Effects on the emission of different interfaces formed between poly(3-methylthiophene) and poly(3-octylthiophene): electrochemical impedance and photoluminescence spectroscopy studies.

With the aim of verifying the optical properties of the systems formed by poly(3-methylthiophene) (P3MT) and poly(3-octylthiophene) (P3OT) on platinum (Pt) for use in organic photovoltaic device applications, electrochemical preparations of different interfaces with poly(3-alkylthiophenes) (P3ATs), synthesized both with 18 °C and without temperature control, were compared. These interfaces were prepared both as blends (Pt/P3MT:P3OT) and as layered films (Pt/P3MT/P3OT and Pt/P3OT/P3MT). Electrochemical impedance spectroscopy (EIS) was used to characterize the systems, and based on Bode-Phase diagrams, it was possible to monitor the stabilization of radical cation and dication segments of the thiophene ring. The findings corroborated previous studies by electrochemical spectroscopy and using in situ Raman spectroscopy under the same experimental conditions. We were able to verify the effects of experimental variables, such as synthesis temperature and different kinds of deposition. Temperature was found to be an extremely important factor in synthesis, since films synthesized at 18 °C favored the stabilization of radical cation segments in the polymer matrix, and layered deposition also favored the stabilization of these segments, since the layer closest to the electrode can act as an induction layer for the stability of radical cation segments in the system. Photoluminescence spectroscopy was used to verify the optical properties of the interfaces, in which occur the contributions of three segments in the P3ATs matrix. Thus, it has been demonstrated through photoluminescence decay time that the relative amount of radical cation and dication segments in the polymer matrix affects the lifetime of these segments in the different materials prepared, due to emission effects for these systems.

Polysaccharide-based substrate for surface-enhanced Raman spectroscopy.

Surface-enhanced Raman spectroscopy (SERS) became a useful analytical technique with the development of appropriate metallic substrates. The need for SERS substrates that immobilize metallic nanoparticles prompted this work to search for an appropriate material. This work presents the preparation, characterization and application of a SERS substrate for crystal violet (CV) detection, as the probe molecule. The inner layer of the substrate is a thin film of the fungal ß-D-glucan, botryosphaeran, covered by a thin layer of silver nanoparticles (AgNPs). The nanoparticles were produced by laser ablation, a fast and clean method for their preparation, and the layers were assembled by casting. Scanning electron and atomic force microscopies, UV-VIS and Raman spectroscopy and X-ray diffraction allowed the characterization of the surface of the substrate. Analysis by Raman spectroscopy showed promising results for SERS amplification on the substrate. Detection of CV reached enhancement factors up to 106 orders of magnitude, compared to normal Raman spectra. Linearity was observed for analyses on the SERS substrate at concentration ranges of 0.005 to 1 µmol L-1. The assembly reached the detection of 12 pmol cm-2 of CV, which corresponds to 96 fg of the probe molecule contained in the area of the substrate effectively interacting with the laser. The substrate was more efficient than silver colloids to perform SERS.

Regioregularity and deposition effect on the physical/chemical properties of polythiophene derivatives films.

Polythiophene thin films are widely studied for applications in organic electronics. However, some comparisons are still missing, regarding distinct deposition techniques and regioregularity. Here regioregular and regiorandom alkyl-substituted polythiophene derivatives (P3ATs) were deposited on solid substrates using both Langmuir-Blodgett (LB) and Langmuir-Schaefer (LS) techniques. The main goal was to verify the possible influence of the regioregularity as well the deposition technique on their optical, electrical and electrochemical properties. LB and LS films of regioregular and regiorandom poly(3-butylthiophene) (P3BT) and poly(3-octylthiophene) (P3OT) were deposited onto glass/Indium-Tin-Oxide) substrates and characterized by UV-visible optical spectroscopy, atomic force microscopy, cyclic voltammetry, and conductivity measurements. The results demonstrated the influence of the deposition technique on the electrical outcome, moreover, the regioregularity affected all the performed characterizations. In addition, this paper may be useful to understand how the amphiphilic molecule addition affected the film properties of regioregular and regiorandom P3ATs, particularly the energy diagram provided by the electrochemical and absorption features.

Characterization of the Adsorption of Nucleic Acid Bases onto Ferrihydrite via Fourier Transform Infrared and Surface-Enhanced Raman Spectroscopy and X-ray Diffractometry.

