Unravelling the Encapsulation of DNA and Other Biomolecules in HAp Microcalcifications of Human Breast Cancer Tissues by Raman Imaging.

Microcalcifications are detected through mammography screening and, depending on their morphology and distribution (BI-RADS classification), they can be considered one of the first indicators of suspicious cancer lesions. However, the formation of hydroxyapatite (HAp) calcifications and their relationship with malignancy remains unknown. In this work, we report the most detailed three-dimensional biochemical analysis of breast cancer microcalcifications to date, combining 3D Raman spectroscopy imaging and advanced multivariate analysis in order to investigate in depth the molecular composition of HAp calcifications found in 26 breast cancer tissue biopsies. We demonstrate that DNA has been naturally adsorbed and encapsulated inside HAp microcalcifications. Furthermore, we also show the encapsulation of other relevant biomolecules in HAp calcifications, such as lipids, proteins, cytochrome C and polysaccharides. The demonstration of natural DNA biomineralization, particularly in the tumor microenvironment, represents an unprecedented advance in the field, as it can pave the way to understanding the role of HAp in malignant tissues.

Review on the photonic techniques suitable for automatic monitoring of the composition of multi-materials wastes in view of their posterior recycling.

In the increasingly pressing context of improving recycling, optical technologies present a broad potential to support the adequate sorting of plastics. Nevertheless, the commercially available solutions (for example, employing near-infrared spectroscopy) generally focus on identifying mono-materials of a few selected types which currently have a market-interest as secondary materials. Current progress in photonic sciences together with advanced data analysis, such as artificial intelligence, enable bridging practical challenges previously not feasible, for example in terms of classifying more complex materials. In the present paper, the different techniques are initially reviewed based on their main characteristics. Then, based on academic literature, their suitability for monitoring the composition of multi-materials, such as different types of multi-layered packaging and fibre-reinforced polymer composites as well as black plastics used in the motor vehicle industry, is discussed. Finally, some commercial systems with applications in those sectors are also presented. This review mainly focuses on the materials identification step (taking place after waste collection and before sorting and reprocessing) but in outlook, further insights on sorting are given as well as future prospects which can contribute to increasing the circularity of the plastic composites' value chains.

Comparability of Raman Spectroscopic Configurations: A Large Scale Cross-Laboratory Study.

The variable configuration of Raman spectroscopic platforms is one of the major obstacles in establishing Raman spectroscopy as a valuable physicochemical method within real-world scenarios such as clinical diagnostics. For such real world applications like diagnostic classification, the models should ideally be usable to predict data from different setups. Whether it is done by training a rugged model with data from many setups or by a primary-replica strategy where models are developed on a 'primary' setup and the test data are generated on 'replicate' setups, this is only possible if the Raman spectra from different setups are consistent, reproducible, and comparable. However, Raman spectra can be highly sensitive to the measurement conditions, and they change from setup to setup even if the same samples are measured. Although increasingly recognized as an issue, the dependence of the Raman spectra on the instrumental configuration is far from being fully understood and great effort is needed to address the resulting spectral variations and to correct for them. To make the severity of the situation clear, we present a round robin experiment investigating the comparability of 35 Raman spectroscopic devices with different configurations in 15 institutes within seven European countries from the COST (European Cooperation in Science and Technology) action Raman4clinics. The experiment was developed in a fashion that allows various instrumental configurations ranging from highly confocal setups to fibre-optic based systems with different excitation wavelengths. We illustrate the spectral variations caused by the instrumental configurations from the perspectives of peak shifts, intensity variations, peak widths, and noise levels. We conclude this contribution with recommendations that may help to improve the inter-laboratory studies.

Application of ATR-FTIR spectroscopy and chemometrics for the discrimination of human bone remains from different archaeological sites in Turkey.

