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Yin Y, Cui D, Chi Q, Xu H, Guan P, Zhang H, Jiao T, Wang X, Wang L, Sun H. Reactive oxygen species may be involved in the distinctive biological effects of different doses of 12C 6+ ion beams on Arabidopsis. FRONTIERS IN PLANT SCIENCE 2024; 14:1337640. [PMID: 38312361 PMCID: PMC10835405 DOI: 10.3389/fpls.2023.1337640] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Accepted: 12/31/2023] [Indexed: 02/06/2024]
Abstract
Introduction Heavy ion beam is a novel approach for crop mutagenesis with the advantage of high energy transfer line density and low repair effect after injury, however, little investigation on the biological effect on plant was performed. 50 Gy irradiation significantly stimulated the growth of Arabidopsis seedlings, as indicated by an increase in root and biomass, while 200 Gy irradiation significantly inhibited the growth of seedlings, causing a visible decrease in plant growth. Methods The Arabidopsis seeds were irradiated by 12C6+. Monte Carlo simulations were used to calculate the damage to seeds and particle trajectories by ion implantation. The seed epidermis received SEM detection and changes in its organic composition were detected using FTIR. Evidence of ROS and antioxidant systems were analyzed. RNA-seq and qPCR were used to detect changes in seedling transcript levels. Results and discussion Monte Carlo simulations revealed that high-dose irradiation causes various damage. Evidence of ROS and antioxidant systems implies that the emergence of phenotypes in plant cells may be associated with oxidative stress. Transcriptomic analysis of the seedlings demonstrated that 170 DEGs were present in the 50 Gy and 200 Gy groups and GO enrichment indicated that they were mainly associated with stress resistance and cell wall homeostasis. Further GO enrichment of DEGs unique to 50 Gy and 200 Gy revealed 58 50Gy-exclusive DEGs were enriched in response to oxidative stress and jasmonic acid entries, while 435 200 Gy-exclusive DEGs were enriched in relation to oxidative stress, organic cyclic compounds, and salicylic acid. This investigation advances our insight into the biological effects of heavy ion irradiation and the underlying mechanisms.
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Affiliation(s)
- Yue Yin
- Henan Key Laboratory of Ion-beam Bioengineering, School of Physics and Microelectronics, Zhengzhou University, Zhengzhou, China
- State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China
| | - Dongjie Cui
- Henan Key Laboratory of Ion-beam Bioengineering, School of Physics and Microelectronics, Zhengzhou University, Zhengzhou, China
- State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China
- Sanya Institute, Zhengzhou University, Zhengzhou, China
| | - Qing Chi
- State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China
- Sanya Institute, Zhengzhou University, Zhengzhou, China
| | - Hangbo Xu
- State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China
- Sanya Institute, Zhengzhou University, Zhengzhou, China
| | - Panfeng Guan
- State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China
- Sanya Institute, Zhengzhou University, Zhengzhou, China
| | - Hanfeng Zhang
- State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China
| | - Tao Jiao
- Asset Management Co., Ltd, Henan Institute of Science and Technology, Xinxiang, China
| | - Xiaojie Wang
- School of Bioengineering, Xinxiang University, Xinxiang, China
| | - Lin Wang
- College of Biology and Food Engineering, Anyang Institute of Technology, Anyang, China
| | - Hao Sun
- Henan Key Laboratory of Ion-beam Bioengineering, School of Physics and Microelectronics, Zhengzhou University, Zhengzhou, China
- State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China
- Sanya Institute, Zhengzhou University, Zhengzhou, China
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Poonprasartporn A, Xiao J, Chan KLA. A study of WZB117 as a competitive inhibitor of glucose transporter in high glucose treated PANC-1 cells by live-cell FTIR spectroscopy. Talanta 2024; 266:125031. [PMID: 37549570 DOI: 10.1016/j.talanta.2023.125031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Revised: 08/01/2023] [Accepted: 08/02/2023] [Indexed: 08/09/2023]
Affiliation(s)
- Anchisa Poonprasartporn
- Institute of Pharmaceutical Science, School of Cancer and Pharmaceutical Sciences, King's College London, SE1 9NH, United Kingdom.
| | - Jin Xiao
- Institute of Pharmaceutical Science, School of Cancer and Pharmaceutical Sciences, King's College London, SE1 9NH, United Kingdom
| | - K L Andrew Chan
- Institute of Pharmaceutical Science, School of Cancer and Pharmaceutical Sciences, King's College London, SE1 9NH, United Kingdom.
