Article

DFT studies of long-chain FAMEs: Theoretical justification for determining chain length and unsaturation from experimental Raman spectra

Authors:
  • J Renwick Beattie Consulting
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Abstract

Density functional calculations, using B3LPY/6-31G(d) methods, have been used to investigate the conformations and vibrational (Raman) spectra of a series of long-chain, saturated fatty acid methyl esters (FAMEs) with the formula CnH2nO2 (n=5–21) and two series of unsaturated FAMEs. The calculations showed that the lowest energy conformer within the saturated FAMEs is the simple (all-trans) structure and, in general, it was possible to reproduce experimental data using calculations on only the all-trans conformer. The only exception was C6H12O2, where a second low-lying conformer had to be included in order to correctly simulate the experimental Raman spectrum.The objective of the work was to provide theoretical justification for the methods that are commonly used to determine the properties of the fats and oils, such as chain length and degree of unsaturation, from experimental Raman data. Here it is shown that the calculations reproduce the trends and calibration curves that are found experimentally and also allow the reasons for the failure of what would appear to be rational measurements to be understood. This work shows that although the assumption that each FAME can simply be treated as a collection of functional groups can be justified in some cases, many of the vibrational modes are complex motions of large sections of the molecules and thus would not be expected to show simple linear trends with changes in structure, such as increasing chain length and/or unsaturation. Simple linear trends obtained from experimental data may thus arise from cancellation of opposing effects, rather than reflecting an underlying simplicity.

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... Theoretical studies of lipids compounds has been performed in order to establish the general rules which govern the relative energies of the conformers in short-chain FAME [26]. Density functional calculations have been used to investigate the conformations and Raman spectra of long-chain FAME [27]. ...
... Fig. 2 shows the Raman spectra for the main esters present in soybean biodiesel, as listed in Table 1, plus the (12:0) and (14:0), which are references for the analysis of unsaturated esters in the liquid phase. Differences are observed in the Raman intensities and frequencies of some bands due to several factors, including: liquid vs. solid phases [16,25], number of carbon atoms in the chains [16,26,27] and number of insaturations [16]. The line shape of a biodiesel Raman spectrum is determined by the relative amount of these esters. ...
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... 2, full panel, or ref. [17]), the position of which turns out to depend on the length of the fatty acid (FA) chains. In fact, it has been proved that the intensity of this 1,440 cm -1 band turns out to depend on the number of carbons within the FA chain [20, 44], which, on the other hand, is not constant in TGs chains forming WAT. In alternative, in the case of adipose tissue, the peak at 1,745 cm -1 seem to provides a much more reliable standard for evaluating the UI of WAT, being specifically related to number of carbonyl groups in TGs, i.e. the paramount component of WAT, as revealed by the NMR measurements, which also were not able to detect any The band regions are defined inFig. 2 [25] Lipids (2011) 46:659–667 663 appreciable component of free fatty acids in it [31]. ...
... In alternative, in the case of adipose tissue, the peak at 1,745 cm -1 seem to provides a much more reliable standard for evaluating the UI of WAT, being specifically related to number of carbonyl groups in TGs, i.e. the paramount component of WAT, as revealed by the NMR measurements, which also were not able to detect any The band regions are defined inFig. 2 [25] Lipids (2011) 46:659–667 663 appreciable component of free fatty acids in it [31]. By the way, it is worth to mention that the intensity of the peak at 1,745 cm -1 is is taken as the reference to evaluate the molar parameters of fatty acids methyl esthers (FAME) by some authors [20,434445. On the other hand, the intensity of this peaks cannot be properly adopted as the reference for the assessment of the UI of free fatty acids, for which the situation is much more complex due to the spectral intermixing of C=C and C=O stretching modes. ...
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... Their peaks form well behaved trends and are relatively well separated and comprehensively understood as described by a body of published work on using Raman spectra for the analysis of fatty acids. [9][10][11][12][13][14] A code version of calculating PCA is presented which has been developed for understanding rather than computation speed and is freely available to support the reader in undertaking their own explorations. ...
