Modelling aromatisation of (BN)nH2n azabora-annulenes.

Despite a long tradition of descriptions of borazine as an 'inorganic benzene', this molecule is a non-aromatic species according to the magnetic (ring-current) criterion. Borazine, borazocine, and the larger neutral (BN)nH2n azabora-annulene heterocycles in planar conformations, although π-isoelectronic with [2n]annulenes, support only localized induced currents in perpendicular magnetic fields. The π-current maps of these systems comprise superpositions of separate 'lone-pair' circulations on all nitrogen centres. For the systems with n > 4, planarity must be enforced by a constraint. Qualitative orbital analysis based on the ipsocentric approach to calculation of induced current density suggests that global induced currents could be produced through strategic changes to the π electron count. In ab initio calculations, azabora-annulenes with rings of size [8]- and larger were indeed found to support global diatropic ring currents in both anionic and cationic forms with (4N + 2) π electron counts. The planar conformation of the charged ring typically occupies a stationary point of higher order on the potential energy surface, rather than a minimum. However, the borazocine dianion, [B4N4H8]2-, occupies a planar minimum, supports a diatropic ring current of strength comparable to that in benzene, and is predicted to participate in sandwich compounds; it is therefore a good candidate for an aromatised azabora-annulene.

Raman Deuterium Isotope Probing Reveals Microbial Metabolism at the Single-Cell Level.

We illustrate that single-cell Raman microspectroscopy, coupled with deuterium isotope probing (Raman-DIP), provides a culture-independent and nondestructive approach to probe metabolic pathways of carbon substrates at the single-cell level. We found a distinguishable C-D vibration band at 2070-2300 cm-1 in single-cell Raman spectra (SCRS) when Escherichia coli used deuterated glucose and Pseudomonas sp. used deuterated naphthalene as sole carbon sources. The intensity of the C-D band is proportional to the extent of deuteration in the carbon source, and as little as 5% deuteration can be distinguished by analysis of SCRS. It suggests that Raman-DIP could be used to semiquantitatively and sensitively indicate the metabolism of deuterated carbon source in microbes. A lower lipid conversion rate of deuterated naphthalene compared to that of deuterated glucose was observed, presumably owing to different anabolic pathways and membrane alteration. Apart from the C-D band shift from C-H, SCRS also reveal several isotopic shifts of the phenylalanine band, of which the positions correlate well with a computational model. A reduction in phenylalanine deuteration in Pseudomonas sp. compared to that in E. coli is due to the dilution effect of different pathways of phenylalanine biosynthesis in Pseudomonas sp. Collectively, we demonstrate that Raman-DIP can not only indicate metabolic activity using deuterated carbon sources but also reveal different metabolic pathways by analyzing SCRS. By harnessing such low-cost and versatile deuterated substrates, Raman-DIP has the potential to probe a wide range of metabolic pathways and functions at the single-cell level.

Tracking heavy water (D2O) incorporation for identifying and sorting active microbial cells.

Microbial communities are essential to the function of virtually all ecosystems and eukaryotes, including humans. However, it is still a major challenge to identify microbial cells active under natural conditions in complex systems. In this study, we developed a new method to identify and sort active microbes on the single-cell level in complex samples using stable isotope probing with heavy water (D2O) combined with Raman microspectroscopy. Incorporation of D2O-derived D into the biomass of autotrophic and heterotrophic bacteria and archaea could be unambiguously detected via C-D signature peaks in single-cell Raman spectra, and the obtained labeling pattern was confirmed by nanoscale-resolution secondary ion MS. In fast-growing Escherichia coli cells, label detection was already possible after 20 min. For functional analyses of microbial communities, the detection of D incorporation from D2O in individual microbial cells via Raman microspectroscopy can be directly combined with FISH for the identification of active microbes. Applying this approach to mouse cecal microbiota revealed that the host-compound foragers Akkermansia muciniphila and Bacteroides acidifaciens exhibited distinctive response patterns to amendments of mucin and sugars. By Raman-based cell sorting of active (deuterated) cells with optical tweezers and subsequent multiple displacement amplification and DNA sequencing, novel cecal microbes stimulated by mucin and/or glucosamine were identified, demonstrating the potential of the nondestructive D2O-Raman approach for targeted sorting of microbial cells with defined functional properties for single-cell genomics.

Planar homotropenylium cation: a transition state with reversed aromaticity.