Examining diagenetic parameters such as the organic carbonate contents and the crystallinity of bone apatite quantify the post-mortem alteration of bone. Burial conditions are one of the factors that can influence the diagenesis process. We studied the changes to the organic and mineral components and crystallinity of human bone remains from five Medieval sites in Turkey: Hakemi Use, Komana, Iznik, Oluz Höyük and Tasmasor using Attenuated Total Reflectance Fourier Transform Infrared spectroscopy (ATR-FTIR) and principal component analysis (PCA). Analysis of spectral band ratios related to organic and mineral components of bone demonstrated differences in the molecular content in the skeletal remains from the five sites. In order to examine the degree of carbonation of a phosphate matrix, curve-fitting procedures were applied to the carbonate band. We found that the infrared crystallinity index appears to not be sensitive to carbonate content at room temperature for the bone remains studied here. The recrystallization process in bone remains behaved differently among the archaeological sites. The results demonstrate that the burial environments differently affect the organic and mineral components of archaeological bone remains.

Infrared spectroscopy as an alternative methodology to evaluate the effect of structural features on the physical-chemical properties of inulins.

Two types of inulins of different composition were investigated in the glassy and in the crystalline states, at relative humidities within 11 and 97%. The melting and glass transition temperatures (Tm, Tg), and their crystallinity indexes (CI) were determined by modulated differential-scanning calorimetry (MDSC) and wide-angle X-ray scattering (WAXS), respectively. In parallel assays, Fourier transform-infrared spectroscopy (FTIR) coupled to principal component analysis (PCA) enabled a physical-chemical and structural characterization of samples, explaining 90% of the total variance. Finally, partial least square (PLS) models were defined to determine Tg, Tm, and CI directly from the FTIR spectra, using the MDSC and WAXS results as reference methods. In all cases, the mean of predicted values fitted very well those of the reference methods (R2 > 0.961), thus supporting the use of the PLS models to investigate unknown samples. The robustness of the models underlines the usefulness of FTIR to easily determine physical-chemical parameters, otherwise requiring complex preparation of samples and prolonged times of analysis.

Raman spectroscopy quantification of eumelanin subunits in natural unaltered pigments.

Eumelanins are large polymers composed of 5,6-dihydroxyindole (DHI) and 5,6-dihydroxyindole-2-carboxylic acid (DHICA). Reactive oxygen species generation is higher during the synthesis of DHI than during the synthesis of DHICA; thus, the production of eumelanins with high relative DHI contents may compromise the viability of cells and organisms. Here, we show that dispersive Raman spectroscopy allows a noninvasive direct detection and quantification of DHI and DHICA in unaltered eumelanins that can be applied to the analysis of natural pigments in biological tissues. Using synthetic eumelanins purely composed of DHI or DHICA, we develop a model to determine the differential contribution of these subunits to the Raman spectra of mixed eumelanins, and exemplify the predictive capacity of the model with natural eumelanins deposited in black and gray feathers of fowl. We found that the wavenumber ranges of 550-1,200 and 1,650-2,300 cm-1 are significant to predict the DHI:DHICA ratio in unknown samples.

Transcriptome analysis in tissue sectors with contrasting crocins accumulation provides novel insights into apocarotenoid biosynthesis and regulation during chromoplast biogenesis.

Crocins, the red soluble apocarotenoids of saffron, accumulate in the flowers of Crocus species in a developmental and tissue-specific manner. In Crocus sieberi, crocins accumulate in stigmas but also in a distinct yellow tepal sector, which we demonstrate contains chromoplast converted from amyloplasts. Secondary metabolites were analysed by LC-DAD-HRMS, revealing the progressive accumulation of crocetin and crocins in the yellow sector, which were also localized in situ by Raman microspectroscopy. To understand the underlying mechanisms of crocin biosynthesis, we sequenced the C. sieberi tepal transcriptome of two differentially pigmented sectors (yellow and white) at two developmental stages (6 and 8) by Illumina sequencing. A total of 154 million high-quality reads were generated and assembled into 248,099 transcripts. Differentially expressed gene analysis resulted in the identification of several potential candidate genes involved in crocin metabolism and regulation. The results provide a first profile of the molecular events related to the dynamics of crocetin and crocin accumulation during tepal development, and present new information concerning apocarotenoid biosynthesis regulators and their accumulation in Crocus. Further, reveals genes that were previously unknown to affect crocin formation, which could be used to improve crocin accumulation in Crocus plants and the commercial quality of saffron spice.

