Influence of branch length asymmetry on the electrophoretic mobility of rigid rod-like DNA

The electrophoretic mobility of three-arm asymmetric star DNA molecules, produced by incorporating a short DNA branch at the midpoint of rigid-rod linear DNA fragments, is investigated in polyacrylamide gels. We determine how long the added branch must be to separate asymmetric star DNA from linear DNA with the same total molecular weight. This work focuses on two different geometric progressions of small DNA molecules. First, branches of increasing length were introduced at the center of a linear DNA fragment of constant length. At a given gel concentration, we find that relatively small branch lengths are enough to cause a detectable reduction in electrophoretic mobility. The second geometric progression starts with a small branch on a linear DNA fragment. As the length of this branch is increased, the DNA backbone length is decreased such that the total molar mass of the molecule remains constant. The branch length was then increased until the asymmetric branched molecule becomes a symmetric three-arm star polymer, allowing the effect of molecular topology on mobility to be studied independent of size effects. DNA molecules with very short branches have a mobility smaller than linear DNA of identical molar mass. The reason for this change in mobility when branching is introduced is not known, however, we explore two possible explanations in this article. (i) The branched DNA could have a greater interaction with the gel than linear DNA, causing it to move slower; (ii) the linear DNA could have modes of motion or access to pores that are unavailable to the branched DNA.     

Study of approximate coupled cluster methods for first-order static properties

In this paper, we analyse the algebraic structure of the equations for calculating the first order static properties using several approximate versions of Coupled Cluster (CC) methods. In particular, the non-variational and the variational method using a CC wavefunction corresponding to an appropriately defined perturbed Hamiltonian as well as the simple expectation value expression using a CC stationary state are studied under different approximations. Two different models are proposed: (a) use of maximum overlap orbitals where the pertinent approximations are TT ₂, T ⁽¹⁾ T ₂ ⁽¹⁾, (b) use of Hartree-Fock orbitals and T(T ₁+T ₂), T ⁽¹⁾(T ₁ ⁽¹⁾ +T ₂ ⁽¹⁾ ) approximations. It is analytically shown that in both these models certain approximate versions of the methods under purview yield identical results for first order static properties.NCL Communication No. 3725     

A variational coupled cluster theory for closed shells using a propagator modification procedure

A general partial summation method for including arbitrary classes of diagrams to all orders in the coupled cluster based size consistent energy functional for closed shell states is developed. Since the various reduced density matrices which appear in the energy functional are essentially the time-independent analogues of the corresponding many body Green functions, it is possible to derive Dyson-like equations for these quantities. By expanding the associated proper self energy parts in terms of the T-amplitudes, one can carry out partial summations in the reduced density matrices and thus in energy. At a higher level, higher order terms in a proper self energy can also be generated by renormalizing the internal propagators in it, and considering only the irreducible self-energy terms.     

Electrophoretic dynamics of large DNA stars in polymer solutions and gels

We have developed a procedure for synthesizing large stable branched DNA structures that enables visualization via fluorescence microscopy. Using this procedure we have synthesized large DNA stars and observed their electrophoretic behavior in polymer solutions and gels. In dilute polyacrylamide solutions, the DNA stars move as random coils and appear to experience only brief collisions with the polymer chains in solution. The effect of polymer solution concentration on the electrophoretic mobility of stars in the dilute regime is found to be in good accord with predictions of the transient entanglement coupling (TEC) model. In semidilute polymer solutions, the star arms extend in the field direction and drag the core through the matrix. The star arms form several U-shaped conformations as they collide and engage with polyacrylamide chains. The U-shaped conformations occasionally evolve into J-shaped conformations as the star arms slide off the matrix chains they engage during electrophoretic migration. In concentrated polymer solutions, the arms of the star extend and form V-shaped structures with the core as the apex. The arms then pull the core through the matrix. These V-shaped conformations are much longer-lived than U-shaped ones and, unlike the latter, do not transform to J-shaped conformations. In polyacrylamide and agarose gels, where matrix entanglements are fixed, DNA stars become trapped when entanglements with matrix molecules prevent the core from being pulled through the matrix by the extended arms. This trapping was observed at all gel concentrations and electric fields studied.     

