Roman Wrzalik

Adsorption of divalent metal ions from aqueous solutions using graphene oxide

The adsorptive properties of graphene oxide (GO) towards divalent metal ions (copper, zinc, cadmium and lead) were investigated. GO prepared through the oxidation of graphite using potassium dichromate was characterized by scanning electron microscopy (SEM), powder X-ray diffraction (XRD), X-ray photoelectron spectroscopy (XPS) and infrared spectroscopy (FT-IR). The results of batch experiments and measurements by flame atomic absorption spectrometry (F-AAS) indicate that maximum adsorption can be achieved in broad pH ranges: 3-7 for Cu(II), 5-8 for Zn(II), 4-8 for Cd(II), 3-7 for Pb(II). The maximum adsorption capacities of Cu(II), Zn(II), Cd(II) and Pb(II) on GO at pH = 5 are 294, 345, 530, 1119 mg g(-1), respectively. The competitive adsorption experiments showed the affinity in the order of Pb(II) > Cu(II) ≫ Cd(II) > Zn(II). Adsorption isotherms and kinetic studies suggest that sorption of metal ions on GO nanosheets is monolayer coverage and adsorption is controlled by chemical adsorption involving the strong surface complexation of metal ions with the oxygen-containing groups on the surface of GO. Chemisorption was confirmed by XPS (binding energy and shape of O1s and C1s peaks) of GO with adsorbed metal ions. The adsorption experiments show that the dispersibility of GO in water changes remarkably after complexation of metal ions. After adsorption, the tendency to agglomerate and precipitate is observed. Excellent dispersibility of GO and strong tendency of GO-Me(II) to precipitate open the path to removal of heavy metals from water solution. Potential application of GO in analytical chemistry as a solid sorbent for preconcentration of trace elements and in heavy metal ion pollution cleanup results from its maximum adsorption capacities that are much higher than those of any of the currently reported sorbents.

FibrilTool, an ImageJ plug-in to quantify fibrillar structures in raw microscopy images

Cell biology heavily relies on the behavior of fibrillar structures, such as the cytoskeleton, yet the analysis of their behavior in tissues often remains qualitative. Image analysis tools have been developed to quantify this behavior, but they often involve an image pre-processing stage that may bias the output and/or they require specific software. Here we describe FibrilTool, an ImageJ plug-in based on the concept of nematic tensor, which can provide a quantitative description of the anisotropy of fiber arrays and their average orientation in cells, directly from raw images obtained by any form of microscopy. FibrilTool has been validated on microtubules, actin and cellulose microfibrils, but it may also help analyze other fibrillar structures, such as collagen, or the texture of various materials. The tool is ImageJ-based, and it is therefore freely accessible to the scientific community and does not require specific computational setup. The tool provides the average orientation and anisotropy of fiber arrays in a given region of interest (ROI) in a few seconds.

Broadband Dielectric Relaxation Study at Ambient and Elevated Pressure of Molecular Dynamics of Pharmaceutical: Indomethacin

Broadband dielectric measurements on the pharmaceutical indomethacin (IMC) were performed at ambient and elevated pressure. Data on molecular dynamics collected at ambient pressure are in good agreement with that published in the literature. In the glassy state, there is a well-resolved secondary relaxation with Arrhenius activation energy E(a) = 38 kJ/mol. This commonly observed relaxation process (labeled gamma) is of intramolecular origin because it is pressure-insensitive. Closer analysis of the ambient pressure dielectric spectra obtained in the vicinity of the T(g) indicated the presence of one more secondary relaxation (beta), which is slower than that commonly observed. Application of the CM predictions enabled us to classify it as a true JG relaxation. Pressure measurements confirmed our supposition concerning the origins of the two secondary relaxations in IMC. Moreover, we have found that IMC under pressure does not crystallize, even at very high temperatures of T > or = 372 K. This finding was discussed in the framework of the two-order parameter model proposed by Tanaka (Konishi, T.; Tanaka, H. Phys. Rev B 2007, 76, 220201), as well as the JG relaxation proposal by Oguni (Hikima T.; Hanaya M.; Oguni M. J. Mol Struct. 1999, 479, 245). We also showed that the shape of the alpha-relaxation loss peak is the same when comparing dielectric spectra with the same tau(alpha) but obtained at ambient and elevated pressure. Additionally, we found out that the fragility of IMC decreases with increasing pressure. In addition, the pressure coefficient of the glass transition temperature, dT(g)/dP, was determined, and it is 255 K/GPa. Finally, we discuss the possibility of preparation of the amorphous state with higher density than by cooling of the liquid.