Minerals could have played an important role in concentration, protection, and polymerization of biomolecules. Although iron is the fourth most abundant element in Earth's crust, there are few works in the literature that describe the use of iron oxide-hydroxide in prebiotic chemistry experiments. In the present work, the interaction of adenine, thymine, and uracil with ferrihydrite was studied under conditions that resemble those of prebiotic Earth. At acidic pH, anions in artificial seawater decreased the pH at the point of zero charge (pHpzc) of ferrihydrite; and at basic pH, cations increased the pHpzc. The adsorption of nucleic acid bases onto ferrihydrite followed the order adenine >> uracil > thymine. Adenine adsorption peaked at neutral pH; however, for thymine and uracil, adsorption increased with increasing pH. Electrostatic interactions did not appear to play an important role on the adsorption of nucleic acid bases onto ferrihydrite. Adenine adsorption onto ferrihydrite was higher in distilled water compared to artificial seawater. After ferrihydrite was mixed with artificial seawaters or nucleic acid bases, X-ray diffractograms and Fourier transform infrared spectra did not show any change. Surface-enhanced Raman spectroscopy showed that the interaction of adenine with ferrihydrite was not pH-dependent. In contrast, the interactions of thymine and uracil with ferrihydrite were pH-dependent such that, at basic pH, thymine and uracil lay flat on the surface of ferrihydrite, and at acidic pH, thymine and uracil were perpendicular to the surface. Ferrihydrite adsorbed much more adenine than thymine; thus adenine would have been better protected against degradation by hydrolysis or UV radiation on prebiotic Earth.

Synthesis and spectroscopic analysis of polydiphenylamine via oxidation with bentonite clay in the solid state.

In this study, solids of polydiphenylamine (PDPA) synthesized mechanochemically by reaction with bentonite (PDPAOB) were studied using Raman spectroscopy. It was possible to identify the chemical species in the PDPA-bentonite compound. The spectra obtained were compared to the spectra of PDPA prepared chemically by oxidation of DPA with K2S2O8 in the solid state, and PDPA produced electrochemically, with the aim of studying the characteristic frequencies of the aromatic segments (DPB), radical cation (DPB(+)) and dication (DPB(2+)) of N,N-diphenylbenzidine (DPB) in the polymer structure of the PDPA. To analyze the segments present, the band characteristic of CC asymmetric stretching of the aromatic ring in the Raman spectra was deconvoluted because of the widening of the band and shifts observed by irradiation at wavelengths of 532 and 785 nm. This procedure showed that there are three distinct contributions in the spectra which facilitate the monitoring of changes in the contributions of the segments in the materials doped with HCl (PDPAOBD) and de-doped with NH4OH, (PDPAOBR).

Raman changes induced by electrochemical oxidation of poly(triarylamine)s: toward a relationship between molecular structure modifications and charge generation.

Linear, alternating polymers of aromatic amines (p-phenylenediamine, bis(p-aminophenyl)amine, and diaminocarbazole) and either m-phenylene or 3,5-pyridine have been synthesized and characterized by electrochemical and spectroscopic means. The presence of radical cations in their electrochemically oxidized forms is manifested by new bands in the UV-vis-NIR spectra whose appearance can be correlated with reversible redox couples registered in the corresponding cyclic voltammograms at approximately the same potentials as well as with pronounced evolutions of their resonance Raman spectra. Detailed analysis of the Raman data gives information about the locations and the distribution of radical cations and spinless dication in the macromolecule. This approach can provide a new insight into the formation of high-spin states in these polymers.

An experimental and theoretical vibrational study of interaction of adenine and thymine with artificial seawaters: A prebiotic chemistry experiment.

Nucleic acid bases play important roles in living beings. Thus, their interaction with salts the prebiotic Earth could be an important issue for the understanding of origin of life. In this study, the effect of pH and artificial seawaters on the structure of adenine and thymine was studied via parallel determinations using FT-IR, Raman spectroscopy and theoretical calculations. Thymine and adenine lyophilized in solutions at basic and acidic conditions showed characteristic bands of the enol-imino tautomer due to the deprotonation and the hydrochloride form due to protonation, respectively. The interaction of thymine and adenine with different seawaters representative of different geological periods on Earth was also studied. In the case of thymine a strong interaction with Sr(2+) promoted changes in the Raman and infrared spectra. For adenine changes in infrared and Raman spectra were observed in the presence of salts from all seawaters tested. The experimental results were compared to theoretical calculations, which showed structural changes due to the presence of ions Na(+), Mg(2+), Ca(2+) and Sr(2+) of artificial seawaters. For thymine the bands arising from C4=C5 and C6=O stretching were shifted to lower values, and for adenine, a new band at 1310cm(-1) was observed. The reactivity of adenine and thymine was studied by comparing changes in nucleophilicity and energy of the HOMO orbital.