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... Thus, polymer chains are simulated by short segments capable of reproducing the chemical environment in terms of interaction sites and steric hindrance around them. Furthermore, molecular models containing aliphatic chains and multiple conformational degrees of freedom, such as aliphatic esters or amides, are known to exhibit shallow Potential Energy Surfaces (PES) [275,276]. A preliminary PES exploration to identify relevant stationary state(s) is a fundamental step in the structure-optimization strategy because any ab-initio method will invariably localize the minimum that is closer to the initial input geometry. ...
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... Raman spectroscopy is also a type of vibrational spectroscopy that measures the fundamental vibrational modes of chemical bonds and gives structural information about the sample, while requiring minimal or no sample preparation (Afseth, Wold, & Segtnan, 2006). There are various studies reporting the use of Raman spectroscopy for characterization (Oakes, Beattie, Moss, & Bell, 2003), quality assessment (Guzman, Baeten, Pierna, & Garcia-Mesa, 2011) and detection of adulteration of fats based on their fatty acid composition (Uysal, Boyaci, Genis, & Tamer, 2013). However, to the best of our knowledge, there has been no research conducted on determination of erucic acid using Raman spectroscopy so far. ...
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... Previous DFT studies involving clays and/or fatty acids have looked at the structure of clays, 17 the catalytic activity of anionic clays, 18 the vibrational and conformational properties of fatty acid methyl esters (FAMEs) using the B3LYP density functional, 19 the attachment of the COOH group of fatty acids on metallic monolayers, 20 or, using a Gaussian 3 variation, the combustion pathway of methyl butanoate to find a CO 2 production pathway. 21 The most recent DFT study of clays 22 investigating the adsorption of volatile molecules on clays acknowledges the current deficit of quantum-chemical, periodic cell studies of clays and molecules in general, other than those involving cluster models, 1 peptides, 23,24 or amino acids. ...
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In this study multivariate analysis of Raman spectra has been used to classify adipose tissue from four different species (chicken, beef, lamb and pork). The adipose samples were dissected from the carcass and their spectra recorded without further preparation. 102 samples were used to create and compare a range of statistical models, which were then tested on 153 independent samples. Of the classical multivariate methods employed, Partial Least Squares Discriminant Analysis (PLSDA) performed best with 99.6% correct classification of species in the test set compared with 96.7% for Principal Component Linear Discrimination Analysis (PCLDA). Kohenen and Feed-forward artificial neural networks compared well with the PLSDA, giving 98.4 and 99.2% correct classification, respectively.
Article
New scaling factors have been determined for obtaining fundamental vibrational frequencies and zero‐point vibrational energies from harmonic frequencies calculated at the HF/6–31G* and MP2/6–31G* levels. The scaling factors for the fundamental frequencies have been derived from a comparison of a total of 1066 calculated frequencies for 122 molecules with corresponding experimental values, while the zero‐point energy scaling factors were determined from a comparison of the computed values with the experimental zero‐point energies for a set of 24 molecules. The scaling factors recommended are, respectively, 0.8929 and 0.9427 for HF/6–31G* and MP2/6–31G* fundamental frequencies, and 0.9135 and 0.9646 for HF/6–31G* and MP2/6–31G* zero‐point energies. RMS errors were determined to be around 50 cm−1 for the HF and MP2 fundamental frequencies, and around 0.4 kJ mol−1 for the HF and MP2 zero‐point energies.