Observation of Slow Relaxation and Single‐Molecule Toroidal Behavior in a Family of Butterfly‐Shaped Ln4 Complexes

A family of five isostructural butterfly complexes with a tetranuclear [Ln₄] core of the general formula [Ln₄(LH)₂(μ₂‐η¹η¹Piv)(η²‐Piv)(μ₃‐OH)₂]?x H₂O?y MeOH?z CHCl₃ ( 1 : Ln=Dy^III, x=2, y=2, z=0; 2 : Ln=Tb^III, x=0, y=0, z=6; 3 : Ln=Er^III, x=2, y=2, z=0; 4 : Ln=Ho^III, x=2, y=2, z=0; 5 : Ln=Yb^III, x=2, y=2, z=0; LH₄=6‐{[bis(2‐hydroxyethyl)amino]methyl}‐N′‐(2‐hydroxy‐3‐methoxybenzylidene)picolinohydrazide; PivH=pivalic acid) was isolated and characterized both structurally and magnetically. Complexes 1 – 5 were probed by direct and alternating current (dc and ac) magnetic susceptibility measurements and, except for 1 , they did not display single‐molecule magnetism (SMM) behavior. The ac magnetic susceptibility measurements show frequency‐dependent out‐of‐phase signals with one relaxation process for complex 1 and the estimated effective energy barrier for the relaxation process was found to be 49 K. We have carried out extensive ab initio (CASSCF+RASSI‐SO+SINGLE_ANISO+POLY_ANISO) calculations on all the five complexes to gain deeper insights into the nature of magnetic anisotropy and the presence and absence of slow relaxation in these complexes. Our calculations yield three different exchange coupling for these Ln₄ complexes and all the extracted J values are found to be weakly ferro/antiferromagentic in nature (J₁=+2.35, J₂=?0.58, and J₃=?0.29 cm^?1 for 1 ; J₁=+0.45, J₂=?0.68, and J₃=?0.29 cm^?1 for 2 ; J₁=+0.03, J₂=?0.98, and J₃=?0.19 cm^?1 for 3 ; J₁=+4.15, J₂=?0.23, and J₃=?0.54 cm^?1 for 4 and J₁=+0.15, J₂=?0.28, and J₃=?1.18 cm^?1 for 5 ). Our calculations reveal the presence of very large mixed toroidal moment in complex 1 and this is essentially due to the specific exchange topology present in this cluster. Our calculations also suggest presence of single‐molecule toroics (SMTs) in complex 2 . For complexes 3 – 5 on the other hand, the transverse anisotropy was computed to be large, leading to the absence of slow relaxation of magnetization. As the magnetic field produced by SMTs decays faster than the normal spin moments, the concept of SMTs can be exploited to build qubits in which less interference and dense packing are possible. Our systematic study on these series of Ln₄ complexes suggest how the ligand design can help to bring forth such SMT characteristics in lanthanide complexes.     

A Self-Healing Metal–Organic Hydrogel for an All-Solid Flexible Supercapacitor

A zinc containing metal–organic gel (Zn-MOG) with embedded free ions, which exhibits self-healing properties, has been synthesized for application in supercapacitors. The activated carbon-based flexible supercapacitor device with the MOG electrolyte has a broad potential window of 2.1 V, with high retention of specific capacitance compared to the traditional polyvinyl alcohol (PVA)-based gel. The Zn-MOG does not require an additional electrolyte. The sodium and sulphate ions embedded in the MOG are sufficient enough for the charge storage.     

Langmuir wave phase-mixing in warm electron-positron-dusty plasmas

An analytical study on nonlinear evolution of Langmuir waves in warm electron-positron-dusty plasmas is presented. The massive dust grains of either positively or negatively charged are assumed to form a fixed charge neutralizing background. A perturbative analysis of the fluid-Maxwell's equations confirms that the excited Langmuir waves phase-mix and eventually break, even at arbitrarily low amplitudes. It is shown that the nature of the dust-charge as well as the amount of dust grains can significantly influence the Langmuir wave phase-mixing process. The phase-mixing time is also found to increase with the temperature.     

A ligand free copper(II) catalyst is as effective as a ligand assisted Pd(II) catalyst towards intramolecular C–S bond formation via C–H functionalization

Copper(I) catalysts are usually ineffective on the other hand Pd(II) catalysts are quite effective in promoting intramolecular sp² C–H functionalization (C–S bond formation). Herein, we have developed a ligand assisted Pd(II) catalyzed C–S bond formation via C–H activation from arylthioureas leading to the formation of 2-aminobenzothiazoles for substrates bearing electron donating (EDG) groups in the aryl ring. However without the assistance of ligand this Pd(II) catalyzed reaction is quite unproductive particularly for thioureas possessing strongly electron donating groups in the aryl rings. Interestingly, the ligand free Cu(II) catalyzed oxidative cyclization of arylthioureas are equally effective both for arylthioureas possessing electron donating as well as electron withdrawing groups in the aryl rings.