The effect of artificial seawater on SERS spectra of amino acids-Ag colloids: an experiment of prebiotic chemistry.

The large enhancement of signal observed in surface enhanced Raman spectroscopy (SERS) could be helpful for identifying amino acids on the surface of other planets, in particular for Mars, as well as in prebiotic chemistry experiments of interaction minerals/amino acids. This paper reports the effect of several substances (NaCl, MgCl2, KBr, CaSO4, K2SO4, MgSO4, KI, NH4Cl, SrCl2, CaCl2, Na2SO4, KOH, NaOH, H3BO3) on the SERS spectra of colloid of sodium citrate-CSC and colloid of sodium borohydride-CSB. The effect of four different artificial seawaters and these artificial seawaters plus amino acids (α-Ala-alanine, Gly-glycine, Cys-cysteine, AIB-2-aminoisobutiric acid) on SERS spectra using both CSC and CSB was also studied. For CSC, the effect of water, after dilution of the colloid, was the appearance of several absorption bands belonging to sodium citrate in the SERS spectrum. In general, artificial seawaters enhanced several bands in SERS spectra using CSC and CSB and CSC was more sensitive to those artificial seawaters than CSB. The identification of Gly, α-Ala and AIB using CSC or CSB was not possible because several bands belonging to artificial seawaters, sodium citrate or sodium borohydride were enhanced. On the other hand, artificial seawaters did not interfere in the SERS spectra of Cys using CSC or CSB, although the interaction of Cys with each colloid was different. For CSC the band at 2568 cm(-1) (S-H stretching) of Cys vanished and for CSB the intensity of this band decreased, indicating the -SH of Cys was bonded to Ag to form -S-Ag. Thus SERS spectroscopy could be used for Cys detection on Mars soils using Mars land rovers as well as to study the interaction between Cys and minerals in prebiotic chemistry experiments.

Adsorption of adenine and thymine on zeolites: FT-IR and EPR spectroscopy and X-ray diffractometry and SEM studies.

The interactions of adenine and thymine with and adsorption on zeolites were studied using different techniques. There were two main findings. First, as shown by X-ray diffractometry, thymine increased the decomposition of the zeolites (Y, ZSM-5) while adenine prevented it. Second, zeolite Y adsorbed almost the same amount of adenine and thymine, thus both nucleic acid bases could be protected from hydrolysis and UV radiation and could be available for molecular evolution. The X-ray diffractometry and SEM showed that artificial seawater almost dissolved zeolite A. The adsorption of adenine on ZSM-5 zeolite was higher than that of thymine (Student-Newman-Keuls test-SNK p<0.05). Adenine was also more greatly adsorbed on ZSM-5 zeolite, when compared to other zeolites (SNK p<0.05). However the adsorption of thymine on different zeolites was not statistically different (SNK p>0.05). The adsorption of adenine and thymine on zeolites did not depend on pore size or Si/Al ratio and it was not explained only by electrostatic forces; rather van der Waals interactions should also be considered.

Adsorption of adenine, cytosine, thymine, and uracil on sulfide-modified montmorillonite: FT-IR, Mössbauer and EPR spectroscopy and X-ray diffractometry studies.

In the present work the interactions of nucleic acid bases with and adsorption on clays were studied at two pHs (2.00, 7.00) using different techniques. As shown by Mössbauer and EPR spectroscopies and X-ray diffractometry, the most important finding of this work is that nucleic acid bases penetrate into the interlayer of the clays and oxidize Fe(2+) to Fe(3+), thus, this interaction cannot be regarded as a simple physical adsorption. For the two pHs the order of the adsorption of nucleic acid bases on the clays was: adenine ≈ cytosine > thymine > uracil. The adsorption of adenine and cytosine on clays increased with decreasing of the pH. For unaltered montmorillonite this result could be explained by electrostatic forces between adenine/cytosine positively charged and clay negatively charged. However for montmorillonite modified with Na(2)S, probably van der Waals forces also play an important role since both adenine/cytosine and clay were positively charged. FT-IR spectra showed that the interaction between nucleic acid bases and clays was through NH(+) or NH (2) (+) groups. X-ray diffractograms showed that nucleic acid bases adsorbed on clays were distributed into the interlayer surface, edge sites and external surface functional groups (aluminol, silanol) EPR spectra showed that the intensity of the line g ≈ 2 increased probably because the oxidation of Fe(2+) to Fe(3+) by nucleic acid bases and intensity of the line g = 4.1 increased due to the interaction of Fe(3+) with nucleic acid bases. Mössbauer spectra showed a large decreased on the Fe(2+) doublet area of the clays due to the reaction of nucleic acid bases with Fe(2+).