Article
Raman spectra of low (13°C) and high (16°C) m.p. crystals of oleic acid were recorded and the spectral differences were ascribed to different conformations around a pair of sp2, CC axes, i.e. (skew, skew′) and (skew, skew). Crystalline modifications (m.p. 29°C and 29.5°C) of petroselinic acid were found for the first time; after spectral comparison with oleic acid conformations in those crystals were predicted to be (skew, skew′) and (skew, skew). Raman spectra of dioleoyl- and dipetroselinoyl-l-α-phosphatidylcholines were measured for different crystalline phases and the conformation was examined.The skeletal vibration bands of the polymethylene chains of cis- and trans-unsaturated fatty-acids were analysed by using the frequency-phase difference relationships of saturated fatty-acids. The ν4 (stretching) vibrations were localised within each polymethylene chain and the bands of an acid CH3(CH2)m−2CHCH(CH2)n−2COOH were explained in terms of the set of phase differences δ = kπ/m and kπ/n (k = 1, 2,..). A unique ν4 vibration with δ = π/2m was also found. The ν5 (bending) vibrations sometimes couple strongly with each other to form overall vibrations characterised by δ = kπ/(m + n).Implications of the cis-olefin group for the physical properties of phospholipid bilayers and the applicability of Raman spectroscopy in probing chain conformations were discussed.
Article
Geometries and harmonic frequencies of CH4, NH3, H2O, HF, C2H2, C2H4, C2H6, HCN, CO, H2CO and CH3F are calculated via density functional theory (DFT) using the “hybrid” density functionals “Becke3-Lee-Yang-Parr” and “Becke3-Perdew86” at the 6-31G∗ and TZ2P basis set levels. At both basis set levels, the results are in better agreement with experiment than those obtained via DFT using the LSDA and BLYP functionals and via the SCF and MP2 methodologies. At the TZ2P basis set level, the mean absolute deviation of predicted and experimental bond lengths is 0.005 Å for both hybrid functionals; at 6-31G∗ it is 0.006 Å. The mean absolute percentage deviation of predicted and experimental harmonic vibrational frequencies is 1.2% at TZ2P and 1.9–2.0% at 6-31G∗.
Article
The rapid analysis of fats and oils is of great importance in the food industry. It is shown that Fourier transform Raman spectroscopy may be used for this purpose. Good quality spectra, free of fluorescence, may be obtained and the spectra may be interpreted in terms of changes in total unsaturation, cis/trans isomer ratios and the number of double bonds in the hydrocarbon chains. Quantitative analysis of total unsaturation and cis/trans is possible and offers considerable improvements in speed when compared with conventional methods.
Article
The Raman spectra of fatty acids, fatty acid methyl esters and several membrane lipids are analyzed in the 1300 cm−1 region. The ratio of peak intensities at 1303/1267 cm−1 varies linearly with the ratio of methylene to vinyl groups in the hydrocarbon chain. This parameter should be useful for estimating the degree of unsaturation in isolated lipids and lipids in membranes.
Article
The quadratic configuration interaction calculation in the Gaussian‐2 second‐order Møller–Plesset perturbation theory approach, G2(MP2), is replaced by a coupled‐cluster (CC) singles and doubles calculation including a perturbational estimate of the triples excitations. In addition, the self‐consistent‐field (SCF) and MP2 geometry optimizations and SCF frequency calculation in the G2(MP2) approach are replaced by a density functional theory geometry optimization and frequency calculation [using the Becke three parameter hybrid functional with the Lee–Yang–Parr non‐local correlation functional (B3LYP)] in the proposed G2(B3LYP/MP2/CC) approach. This simplification does not affect the average absolute deviation from experiment, but decreases the maximum error compared with the G2(MP2) approach. The G2(B3LYP/MP2/CC) atomization energies are compared with those obtained using the B3LYP approach, and the G2(B3LYP/MP2/CC) model is found to be more reliable, even if the B3LYP calculations are performed using a large basis set.