Conformational Switching by Vibrational Excitation of a Remote NH Bond.

Here we describe an unprecedented reversible interconversion between two conformational states, accomplished by selective vibrational excitation of a bond remotely located in relation to the isomerizing fragment. In contrast to previous studies reporting conformational changes via vibrational excitation of a nearby OH group, in this study the transformations were successfully achieved by excitation of a distant NH stretching coordinate. The syn and anti forms of monomeric 6-methoxyindole, which differ in the orientation of the methoxy group, were trapped in low-temperature inert matrixes and characterized spectroscopically. These forms could be selectively shifted in both directions by using near-IR excitations tuned at the frequency of the first NH stretching overtone. The observed isomerization proves the possibility of efficient vibrational relaxation to carry the energy deposited at the NH stretching coordinate into the reactive C-O torsional mode localized on the methoxy group four bonds away from the excited NH moiety.

Role of S-layer proteins in the biosorption capacity of lead by Lactobacillus kefir.

The role of S-layer proteins (SLP) on the Pb(2+) sequestrant capacity by Lactobacillus kefir CIDCA 8348 and JCM 5818 was investigated. Cultures in the stationary phase were treated with proteinase K. A dot blot assay was carried out to assess the removal of SLP. Strains with and without SLP were exposed to 0-0.5 mM Pb(NO3)2. The maximum binding capacity (q max ) and the affinity coefficient (b) were calculated using the Langmuir equation. The structural effect of Pb(2+) on microorganisms with and without SLP was determined using Raman spectroscopy. The bacterial interaction with Pb(2+) led to a broadening in the phosphate bands (1,300-1,200 cm(-1) region) and strong alterations on amide and carboxylate-related bands (νCOO(-) as and νCOO(-) s). Microorganisms without SLP removed higher percentages of Pb(2+) and had higher q max than those bearing SLP. Isolated SLP had much lower q max and also removed lower percentages of Pb(2+) than the corresponding whole microorganisms. The hydrofobicity of both strains dramatically dropped when removing SLP. When bearing SLP, strains do not expose a large amount of charged groups on their surfaces, thus making less efficient the Pb(2+) removal. On the contrary, the extremely low hydrofobicity of microorganisms without SLP (and consequently, their higher capacity to remove Pb(2+)) can be explained on the basis of a greater exposure of charged chemical groups for the interaction with Pb(2+). The viability of bacteria without SLP was not significantly lower than that of bacteria bearing SLP. However, microorganisms without SLP were more prone to the detrimental effect of Pb(2+), thus suggesting that SLP acts as a protective rather than as a sequestrant layer.

Galacto-oligosaccharides and lactulose as protectants against desiccation of Lactobacillus delbrueckii subsp. bulcaricus.

Lactobacillus delbrueckii subsp. bulgaricus CIDCA 333 was dehydrated on desiccators containing silica gel in the presence of 20% w/w of two types of galacto-oligosaccharides (GOS Biotempo and GOS Cup Oligo H-70®) and lactulose, until no changes in water desorption were detected. After rehydration, bacterial growth was monitored at 37°C by determining: (a) the absorbance at 600 nm and (b) the near infrared spectra (NIR). Principal component analysis (PCA) was then performed on the NIR spectra of samples dehydrated in all conditions. A multiparametric flow cytometry assay was carried out using carboxyfluorescein diacetate and propidium iodide probes to determine the relative composition of damaged, viable, and dead bacteria throughout the growth kinetics. The absorbance at 600 nm and the position of the second derivative band at ∼1370 nm were plotted against the time of incubation. The efficiency of the protectants was GOS Biotempo > GOS Cup Oligo H-70® > lactulose. The better protectant capacity of GOS Biotempo was explained on the basis of the lower contribution of damaged cells immediately after rehydration (t = 0). PCA showed three groups along PC1, corresponding to the lag, exponential and stationary phases of growth, which explained 99% of the total variance. Along PC2, two groups were observed, corresponding to damaged or viable cells. The results obtained support the use of NIR to monitor the recovery of desiccated microorganisms in real time and without the need of chemical reagents. The use of GOS and lactulose as protectants in dehydration/rehydration processes was also supported.