Adsorption of amino acids (ALA, CYS, HIS, MET) on zeolites: fourier transform infrared and Raman spectroscopy investigations.

Minerals adsorb more amino acids with charged R-groups than amino acids with uncharged R-groups. Thus, the peptides that form from the condensation of amino acids on the surface of minerals should be composed of amino acid residues that are more charged than uncharged. However, most of the amino acids (74%) in today's proteins have an uncharged R-group. One mechanism with which to solve this paradox is the use of organophilic minerals such as zeolites. Over the range of pH (pH 2.66-4.50) used in these experiments, the R-group of histidine (His) is positively charged and neutral for alanine (Ala), cysteine (Cys), and methionine (Met). In acidic hydrothermal environments, the pH could be even lower than those used in this study. For the pH range studied, the zeolites were negatively charged, and the overall charge of all amino acids was positive. The conditions used here approximate those of prebiotic Earth. The most important finding of this work is that the relative concentrations of each amino acid (X=His, Met, Cys) to alanine (X/Ala) are close to 1.00. This is an important result with regard to prebiotic chemistry because it could be a solution for the paradox stated above. Pore size did not affect the adsorption of Cys and Met on zeolites, and the Si/Al ratio did not affect the adsorption of Cys, His, and Met. ZSM-5 could be used for the purification of Cys from other amino acids (Student-Newman-Keuls test, p<0.05), and mordenite could be used for separation of amino acids from each other (Student-Newman-Keuls test, p<0.05). As shown by Fourier transform infrared (FT-IR) spectra, Ala interacts with zeolites through the [Formula: see text] group, and methionine-zeolite interactions involve the COO, [Formula: see text], and CH(3) groups. FT-IR spectra show that the interaction between the zeolites and His is weak. Cys showed higher adsorption on all zeolites; however, the hydrophobic Van der Waals interaction between zeolites and Cys is too weak to produce any structural changes in the Cys groups (amine, carboxylic, sulfhydryl, etc.); thus, the FT-IR and Raman spectra are the same as those of solid Cys.

Adsorption of cysteine on hematite, magnetite and ferrihydrite: FT-IR, Mössbauer, EPR spectroscopy and X-ray diffractometry studies.

In the present paper, the adsorption of cysteine on hematite, magnetite and ferrihydrite was studied using FT-IR, electron paramagnetic resonance (EPR), Mössbauer spectroscopy and X-ray diffractometry. Cysteine was dissolved in artificial seawater (two different pHs) which contains the major constituents. There were two main findings described in this paper. First, after the cysteine adsorption, the FT-IR spectroscopy and X-ray diffractometry data showed the formation of cystine. Second, the Mössbauer spectroscopy did not show any increase in the amount of Fe(2+) as expected due the oxidation of cysteine to cystine. An explanation could be that Fe(2+) was oxidized by the oxygen present in the seawater or there occurred a reduction of cystine by Fe(2+) generating cysteine and Fe(3+). The specific surface area and pH at point of zero charge of the iron oxides were influenced by adsorption of cysteine. When compared to other iron oxides, ferrihydrite adsorbed significantly (p < 0.05) more cysteine. The pH has a significant (p < 0.05) effect only on cysteine adsorption on hematite. The FT-IR spectroscopy results showed that cystine remains adsorbed on the surface of the iron oxides even after being mixed with KCl and the amine and carboxylic groups are involved in this interaction. X-ray diffractometry showed no changes on iron oxides mineralogy and the following precipitated substances were found along with the iron oxides after drying the samples: cysteine, cystine and seawater salts. The EPR spectroscopy showed that cysteine interacts with iron oxides, changing the relative amounts of iron oxides and hydroxide.

Spectroscopic investigation of the interaction of p-benzoquinone with casein in the solid state.

The reaction between p-benzoquinone (PBQ) and casein (protein) in the solid state was studied. After reaction with protein, the FT-IR spectra showed a new band at 1215 cm(-1), with an intense sign attributed for casein/PBQ product. An optimum amount of PBQ for determination of the product when mixed with casein was 100mg and a reaction time of 30 min. The product was stable for a period of 24h after the reacting by heating. The interaction of PBQ with casein was investigated by FT-IR, reflectance, Raman and EPR spectroscopies. The reaction between PBQ and casein in the solid state yields a radical species (p-benzosemiquinone) that it is stabilized by the presence of p-biphenolate and p-benzoquinone species in the solid state.