Article
One hundred and thirty-eight edible oil and fat samples from 21 different sources, either vegetable (Brazil nut, coconut, corn, high oleic sunflower, olive oil, peanut, palm, palm kernel, rapeseed, soybean, sunflower, etc.) or animal (butter, hydrogenated fish, and tallow) have been analyzed. The spectral features of the most noteworthy bands are studied, and their correlations with the amount of fatty acids quantified by gas chromatography are presented. Principal component analysis is applied to classify the set of samples by their level of unsaturation [saturated (SFA), monounsaturated (MUFA), and polyunsaturated fatty acids (PUFA)]. The most remarkable MUFA and PUFA oil sources are independently classified by applying stepwise linear discriminant analysis to the Raman shifts selected by their correlation with fatty acids or structural assignments. The results show that FT-Raman spectra not only have information of the degree of unsaturation but also of the balance among the amounts of SFA, MUFA, and PUFA. The scattering intensities near different Raman shifts (3013, 1663, and 1264 cm-1) show high correlations with the fatty acid profile determined by gas chromatography. Keywords: Oils and fats; FT-Raman spectroscopy; chemometrics
Article
Harmonic force fields were calculated using fourth-order Møller-Plesset (MP4) theory for CH4, NH3, H2O, HF, SiH4, PH3, H2S, HCl, acetylene, HCN, ethylene, formaldehyde, chloromethane, and fluoromethane. These were compared with the experimental force fields. Most of the diagonal force constants for these molecules are computed reliably (1-2% error) at the MP4/6-311+g(2d,2p) level. Exceptions are force constants for out-of-plane bending in the π-bonded molecules and for stretching of the multiple bonds. For computations using second-order Møller-Plesset (MP2) theory, the 6-31g* basis is inferior to basis sets having polarization functions on all atoms such as 6-311+g** and 6-311+g(2d,2p). The force fields computed with MP2 theory are as accurate as those computed at the MP4 level except that HX stretching force constants are consistently overestimated by ca. 3% with MP2 theory. Reduced isotopic partition function ratios, (s2/s1)f, and fractionation factors (FFs) for hydrogen/deuterium substitution were computed for the same set of molecules. The (s2/s1)f values were compared with values computed from experimental harmonic frequencies. The (s2/s1)f values are overestimated by RHF and MP2 theory, but the error is removed when frequencies for the isotopomers are scaled uniformly. The resulting values agree with experiment to within ±2.5% at the MP2 level and ±3.3% at the RHF level.
Article
Predicted vibrational frequencies are reported for 15 small cationic species from Hartree-Fock calculations using the 4-21G and 6-31G* basis sets. Force constants from these calculations were corrected using empirical scale factors taken from a collection of similar neutral molecules. These scale factors reproduce 184 experimental frequencies for the neutral molecules with percent errors of 3.1% and 2.5% for the 4-21G and 6-31G* basis sets, respectively. When these scale factors are applied to the cations, 22 known experimental frequencies are predicted with percent errors of 4.5% and 2.0%, respectively.
Article
Density functional theory (DFT) using the 6-31G* basis set and two nonlocal exchange-correlation functionals (Becke-Lee-Yane-Parr [B-LYP] and the three-parameter compound function of Becke [B3-LYP]) has been used for the calculation of vibrational force fields of a set of 31 organic molecules including a wide range of functional groups. The calculated force constants have been scaled to experimental vibrational frequencies by using (a) an overall scaling constant and (b) a set of 11 factors paying respect to the different kinds of internal coordinates. The comparison of the scaled fundamental frequencies with experiment shows that density functional theory is a reliable tool for the interpretation of IR spectra. The uncorrected DFT frequencies and force constants approximate the experimental ones in a much more uniform fashion than does Hartree-Fock theory. Nevertheless, the use of multiple scale factors leads to further significant improvement. The scaled B3-LYP results are superior to the B-LYP ones, even though the unsealed B-LYP frequencies are, through error cancellation, slightly better than the B3-LYP ones. The reliability of scaled force fields is demonstrated by comparing the calculated and experimental vibrational spectra of aniline.
Article
Deuteration studies, hydration studies, melting studies and model compound studies are utilized to assign and interpret the 800–900 cm−1 region of the Raman spectra of the phospholipids dipalmitoyl phosphatidylcholine and dipalmitoyl phosphatidylethanolamine. Head group Raman bands in this region are shown to be sensitive to hydration and melting. The acyl carbon-carbon stretches, assigned to Raman bands appearing at 860–890 cm−1, are shown to be sensitive probes of molecular packing order, specifically in the acyl interface region.
