Determination of the ratios of the aromatic amino acid residues by first- or second-derivative UV spectrometry for a simple characterization of peptides

A novel diagnostic method: FT-IR, Raman and derivative spectroscopy fusion technology for the rapid diagnosis of renal cell carcinoma serum

This research innovatively combines FT-IR, Raman spectroscopy and their first-derivative spectroscopy to develop a rapid diagnosis method for renal cell carcinoma (RCC). After measuring the Raman spectra and FT-IR spectra of 45 cases of control subjects and 28 cases of RCC, the first derivative of the infrared spectra and the Raman spectra were calculated respectively. Principal component analysis (PCA) was used to extract the features of the infrared spectra, first-derivative infrared spectra, Raman spectra and first-derivative Raman spectra. Then the four feature matrices were merged as fused spectral feature matrices. The fused matrices were used as the input of AlexNet and MCNN. The fused spectral feature matrices were used as the input of AlexNet and MCNN. The adjusted AlexNet model performed better, and the classification accuracy of the fused spectral data is 93%. Compared with the classification results of infrared spectra (74%), Raman spectra (75%) and the fusion of infrared and Raman spectra (79%) combined with the adjusted AlexNet model, the classification result of the fusion of infrared spectra, Raman spectra and their first-derivative was significantly improved. The experimental results show that infrared spectroscopy, Raman spectroscopy and their first-derivative fusion technology combined with deep learning algorithms has great potential in the diagnosis of RCC.

Combining derivative Raman with autofluorescence to improve the diagnosis performance of echinococcosis

Echinococcosis is a zoonotic parasitic disease transmitted by animals and distributed all over the world. There is no standardized and widely accepted treatment method, and early and accurate diagnosis is crucial for the prevention and cure of echinococcosis. Here, we explored the feasibility of using derivative Raman in combination with autofluorescence (AF) to improve the diagnosis performance of echinococcosis. The spectra of serum samples from patients with echinococcosis, as well as healthy volunteers, were recorded at 633 nm excitation. The normalized mean Raman spectra showed that there is a decrease in the relative amounts of β carotene and phenylalanine and an increase in the percentage of tryptophan, tyrosine, and glutamic acid contents in the serum of echinococcosis patients as compared to that of healthy subjects. Then, principal components analysis (PCA), combined with linear discriminant analysis (LDA), were adopted to distinguish echinococcosis patients from healthy volunteers. Based on the area under the ROC curve (AUC) value, the derivative Raman + AF spectral data set achieved the optimal results. The AUC value was improved by 0.08 for derivative Raman + AF (AUC = 0.98), compared to Raman alone. The results demonstrated that the fusion of derivative Raman and AF could effectively improve the performance of the diagnostic model, and this technique has great application potential in the clinical screening of echinococcosis.

Second derivative analysis of synthesized spectra for resolution and identification of overlapped absorption bands of amino acid residues in proteins: Bromelain and ficin spectra in the 240-320 nm range

We establish the origin and formation of peaks in UV absorption spectra of proteins by applying the second derivative analysis to (i) spectra of the native protein, (ii) to its model spectra "synthesized" as a sum of partial free amino acid spectra and (iii) to absorption spectra of the free amino acids. We show that the bromelain peaks at 248.2, 253.2, 258.4 and 264.2 nm are due to phenylalanine maxima; the predictable peak at 279.6 nm (which is almost coincident with the extremum of the zero-order spectrum at 279.4 nm) is mainly due to tyrosine maximum, while the peaks at 274.6 and 290.6 nm are due to tryptophan maximum; 268.0 nm peak to the superposition of tyrosine and phenylalanine maxima, and 283.4 nm peak to the superposition of tyrosine and tryptophan maxima. Similar results are obtained for ficin: the peaks at 248.4, 253.0 and 258.8 nm are formed by the phenylalanine maxima, the predictable peak at 264.4 nm accords with the corresponding bromelain 264.2 nm peak; the 279.4 nm peak almost coincides with the zero order spectrum peak (279.6 nm), but it is expressed stronger than that of bromelain due to a different ratio of tyrosine to tryptophan side groups. The peaks at 273.4 and 290.6 nm are associated with tryptophan, the 268.0 nm peak being mainly due to tyrosine (and fractionally to phenylalanine); and the 283.8 nm peak belongs to tyrosine and, to a greater extent, to tryptophan. We demonstrate that the amino acid residues of tryptophan, tyrosine and phenylalanine undergo correspondingly the largest, intermediate and the lowest positive (red) wavelength shift in the zero-order protein absorption spectrum with respect to the model (synthesized) spectrum. The difference appearing in the positions of the bromelain and ficin absorption band peaks is determined by superposition of relative contributions from amino acid residues. This superposition is resulted from (i) linear combination of amino acid residues spectra and (ii) their different (non-uniform) wavelength shifts as functions of microenvironment of these residues' chromophores. The proposed approach to the analysis of the protein absorption spectra with the help of "synthesized" spectra can be transferred to other objects studied in analytical and organic chemistry of high molecular compounds containing monomer units with various chromophores.

