Trianguleniums as Optical Probes for G‐Quadruplexes: A Photophysical,Electrochemical, and Computational Study

Nucleic acids can adopt non‐duplex topologies, such as G‐quadruplexes in vitro. Yet it has been challenging to establish their existence and function in vivo due to a lack of suitable tools. Recently, we identified the triangulenium compound DAOTA‐M2 as a unique fluorescence probe for such studies. This probe's emission lifetime is highly dependent on the topology of the DNA it interacts with opening up the possibility of carrying out live‐cell imaging studies. Herein, we describe the origin of its fluorescence selectivity for G‐quadruplexes. Cyclic voltammetry predicts that the appended morpholino groups can act as intra‐ molecular photo‐induced electron transfer (PET) quenchers. Photophysical studies show that a delicate balance between this effect and inter‐molecular PET with nucleobases is key to the overall fluorescence enhancement observed upon nucleic acid binding. We utilised computational modelling to demonstrate a conformational dependence of intra‐molecular PET. Finally, we performed orthogonal studies with a triangulenium compound, in which the morpholino groups were removed, and demonstrated that this change inverts triangulenium fluorescence selectivity from G‐quadruplex to duplex DNA, thus highlighting the importance of fine tuning the molecular structure not only for target affinity, but also for fluorescence response.     

Theoretical study of global and local reactivities of coumarin and its hydroxylated derivatives

Coumarins are bioactive substances of the benzo‐α‐pyrone family, which have shown antioxidant, antiviral, anti‐inflammatory and antitumor activities, among others. 7‐Hydroxycoumarin and 6,7‐dihydroxycoumarin (esculetin) are two coumarin derivatives that have been reported to exhibit antitumor activity, but the action mechanism underlying this activity remains unknown. In this work, to elucidate this mechanism, a theoretical study of the local and global electronic reactivity properties of a series of hydroxylated and dihydroxylated coumarin derivatives with possible antitumor action is performed using Density Functional Theory in aqueous solution. The substitution by one or two hydroxyl groups in the benzene ring of coumarin produces better charge‐donor than charge‐acceptor compounds. All the studied compounds are generally stable in water and exhibit permanent polarization in the solvent. With one hydroxyl substitution, 7‐hydroxycoumarin is the most polar and polarizable derivative, whereas 5,7‐dihydroxycoumarin is the most polar and polarizable compound with two hydroxyl substitutions. 5,7‐Dihydroxycoumarin is suggested to possess antitumor activity. © 2016 Wiley Periodicals, Inc.     

Saddle‐Shaped Cyclic Indole Tetramers: 3D Electroactive Molecules

We present a joint theoretical and experimental study of a series of cyclic indole tetramers aimed at understanding the fundamental electronic properties of this 3D platform and evaluating its potential in the construction of new semiconductors. To this end, we combined absorption and Raman spectroscopy, cyclic voltammetry, and spectroelectrochemistry with DFT calculations. Our results suggest that this platform can be easily and reversibly oxidized. Additionally, it has a HOMO that matches very well with the workfunction of gold, therefore charge injection from a gold electrode is expected to occur without significant barriers. Interestingly, the cyclic tetraindoles allow for good electron delocalization in spite of their saddle‐shaped structures. The steric constraints introduced by N‐substitution significantly inhibits ring inversion of the central cyclooctatetraene unit, whereas it only barely affects the optical and electrochemical properties (a slightly higher oxidation potential and a blueshifted absorption upon alkylation are observed).     

Unmixedness of some weighted oriented graphs

Journal of Algebraic Combinatorics - Let $$D=(G,\mathcal {O},w)$$ be a weighted oriented graph whose edge ideal is I(D). In this paper, we characterize the unmixed property of I(D) for each one of...     

Adjustment boarding and alighting passengers on a bus transit line using qualitative information

Obtaining data to use in an urban public transport operation planning and analysis is problematic, particularly in urban bus transit lines. In an urban environment and for bus services, most ticketing methods can be used to record passengers getting on board but not getting off, and current methods are unable to make a proper adjustment of boardings and alightings based on the available data unless they do alighting counts. This paper presents a method whereby counts are made at fewer stops and qualitative information on alightings and/or vehicle loads between consecutive stops is used to make the boarding and alighting adjustment as a previous step to obtain the real origin and destination (O/D) of passengers allowing the O/D matrix calibration by using the loads between stops. Qualitative information can be obtained by the vehicle’s driver or an on board observer, avoiding the necessity of counting many stops in planning period. The method is applied to a real bus transit line in Malaga (Spain) and to a set of 50 different bus transit lines with number of stops ranging from 10 to 75. The results show that the proposed method reduces the adjustment errors with regard to traditional methods, such as Least Square Method, even in the situation where no qualitative information is used. When qualitative data is used on alightings and loadings, the reduction of the average error is over 50%.