binding kinetics in a functionalized tunnel junction

4(5)-(2-mercaptoethyl)-1H-imidazole-2-carboxamide is a molecule that has multiple hydrogen bonding sites and a short flexible linker. When tethered to a pair of electrodes, it traps target molecules in a tunnel junction. Surprisingly large recognition-tunneling signals are generated for all naturally occurring DNA bases A, C, G, T and 5-methyl-cytosine. Tunnel current spikes are stochastic and broadly distributed, but characteristic enough so that individual bases can be identified as a tunneling probe is scanned over DNA oligomers. Each base yields a recognizable burst of signal, the duration of which is controlled entirely by the probe speed, down to speeds of 1 nm s -1, implying a maximum off-rate of 3 s -1 for the recognition complex. The same measurements yield a lower bound on the on-rate of 1 M -1 s -1. Despite the stochastic nature of the signals, an optimized multiparameter fit allows base calling from a single signal peak with an accuracy that can exceed 80% when a single type of nucleotide is present in the junction, meaning that recognition-tunneling is capable of true single-molecule analysis. The accuracy increases to 95% when multiple spikes in a signal cluster are analyzed.

Identifying single bases in a DNA oligomer with electron tunnelling

It has been proposed that single molecules of DNA could be sequenced by measuring the physical properties of the bases as they pass through a nanopore. Theoretical calculations suggest that electron tunnelling can identify bases in single-stranded DNA without enzymatic processing, and it was recently experimentally shown that tunnelling can sense individual nucleotides and nucleosides. Here, we report that tunnelling electrodes functionalized with recognition reagents can identify a single base flanked by other bases in short DNA oligomers. The residence time of a single base in a recognition junction is on the order of a second, but pulling the DNA through the junction with a force of tens of piconewtons would yield reading speeds of tens of bases per second.

Proteins as solid-state electronic conductors

Protein structures can facilitate long-range electron transfer in solution. But a fundamental question remains: can these structures also serve as solid-state electronic conductors? Answering this question requires methods for studying conductivity of the "dry" protein (which only contains tightly bound structured water molecules) sandwiched between two electronic conductors in a solid-state type configuration. If successful, such systems could serve as the basis for future, bioinspired electronic device technology. In this Account, we survey, analyze, and compare macroscopic and nanoscopic (scanning probe) solid-state conductivities of proteins, noting the inherent constraints of each of these, and provide the first status report on this research area. This analysis shows convincing evidence that "dry" proteins pass orders of magnitude higher currents than saturated molecules with comparable thickness and that proteins with known electrical activity show electronic conductivity, nearly comparable to that of conjugated molecules ("wires"). These findings suggest that the structural features of proteins must have elements that facilitate electronic conductivity, even if they do not have a known electron transfer function. As a result, proteins could serve not only as sensing, polar,or photoactive elements in devices (such as field-effect transistor configurations) but also as electronic conductors. Current knowledge of peptide synthesis and protein modification paves the way toward a greater understanding of how changes in a protein's structure affect its conductivity. Such an approach could minimize the need for biochemical cascades in systems such as enzyme-based circuits, which transduce the protein's response to electronic current. In addition, as precision and sensitivity of solid-state measurements increase, and as knowledge of the structure and function of "dry" proteins grows, electronic conductivity may become an additional approach to study electron transfer in proteins and solvent effects without the introduction of donor or acceptor moieties. We are particularly interested in whether evolution might have prompted the electronic carrier transport capabilities of proteins for which no electrically active function is known in their native biological environment and anticipate that further research may help address this fascinating question.

Recognition tunneling

Single molecules in a tunnel junction can now be interrogated reliably using chemically functionalized electrodes. Monitoring stochastic bonding fluctuations between a ligand bound to one electrode and its target bound to a second electrode ('tethered molecule-pair' configuration) gives insight into the nature of the intermolecular bonding at a single molecule-pair level, and defines the requirements for reproducible tunneling data. Simulations show that there is an instability in the tunnel gap at large currents, and this results in a multiplicity of contacts with a corresponding spread in the measured currents. At small currents (i.e. large gaps) the gap is stable, and functionalizing a pair of electrodes with recognition reagents (the 'free-analyte' configuration) can generate a distinct tunneling signal when an analyte molecule is trapped in the gap. This opens up a new interface between chemistry and electronics with immediate implications for rapid sequencing of single DNA molecules.

Self-assembled monolayers of thiols and dithiols on gold: new challenges for a well-known system

Self-assembled monolayers (SAMs) of alkanethiols and dialkanethiols on gold are key elements for building many systems and devices with applications in the wide field of nanotechnology. Despite the progress made in the knowledge of these fascinating two-dimensional molecular systems, there are still several "hot topics" that deserve special attention in order to understand and to control their physical and chemistry properties at the molecular level. This critical review focuses on some of these topics, including the nature of the molecule-gold interface, whose chemistry and structure remain elusive, the self-assembly process on planar and irregular surfaces, and on nanometre-sized objects, and the chemical reactivity and thermal stability of these systems in ambient and aqueous solutions, an issue which seriously limits their technological applications (375 references).

A hydrogen-bonded electron-tunneling circuit reads the base composition of unmodified DNA

Using a tunnel junction in which one electrode is guanidinium-functionalized (to trap DNA via hydrogen bonding to the backbone phosphates) and a second electrode which is functionalized with a base (to capture its complementary target on the DNA), current versus distance curves are obtained which yield an accurate measure of the base composition of DNA oligomers. With this long tunneling path, resolution is limited to sequence blocks of about twenty bases or larger, because of the need to form a large-area tunnel junction. A shorter hydrogen-bonded path across bases will be required for DNA sequencing. Nonetheless, these measurements point the way to a new type of nanoscale sensor.