Article
The performance of semiempirical, ab initio, and density functional methods in calculating and describing the vibrational frequencies of benzene was determined. Different levels were used. The modes were characterized by the magnitude and direction of the displacement vector. The error in the calculated frequencies was reduced using two procedures to obtain the scaled frequencies. Scaling equations were determined for each theoretical method. Specific scale factors were calculated to reduce the error in the ring modes of benzene derivatives. © 2000 John Wiley & Sons, Inc. Int J Quant Chem 77: 661–684, 2000
Article
Density functional calculations, using B3LPY/6-31G(d) methods, have been used to investigate the conformations and vibrational (Raman) spectra of three short-chain fatty acid methyl esters (FAMEs) with the formula CnH2nO2 (n=3–5). In all three FAMEs, the lowest energy conformer has a simple ‘all-trans’ structure but there are other conformers, with different torsions about the backbone, which lie reasonably close in energy to the global minimum. One result of this is that the solid samples we studied do not appear to consist entirely of the lowest energy conformer. Indeed, to account for the ‘extra’ bands that were observed in the Raman data but were not predicted for the all-trans conformer, it was necessary to add-in contributions from other conformers before a complete set of vibrational assignments could be made. Provided this was done, the agreement between experimental Raman frequencies and 6-31G(d) values (after scaling) was excellent, However, the agreement between predicted and observed intensities was much less satisfactory. To confirm the validity of the approach followed by the 6-31G(d) basis set, we used a larger basis set, Sadlej pVTZ, and found that these calculations gave accurate Raman intensities and simulated spectra (summed from two different conformers) that were in quantitative agreement with experiment. In addition, the unscaled Sadlej pVTZ, and the scaled 6-31G(d) calculations gave the same vibrational mode assignments for all bands in the experimental data.This work provides the foundation for calculations on longer-chain FAMEs (which are closer to those found as triglycerides in edible fats and oils) because it shows that scaled 6-31G(d) calculations give equally accurate frequency predictions, and the same vibrational mode assignments, as the much more CPU-expensive Sadlej pVTZ basis set calculations.
Article
An improved Raman spectroscopic procedure for the determination of the total unsaturation in oils and fats using Fourier Transform Raman (FT-Raman) spectroscopy is described. An important advantage of FT-Raman for these samples is that the spectra are fluorescence-free unlike dispersive Raman which often uses visible excitation. Samples can be analyzed without any pre-treatment thus eliminating the need for dissolution in toxic solvents. The short acquisition time of FT-Raman and the ease of application allowed for a rapid sample turnover.
Article
The effects of repeated food deprivation, prior to slaughter, on performance, feeding behaviour and meat quality of pigs was examined. Three experimental treatments were compared. In treatment 1 pigs had ad libitum access to feed up to the point of loading on the day of slaughter. Treatment 2 involved a 12-h fast prior to slaughter and treatment 3 involved a 20-h fast prior to slaughter. Pigs were slaughtered on a weight basis therefore each pen was emptied over a period of weeks. This meant some pigs experienced repeated food deprivation. The feeding pattern of pigs which were deprived of food for 12 h was very similar to that observed before feed restriction. Pigs which were deprived of food for 20 h spent significantly more time at the feeder post fasting. This was particularly marked during the first 2-3 h when access to feed was restored. Feed deprivation for 12 h prior to slaughter did not adversely affect performance, carcass weight, meat quality or welfare in the present study. Fasting for 20 h reduced carcass weight by 1 kg, which was not statistically significant but could result in financial losses related to carcass weight. The negative effects on meat quality, of repeated feed deprivation, resulted from slower growth rates rather than feed deprivation per se.