Generation and characterization of a 4π-electron three-membered ring 1H-diazirine: An elusive intermediate in nitrile imine-carbodiimide isomerization.

The photolysis at 222 nm of 5-methyltetrazole isolated in a cryogenic argon matrix leads to formation of methyl nitrile imine as primary product. Subsequent irradiation at 328 nm induces transformation of the nitrile imine into 4π-electron three-membered-ring 3-methyl-1H-diazirine, which photorearranges to give methyl carbodiimide. These products were characterized by IR spectroscopy and theoretical calculations. For the first time, a 1H-diazirine was captured as intermediate in the photoisomerization of nitrile imines into carbodiimides.

Determination of amorphous/rubbery states in freeze-dried prebiotic sugars using a combined approach of near-infrared spectroscopy and multivariate analysis.

Galacto-oligosaccharides (GOS) and lactulose are well-recognized prebiotics widely used in functional food and pharmaceutical products, but there is still a lack of knowledge regarding their physical-chemical properties. In this study, a physical-chemical approach on two GOS of different composition (GOS Cup Oligo H-70® and GOS Biotempo) and lactulose was assessed. Mid infrared and Raman spectra of the freeze-dried sugars allowed their structural characterization in the amorphous state, lactulose, showing the main spectral differences. Freeze-dried sugars were then equilibrated at 4°C at relative humidity (RH) ranging from 11% to 80%. Near-infrared reflectance spectra were registered in each condition in the 900- to 1700-nm region. A principal component analysis (PCA) was performed on the three sugars equilibrated at different RH. In all the three sugars, the groups observed explained more than 95% of the variance and were related with the RH of the samples. According to the loading plots of PC1, the main differences related with RH were observed in the 1380- to 1500-nm region. As the amorphous states are very sensitive to changes in temperature and moisture content, and the moisture content is related with the parameter T-Tg (T: storage temperature; Tg: vitreous transition temperature), an effort was made to determine this parameter directly from the NIR spectra. To this aim, a partial least square model (PLS) was defined. Tg values obtained by differential scanning calorimetry (DSC) were used to calculate the T-Tg values of reference. The model was validated with an independent set of data. The mean of predicted values fitted nicely T-Tg obtained from DSC (correlation=0.966; R2=0.934), thus supporting the use of the PLS model to investigate unknown samples. The stability of amorphous sugars in foods and pharmaceuticals is of practical and economical importance because it affects different quality attributes of foods, including texture, aroma retention and shelf life. Therefore, predicting T-Tg, a parameter that is independent on the sugar investigated, directly from their NIR spectra is of utmost importance to determine the shelf life of food and food-related products and up to our knowledge has never been determined hereto.

Development of a method based on chemometric analysis of Raman spectra for the discrimination of heterofermentative lactobacilli.

In this work, a method based on Raman spectroscopy in combination with Principal Component Analysis (PCA) and Partial Least Square-Discriminant Analysis (PLS-DA) has been developed for the rapid differentiation of heterofermentative related lactobacilli. In a first approach, Lactobacillus kefir strains were discriminated from other species of heterofermentative lactobacilli: Lb. parakefir and Lb. brevis. After this first approach, PCA allowed for a clear differentiation between Lb. parakefir and Lb.brevis. For the first level of discrimination, PCA was performed on the whole spectra and also on delimited regions, defined taking into consideration the loading values. The best regions allowing a clear differentiation between Lb. kefir and non-Lb. kefir strains were found to be: the 1700-1500 cm(-1), 1500-1185 cm(-1) and 1800-400 (whole spectrum) cm(-1) Raman ranges. In order to develop a classification rule, PLS-DA was carried out on the mentioned regions. This method permitted the discrimination and classification of the strains under study in two groups: Lb. kefir and non-Lb. kefir. The model was further validated using lactobacilli strains from different culture collections or strains isolated from kefir grains previously identified using molecular methods. The second approach based on PCA was also performed on the whole spectra and on delimited regions, being the regions 1700-1500 cm(-1), 1500-1185 cm(-1) and 1185-1020 cm(-1), i.e., those allowing the clearest discrimination between Lb. parakefir and Lb. brevis. The results obtained in this work, allowed a clear discrimination within heterofermentative lactobacilli strains, proteins being the biological structures most determinant for this discrimination.