Theoretical DFT and experimental Raman and NMR studies on thiophene, 3-methylthiophene and selenophene

Abstract The results of extended MO calculations using density functional theory (DFT) approximation supported by experimental Raman, 1 H and 13 C NMR studies on thiophene are reported. Raman spectra of liquid thiophene were re-examined and the performance of a hybrid B3PW91 density functional was compared with the ab initio restricted Hartree–Fock (RHF) method. With the basis sets of the 6-311++G ∗∗ quality, the DFT calculated bond lengths, dipole moments and harmonic vibrations were predicted in a very good agreement with available experimental data. Additionally, the results on thiophene were extended by calculations on 3-methylthiophene and selenophene. In this case, a significant change in geometry and charge distribution in thiophene ring due to a methyl group substituent or replacement of sulphur by selene atom was observed. A linear correlation between the predicted harmonic vibrational frequencies (scaled using SQM method) and experimental ones for thiophene, selenophene and 3-methylthiophene was shown. The theoretically calculated spectra have satisfactorily reproduced the available experimental spectra for thiophene and selenophene.

Raman spectroscopic study of glutaraldehyde-stabilized collagen and pericardium tissue

For the first time, Raman spectroscopy has been employed to investigate formation of cross-links in collagen and porcine pericardium tissue upon glutaraldehyde (GA) treatment. GA treatment causes a very high fluorescence background, which overlaps Raman bands. It has been found that short fixation time, i.e. 2 h, reduces background radiation significantly, providing new possibilities for studying changes in molecular structure of collagen upon GA modification. The observed changes in position and intensity of Raman bands allowed us to recognize different types of GA–collagen interactions. Strong spectral evidence has been found for the peptide contribution to the formation of the GA–collagen cross-links and for the formation of secondary amines via Schiff base intermediates, and pyridinium-type cross-links. The results also revealed that different hydration levels and a more complex structure of intact tissue in comparison to collagen preparation strongly influence the formation of a GA cross-linking network, e.g. ether-type bond is preferred to form in a less hydrated collagen preparation. Our results have shown that GA treatment causes an increase in water content of pericardium tissue and collagen.

Lakargiite CaZrO3: A new mineral of the perovskite group from the North Caucasus, Kabardino-Balkaria, Russia

Abstract Lakargiite CaZrO3-the zirconium analog of perovskite [Pbnm, a = 5.556(1), b = 5.715(1), c = 7.960(1) Å, V 252.7(1) Å3, Z = 4]-was discovered as an accessory mineral in high-temperature skarns in carbonate-silicate rocks occurring as xenoliths in ignimbrites of the Upper-Chegem (Verkhniy Chegem) volcanic structure, the North Caucasus, Kabardino-Balkaria, Russia. Lakargiite forms pseudo-cubic crystals up to 30-35 μm in size and aggregates up to 200 μm. Lakargiite is associated with spurrite, larnite, calcio-olivine, calcite, cuspidine, rondorfite, reinhardbraunsite, wadalite, perovskite, and minerals of the ellestadite group. The new perovskite mineral belongs to the ternary solid solution CaZrO3-CaTiO3-CaSnO3 with a maximum CaZrO3 content of ca. 93%, maximum CaTiO3 content of 22%, and maximum CaSnO3 content of 20%. Significant impurities are Sc, Cr, Fe, Ce, La, Hf, Nb, U, and Th. Raman spectra of lakargiite are similar to those of the synthetic phase Ca(Zr,Ti)O3 with strong bands at 352, 437, 446, 554, and 748 cm-1. Lakargiite crystallized under sanidinite-facies conditions of contact metamorphism characterized by very high temperatures and low pressures.