Article
Raman spectra of dihexadecylphosphatidic acid and of dimyristoylphosphatidylcholine and its longer chain homologs were obtained as a function of temp. to study the conformational order of the hydrocarbon chains in lipid bilayers. The frequency of the longitudinal acoustical vibration band is evaluated in terms of the length of all-trans chain segments. In the ordered phase, the chains are found to be overwhelmingly in the all-trans conformation. In the fluid phase, definite all-trans segments occur predominantly, the length of which coincides with the extension of the order parameter plateau known from 2H NMR. The frequency of the skeletal optical trans vibration band leads to the same result, if evaluated under the assumption of vibrational decoupling by gauche bands in the fluid phase, thus lending support to this assumption. The intensity of this band detd. from the band area increases linearly with chain length in the ordered phase and is independent of chain length in the fluid phase. Evaluating the intensity for the length of all-trans segments, the same result for the chain conformation is obtained as derived from the frequencies, with the addnl. information that the length of the all-trans segments in the fluid phase does not vary with chain length. [on SciFinder (R)]
Article
This study examined the effects of polymeric components on the physical state of chlorhexidine within bioadhesive, semisolid formulations using Raman spectroscopy. Semisolid formulations were prepared in which chlorhexidine base (CHX, 5%w/w, particle size <63 microm) was dispersed in aqueous (phosphate-buffered saline, pH 6.8) polymer matrices consisting of one or more polymeric components, namely HEC (3%w/w), PVP (3%), and PC (PC, 3%). Raman spectra were recorded using 785-nm excitation and were typically accumulated for 360 s. The Raman spectra were dominated by the presence of CHX. The spectra of CHX in HEC and in HEC/PVP gels were indistinguishable from that for solid CHX as a result of the insolubility of CHX in these formulations. However, in systems containing PC and CHX, there was a shift in the strongest band from 1564 cm(-1) to 1608 cm(-1), which may be accredited to protonation of the basic CHX by the numerous carboxylic acidic groups on PC. Identical shifts in the band positions were observed when this protonation was modeled using ethanoic acid, supporting the view that there was a simple acid base reaction between PC and CHX. However, there were notable differences in the relative intensities of the peaks from these samples, with the spectrum of CHX in the PC matrix displaying properties intermediate between those of CHX dissolved in ethanoic acid and solid CHX diacetate. This may be accredited to the limited solubility of the CHX-PC ion pair. In matrices containing HEC and PC, no peak was observed at 1564 cm(-1), whereas the intensity of the peak at 1608 cm(-1) was increased. Therefore, in these formulations CHX was completely converted to the di-cation as a result of the synergistic effects of PC (which protonated CHX) and HEC (which solubilized the di-cation). In the absence of either HEC or PC, complete protonation was not achieved. It is suggested that this enhancement of solubility of H(2)CHX(2+) may be due to hydrogen bonding, given the hydroxylated nature of HEC. In conclusion, this study has shown the applicability of Raman spectroscopy for both the analysis of opaque, semisolid formulations and, additionally, for the examination of the state of therapeutic agents within such matrices. In particular, using Raman spectroscopy, it was uniquely possible to identify the roles of various polymeric components on both the ionization and solubilization of CHX within aqueous semisolid systems.
Article
Recent spectroscopic advances have led to the first determinations of infrared vibration-rotation bands of polyatomic molecular ions. These initial detections were guided by ab initio predictions of the vibrational frequencies. The calculations reported here predict the vibrational frequencies of additional ions which are candidates for laboratory analysis. Vibrational frequencies of neutral molecules computed at three levels of theory, HF/3-21G, HF/6-31G*, and MP2/6-31G*, were compared with experiment and the effect of scaling was investigated to determine how accurately vibrational frequencies could be predicted. For 92% of the frequencies examined, uniformly scaled HF/6-31G* vibrational frequencies were within 100 cm-1 of experiment with a mean absolute error of 49 cm-1. This relatively simple theory thus seems suitable for predicting vibrational frequencies to guide laboratory spectroscopic searches for ions in the infrared. Hence, the frequencies of 30 molecular ions, many with astrochemical significance,were computed. They are CH2+, CH3+, CH5+, NH2+, NH4+, H3O+, H2F+, SiH2+, PH4+, H3S+, H2Cl+, C2H+, classical C2H3+, nonclassical C2H3+, nonclassical C2H5+, HCNH+, H2CNH2+, H3CNH3+, HCO+, HOC+, H2CO+, H2COH+, H3COH2+, H3CFH+, HN2+, HO2+, C3H+, HOCO+, HCS+, and HSiO+.
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