Cysteine, thiourea and thiocyanate interactions with clays: FT-IR, Mössbauer and EPR spectroscopy and X-ray diffractometry studies.

The present study examined the adsorption of cysteine, thiourea and thiocyanate on bentonite and montmorillonite at two different pHs (3.00, 8.00). The conditions used here are closer to those of prebiotic earth. As shown by FT-IR, Mössbauer and EPR spectroscopy and X-ray diffractometry, the most important finding of this work is that cysteine and thiourea penetrate into the interlayer of the clays and reduce Fe(3+) to Fe(2+), and as consequence, cystine and c,c'-dithiodiformamidinium ion are formed. This mechanism resembles that which occurs with aconitase. This is a very important result for prebiotic chemistry; we should think about clays not just sink of molecules, but as primitive vessels of production of biomolecules. At pH 8.00, an increasing expansion was observed in the following order for both minerals: thiourea > thiocyanate > cysteine. At pH 3.00, the same order was not observed and thiourea had an opposite behavior, being the compound producing the lowest expansion. Mössbauer spectroscopy showed that at pH 8.00, the proportion of Fe(2+) ions in bentonite increased, doubling for thiourea, or more than doubling for cysteine, in both clays. However, at pH 3.00, cysteine and thiourea did not change significantly the relative amount of Fe(2+) and Fe(3+) ions, when compared to clays without adsorption. For thiocyanate, the amount of Fe(2+) produced was independent of the pH or clay used, probably because the interlayers of clays are very acidic and HSCN formed does not reduce Fe(3+) to Fe(2+). For the interaction of thiocyanate with the clays, it was not possible to identify any potential compound formed. For the samples of bentonite and montmorillonite at pH 8.00 with cysteine, EPR spectroscopy showed that intensity of the lines due to Fe(3+) decreased because the reaction of Fe(3+)/cysteine. Intensity of EPR lines did not change when the samples of bentonite at pH 3.00 with and without cysteine were compared. These results are in accordance with those obtained using Mössbauer and FT-IR spectroscopy.

Which amino acids should be used in prebiotic chemistry studies?

The adsorption of amino acids on minerals and their condensation under conditions that resemble those of prebiotic earth is a well studied subject. However, which amino acids should be used in these experiments is still an open question. The main goal of this review is to attempt to answer this question. There were two sources of amino acids for the prebiotic earth: (1) exogenous -- meaning that the amino acids were synthesized outside the earth and delivered to our planet by interplanetary dust particles (IDPs), meteorites, comets, etc. and (2) endogenous -- meaning that they were synthesized on earth in atmospheric mixtures, hydrothermal vents, etc. For prebiotic chemistry studies, the use of a mixture of amino acids from both endogenous and exogenous sources is suggested. The exogenous contribution of amino acids to this mixture is very different from the average composition of proteins, and contains several non-protein amino acids. On the other hand, the mixture of amino acids from endogenous sources is seems to more closely resemble the amino acid composition of terrestrial proteins.

Amino acid interaction with and adsorption on clays: FT-IR and Mössbauer spectroscopy and X-ray diffractometry investigations.

In the present paper, the adsorption of amino acids (Ala, Met, Gln, Cys, Asp, Lys, His) on clays (bentonite, kaolinite) was studied at different pH (3.00, 6.00, 8.00). The amino acids were dissolved in seawater, which contains the major elements. There were two main findings in this study. First, amino acids with a charged R group (Asp, Lys, His) and Cys were adsorbed on clays more than Ala, Met and Gln (uncharged R groups). However, 74% of the amino acids in the proteins of modern organisms have uncharged R groups. These results raise some questions about the role of minerals in providing a prebiotic concentration mechanism for amino acids. Several mechanisms are also discussed that could produce peptide with a greater proportion of amino acids with uncharged R groups. Second, Cys could play an important role in prebiotic chemistry besides participating in the structure of peptides/proteins. The FT-IR spectra showed that the adsorption of amino acids on the clays occurs through the amine group. However, the Cys/clay interaction occurs through the sulfhydryl and amine groups. X-ray diffractometry showed that pH affects the bentonite interlayer, and at pH 3.00 the expansion of Cys/bentonite was greater than that of the samples of ethylene glycol/bentonite saturated with Mg. The Mössbauer spectrum for the sample with absorbed Cys showed a large increase ( approximately 20%) in ferrous ions. This means that Cys was able to partially reduce iron present in bentonite. This result is similar to that which occurs with aconitase where the ferric ions are reduced to Fe 2.5.