Chegemite Ca7(SiO4)3(OH)2 – a new humite-group calcium mineral from the Northern Caucasus, Kabardino-Balkaria, Russia

The new mineral chegemite Ca7(SiO4)3(OH)2 ( Pbnm , Z = 4)1, a = 5.0696(1), b = 11.3955(1), c = 23.5571(3) A; V = 1360.91(4) A3 – the calcium and hydroxyl analogue of humite – was discovered as a rock-forming mineral in high-temperature skarns in calcareous xenoliths in ignimbrites of the Upper Chegem volcanic structure, Northern Caucasus, Kabardino-Balkaria, Russia. The chegemite forms granular aggregates with grain sizes up to 5 mm and is associated with various high-temperature minerals: larnite, spurrite, rondorfite, reinhardbraunsite, wadalite, lakargiite, and srebrodolskite, corresponding to the sanidinite metamorphic facies. The empirical formula of the holotype chegemite (mean of 68 analyses) is Ca7(Si0.997Ti0.003O4)3(OH)1.48F0.52. Chegemite is characterized by the following optical properties: 2VZ = −80(8)°, α = 1.621(2), β = 1.626(3), γ = 1.630(2); Δ = 0.009; density D calc = 2.892 g/cm3. The crystal structure, including hydrogen positions, has been refined from single-crystal Mo K α X-ray diffraction data to R = 2.2 %. Octahedral Ca–O distances are similar to those of γ-Ca2SiO4 (calcio-olivine). As is characteristic of OH-dominant humite-group minerals, two disordered H positions could be resolved. The main bands in the FTIR-spectra of chegemite are at 3550, 3542, 3475, 927, 906, 865, 820, 800, 756, 705, 653, 561, 519 and 437 cm−1. Those in non-polarized Raman spectra are at 389, 403, 526, 818, 923.5, 3478, 3551 and 3563 cm−1. The X-ray diffraction powder-pattern (Fe K α-radiation) shows the strongest lines {d \[A\]( I obs)} at: 1.907(10), 2.993(8), 2.700(8), 3.015(7), 2.720(7), 2.834(6), 3.639(5), and 3.040(5).

Vorlanite (CaU6+O4) - A new mineral from the Upper Chegem caldera, Kabardino-Balkaria, Northern Caucasus, Russia

Abstract The new mineral vorlanite, (CaU6+)O4, Dcalc = 7.29 g/cm3, H = 4-5, VHN10 = 360 kg/mm2, was found near the top of Mt. Vorlan in a calcareous skarn xenolith in ignimbrite of the Upper Chegem caldera in the Northern Caucasus, Kabardino-Balkaria, Russia. Vorlanite occurs as aggregates of black platy crystals up to 0.3 mm long with external symmetry 3̄m. The strongest powder diffraction lines are [d(Å)/(hkl)]: 3.107/(111), 2.691/(200), 1.903/(220), 1.623/(311), 1.235/(331), 1.203/(420), 1.098/(422), 0.910/(531). Single-crystal X-ray study gives isometric symmetry, space group Fm3̄m, a = 5.3813(2) Å, V = 155.834(10) Å3, and Z = 2. X-ray photoelectron spectroscopy indicate that all U in vorlanite is hexavalent. The mineral is isostructural with fluorite and uraninite (U4+O2). In contrast to synthetic rhombohedral CaUO4, and most U6+ minerals, the U6+ cations in vorlanite are present as disordered uranyl ions. [8]Ca2+ and [8]U6+ are disordered over a single site with average M-O = 2.33 Å. Vorlanite is believed to be a pseudomorphic replacement of originally rhombohedral CaUO4. We assume that this rhombohedral phase transformed by radiation damage to cubic CaUO4 (vorlanite). The new mineral is associated with larnite, chegemite, reinhardbraunsite, lakargiite, rondorfite, and wadalite, which are indicative of high-temperature formation (>800 °C) at shallow depth.