[Ultraviolet absorption of prescription sunblocks in Mexico]. / Absorción ultravioleta de los protectores solares para prescripción en México.

BACKGROUND: An appropriate sunscreen should provide high and broad ultraviolet protection both for the B and A range. The objective was quantify the ultraviolet absorption spectrum in sunscreens available for medical prescription, and analyze its relationship with the labeled Sun Protection Factor (SPF). MATERIAL AND METHODS: Thirty-nine sunscreens were analyzed in vitro using ultraviolet spectroscopy following exposure to simulated solar irradiation. RESULTS: Fifty-six percent of sunscreens absorbed 90% or more of ultraviolet radiation. Seventy-five percent (n = 34) absorbed more than 95% of ultraviolet B radiation, and 46% (n = 18) more than 90% of ultraviolet A. There was no significant association between ultraviolet absorption and SPF. CONCLUSION: We were unable to estimate ultraviolet absorption only by its SPF. Protection differed considerably among products with similar SPF. Our study highlights regulation deficiencies in marketing practices of these products.

Absorción ultravioleta de los protectores solares para prescripción en México / Ultraviolet absorption of prescription sunblocks in Mexico

Antecedentes: Un fotoprotector adecuado debe proporcionar una elevada y amplia protección ultravioleta no sólo para el rango B sino también para el A. El objetivo fue cuantificar el espectro de absorción ultravioleta en protectores solares disponibles para prescripción médica, y analizar su relación con el factor de protección solar mostrado en su etiqueta. Material y métodos: Se analizaron 39 protectores solares posterior a exposición de radiación solar simulada y cuantificación de su espectro de absorbancia ultravioleta in vitro. Resultados: 56% de los productos absorbió 90% o más radiación ultravioleta; 75% (n=34) absorbió más de 95% de radiación ultravioleta B, y 46% (n=18) más de 90% de ultravioleta A. No existió relación significativa entre la absorción ultravioleta y el factor de protección solar. Conclusiones: En esta muestra, la cantidad de absorción ultravioleta no pudo estimarse únicamente por el factor de protección solar, y la protección ultravioleta A varía significativamente entre productos con el mismo factor de protección solar. Este estudio hace evidente las deficiencias en la regulación para la comercialización de estos productos.

BACKGROUND: An appropriate sunscreen should provide high and broad ultraviolet protection both for the B and A range. The objective was quantify the ultraviolet absorption spectrum in sunscreens available for medical prescription, and analyze its relationship with the labeled Sun Protection Factor (SPF). MATERIAL AND METHODS: Thirty-nine sunscreens were analyzed in vitro using ultraviolet spectroscopy following exposure to simulated solar irradiation. RESULTS: Fifty-six percent of sunscreens absorbed 90% or more of ultraviolet radiation. Seventy-five percent (n = 34) absorbed more than 95% of ultraviolet B radiation, and 46% (n = 18) more than 90% of ultraviolet A. There was no significant association between ultraviolet absorption and SPF. CONCLUSION: We were unable to estimate ultraviolet absorption only by its SPF. Protection differed considerably among products with similar SPF. Our study highlights regulation deficiencies in marketing practices of these products.

Detection of the presence of antibodies against Toxoplasma gondii in human colostrum by Raman spectroscopy and principal component analysis.

More than 60 million people in the United States and 23 million people in Mexico probably are infected with the Toxoplasma parasite, but very few have symptoms because the immune system usually keeps the parasite from causing illness. However, for people whose immune system is compromised, the consequences can be fatal. Toxoplasmosis is detected indirectly by different serological tests, where the sample requires a previous preparation. We analyze the feasibility to use Raman spectroscopy and principal component analysis (PCA) as an alternative method to detect the presence or absence of antibodies IgG (immunoglobulin G), IgM (immunoglobulin M), and IgA (immunoglobulin A), against Toxoplasma gondii, in a simple and fast way, in samples of human colostrum from a group of volunteers who were in contact with the parasite and others who were not in contact with the parasite.