Label free hepatitis B detection based on serum derivative surface enhanced Raman spectroscopy combined with multivariate analysis

Surface-enhanced Raman spectroscopy (SERS) was developed here for the non-invasive detection of the hepatitis B virus (HBV). Chronic hepatitis B virus (HBV) infection is a primary health problem in the world and may further develop into cirrhosis and hepatocellular carcinoma (HCC). SERS measurement was applied to two groups of serum samples. One group included 93 HBV patients and the other group included 94 healthy volunteers as control subjects. Tentative assignments of the Raman bands in the measured SERS spectra have shown the difference of the serum SERS spectra between HBV patients and healthy volunteers. The differences indicated an increase in the relative amounts of L-arginine, Saccharide band (overlaps with acyl band), phenylalanine and tyrosine, together with a decrease in the percentage of nucleic acid, valine and hypoxanthine in the serum of HBV patients compared with those of healthy volunteers. For better analysis of the spectral data, the first-order derivation was applied to the SERS data. Furthermore, principal components analysis (PCA), combined with linear discriminant analysis (LDA), were employed to distinguish HBV patients from healthy volunteers and to realize the diagnostic sensitivity of 78.5% and 91.4%, and specificity of 75% and 83% for SERS and the first order derivative SERS spectrum, respectively. These results suggest that derivative analysis could be an effective method to improve the classification of SERS spectra belonging to different groups. This exploratory work demonstrated that first-order derivative serum SERS spectrum combined with PCA-LDA has great potential for improving the detection of HBV.

Viscoelastic properties of oil-water interfaces covered by bovine beta-casein tryptic peptides

A combination of proteolysis and dilational rheology has been used to study the behavior of films of beta-casein (beta-CN) and of peptides spread at the oil-water interface. Identification of the peptides produced by trypsin hydrolysis of beta-CN in emulsion at 37 degrees C provided information on the structure of beta-CN adsorbed at the oil-water interface. Good interface properties were observed for beta-CN or its peptides, probably because of the amphipathic nature of beta-CN or a synergistic effect between hydrophilic and hydrophobic peptides. Remarkable surface activity was found for the amphipathic peptide beta-CN (f114-169). Rheological studies had shown that interface films made with peptide fractions or with beta-CN were elastic rather than viscous. Film made with the purified peptide beta-CN (f114-169) was merely elastic at the triolein-water interface. A decrease of the viscoelastic modulus was observed for aging beta-CN film but not for aging peptide films; The beta-CN decrease was related to the flexibility of its structure. When the interface is increased by the dilation of an aqueous droplet plunged into oil, beta-CN may expose new polypeptide trains to cover the increased interface, unlike peptides with simpler structures.

Camel (camelus dromedarius) milk PP3: evidence for an insertion in the amino-terminal sequence of the camel milk whey protein

The camel (camelus dromedarius) milk proteose peptone 3 (PP3) was purified successively by size exclusion fast protein liquid chromatography and reversed phase high performance liquid chromatography and then characterized by amino acid residue composition determination and chemical microsequencing after CNBr or trypsin cleavages. In comparison with the previously reported structure of camel milk whey protein, the camel PP3 contains an insertion in the N-terminal region which has approximately 24 residues, whereas the remaining C-terminal regions of these two homologous proteins are essentially identical. The camel PP3 seems to contain a potential O-glycosylation site localized in this insertion and 2 or 3 phosphorylated serine residues. PP3 belongs to the glycosylation-dependent cell adhesion molecule 1 (GlyCAM-1) family and could therefore play an immunological role in the camel or its suckling young.