Elbrusite-(Zr)—A new uranian garnet from the Upper Chegem caldera, Kabardino-Balkaria, Northern Caucasus, Russia

Abstract Elbrusite-(Zr) Ca3(U6+Zr)(Fe3+2 Fe2+)O12, a new uranian garnet (Ia3̅d, a ≈ 12.55 Å, V ≈ 1977 Å3, Z = 8), within the complex solid solution elbrusite-kimzeyite-toturite Ca3(U,Zr,Sn,Ti,Sb,Sc,Nb...)2(Fe,Al,Si,Ti)3O12 was discovered in spurrite zones in skarn xenoliths of the Upper Chegem caldera. The empirical formula of holotype elbrusite-(Zr) with 25.14 wt% UO3 is (Ca3.040Th0.018Y0.001)Σ3.059(U6+0.658Zr1.040Sn0.230Hf0.009Mg0.004)Σ1.941(Fe3+1.575Fe2+0.559Al0.539Ti40.199Si0.099Sn0.025V5+0.004)Σ3O12. Associated minerals are spurrite, rondorfite, wadalite, kimzeyite, perovskite, lakargiite, ellestadite-(OH), hillebrandite, afwillite, hydrocalumite, ettringite group minerals, and hydrogrossular. Elbrusite-(Zr) forms grains up to 10-15 μm in size with dominant {110} and minor {211} forms. It often occurs as zones and spots within Fe3+-dominant kimzeyite crystals up to 20-30 μm in size. The mineral is dark-brown to black with a brown streak. The density calculated on the basis of the empirical formula is 4.801 g/cm3 The following broad bands are observed in the Raman spectra of elbrusite-(Zr): 730, 478, 273, 222, and 135 cm-1. Elbrusite-(Zr) is radioactive and nearly completely metamict. The calculated cumulative dose (α-decay events/mg) of the studied garnets varies from 2.50 × 1014 [is equivalent to 0.04 displacement per atom (dpa)] for uranian kimzeyite (3.36 wt% UO3), up to 2.05 × 1015 (0.40 dpa) for elbrusite-(Zr) with 27.09 wt% UO3.

Do Intermolecular Interactions Control Crystallization Abilities of Glass-Forming Liquids?

Broadband dielectric spectroscopy was used to investigate molecular dynamics of three very similar systems: D-glucose, α-pentaacetylglucose, and β-pentaacetylglucose in a wide range of temperatures. We found out that two latter systems (differing only in location of the acetyl group attached to the first carbon in the sugar ring) reveal completely opposite tendencies to crystallization. Therefore, the aim of this Article was to investigate in detail molecular dynamics of both pentaacetylglucoses to assess what are the underlying of different crystallization abilities of so closely related carbohydrates. To analyze the kinetics of crystallization, we used Avrami and Avramov approaches. Interestingly, we found out that both α-and β-pentaacetylglucose exhibit completely different crystallization mechanisms. In the first case, the value of Avrami exponent was estimated to be n = 2, whereas for the second carbohydrate this exponent was equaled to n = 5.5. Additionally, we have carried out isothermal time-dependent dielectric measurements on D-glucose to demonstrate that this saccharide is more stable than its acetyl derivatives. Results presented in this Article indicate that besides molecular mobility, the character of the intermolecular interactions might also be another important factor governing crystallization process. Surprisingly, this issue is not often addressed during studies on crystallization abilities of different glass-formers. Finally, additional optical measurements were carried out to get more detailed information about nucleation density, activation barrier for a crystal growth, and morphology of crystallization structures.