In contrast to the equilibrium structure of the homoaromatic C(s) homotropenylium cation, C8H9(+) (1), which supports a pinched diatropic ring current, the C(2v) transition state (2) for inversion of the methylene bridge of 1 is antiaromatic and supports a two-lobe paratropic π current, as detected by plotting B3LYP/6-31G** ipsocentric current maps. Participation of the bridge CH bonds is crucial for the change in global character of the current in the transition state, as shown by the quenching of its paratropicity on substitution of H by F. Orbital-based arguments allow rationalization of this transition between homoaromaticity and hyper(conjugative) antiaromaticity. More generally, the hyperconjugative ring current in a family of C(2v) planar-constrained geometries of (CR2)C(N-1)H(N-1)(q) homoannulenes (R = H, F) can be switched from paratropic (antiaromatic) to diatropic (aromatic) by variation of ring size, charge, and bridge substituent. An orbital-based counting rule accounts for these systematic trends.

Writing with ring currents: selectively hydrogenated polycyclic aromatics as finite models of graphene and graphane.

Alternating partial hydrogenation of the interior region of a polycyclic aromatic hydrocarbon gives a finite model system representing systems on the pathway from graphene to the graphane modification of the graphene sheet. Calculations at the DFT and coupled Hartree-Fock levels confirm that sp2 cycles of bare carbon centres isolated by selective hydrogenation retain the essentially planar geometry and electron delocalization of the annulene that they mimic. Delocalization is diagnosed by the presence of ring currents, as detected by ipsocentric calculation and visualization of the current density induced in the π system by a perpendicular external magnetic field. These induced 'ring' currents have essentially the same sense, strength and orbital origin as in the free hydrocarbon. Subjected to the important experimental proviso of the need for atomic-scale control of hydrogenation, this finding predicts the possibility of writing single, multiple and concentric diatropic and/or paratropic ring currents on the graphene/graphane sheet. The implication is that pathways for free flow of ballistic current can be modelled in the same way.

Concurrence between current density, nucleus-independent chemical shifts, and aromatic stabilization energy: the case of isomeric [4]- and [5]phenylenes.

The 17 isomers of the [4]- and [5]phenylenes have been studied with three different computational levels of current-density analysis (CDA) and by calculation of the out-of-plane contribution to nucleus-independent chemical shifts (NICS(πzz)). Current-density maps for these isomeric phenylenes are typically dominated by strong paratropic ring currents in four-membered rings. The relative energies of the isomers, which differ only through the effects of differential strain and aromaticity, were computed at the B3LYP/6-311G* computational level. It was found that the three levels of CDA correlate well among themselves and with NICS(πzz). The latter correlation is improved when the ring sum ΣNICS(πzz) for each isomer is correlated to the ring-current sum ΣJ extracted from CDA. The strain-corrected relative energies of the isomers correlate linearly with ΣNICS(πzz). In particular, the compatibility of different summed quantities with easily computed Hückel-London ring currents suggests a simply calculated measure for dealing with global aromaticity of polycyclic systems.

Stable isotope probing and Raman spectroscopy for monitoring carbon flow in a food chain and revealing metabolic pathway.

Accurately measuring carbon flows is a challenge for understanding processes such as diverse intracellular metabolic pathways and predator-prey interactions. Combined with stable isotope probing (SIP), single-cell Raman spectroscopy was demonstrated for the first time to link the food chain from carbon substrate to bacterial prey up to predators at the single-cell level in a quantitative and nondestructive manner. Escherichia coli OP50 with different (13)C content, which were grown in a mixture of (12)C- and fully carbon-labeled (13)C-glucose (99%) as a sole carbon source, were fed to the nematode. The (13)C signal in Caenorhabditis elegans was proportional to the (13)C content in E. coli. Two Raman spectral biomarkers (Raman bands for phenylalanine at 1001 cm(-1) and thymine at 747 cm(-1) Raman bands), were used to quantify the (13)C content in E. coli and C. elegans over a range of 1.1-99%. The phenylalanine Raman band was a suitable biomarker for prokaryotic cells and thymine Raman band for eukaryotic cells. A biochemical mechanism accounting for the Raman red shifts of phenylalanine and thymine in response to (13)C-labeling is proposed in this study and is supported by quantum chemical calculation. This study offers new insights of carbon flow via the food chain and provides a research tool for microbial ecology and investigation of biochemical pathways.