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Zupančič B, Ugwoke CK, Abdelmonaem MEA, Alibegović A, Cvetko E, Grdadolnik J, Šerbec A, Umek N. Exploration of macromolecular phenotype of human skeletal muscle in diabetes using infrared spectroscopy. Front Endocrinol (Lausanne) 2023; 14:1308373. [PMID: 38189046 PMCID: PMC10769457 DOI: 10.3389/fendo.2023.1308373] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/06/2023] [Accepted: 11/29/2023] [Indexed: 01/09/2024] Open
Abstract
Introduction The global burden of diabetes mellitus is escalating, and more efficient investigative strategies are needed for a deeper understanding of underlying pathophysiological mechanisms. The crucial role of skeletal muscle in carbohydrate and lipid metabolism makes it one of the most susceptible tissues to diabetes-related metabolic disorders. In tissue studies, conventional histochemical methods have several technical limitations and have been shown to inadequately characterise the biomolecular phenotype of skeletal muscle to provide a holistic view of the pathologically altered proportions of macromolecular constituents. Materials and methods In this pilot study, we examined the composition of five different human skeletal muscles from male donors diagnosed with type 2 diabetes and non-diabetic controls. We analysed the lipid, glycogen, and collagen content in the muscles in a traditional manner with histochemical assays using different staining techniques. This served as a reference for comparison with the unconventional analysis of tissue composition using Fourier-transform infrared spectroscopy as an alternative methodological approach. Results A thorough chemometric post-processing of the infrared spectra using a multi-stage spectral decomposition allowed the simultaneous identification of various compositional details from a vibrational spectrum measured in a single experiment. We obtained multifaceted information about the proportions of the different macromolecular constituents of skeletal muscle, which even allowed us to distinguish protein constituents with different structural properties. The most important methodological steps for a comprehensive insight into muscle composition have thus been set and parameters identified that can be used for the comparison between healthy and diabetic muscles. Conclusion We have established a methodological framework based on vibrational spectroscopy for the detailed macromolecular analysis of human skeletal muscle that can effectively complement or may even serve as an alternative to histochemical assays. As this is a pilot study with relatively small sample sets, we remain cautious at this stage in drawing definitive conclusions about diabetes-related changes in skeletal muscle composition. However, the main focus and contribution of our work has been to provide an alternative, simple and efficient approach for this purpose. We are confident that we have achieved this goal and have brought our methodology to a level from which it can be successfully transferred to a large-scale study that allows the effects of diabetes on skeletal muscle composition and the interrelationships between the macromolecular tissue alterations due to diabetes to be investigated.
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Affiliation(s)
- Barbara Zupančič
- Laboratory for Molecular Structural Dynamics, Theory Department, National Institute of Chemistry, Ljubljana, Slovenia
| | | | - Mohamed Elwy Abdelhamed Abdelmonaem
- Laboratory for Molecular Structural Dynamics, Theory Department, National Institute of Chemistry, Ljubljana, Slovenia
- Biotechnical Faculty, University of Ljubljana, Ljubljana, Slovenia
| | - Armin Alibegović
- Department of Forensic Medicine and Deontology, Faculty of Medicine, University of Ljubljana, Ljubljana, Slovenia
| | - Erika Cvetko
- Institute of Anatomy, Faculty of Medicine, University of Ljubljana, Ljubljana, Slovenia
| | - Jože Grdadolnik
- Laboratory for Molecular Structural Dynamics, Theory Department, National Institute of Chemistry, Ljubljana, Slovenia
| | - Anja Šerbec
- Institute of Anatomy, Faculty of Medicine, University of Ljubljana, Ljubljana, Slovenia
| | - Nejc Umek
- Institute of Anatomy, Faculty of Medicine, University of Ljubljana, Ljubljana, Slovenia
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Guillard J, Untereiner V, Garnotel R, Boulagnon-Rombi C, Gobinet C, Proult I, Sockalingum GD, Thiéfin G. Longitudinal Study of Cirrhosis Development in STAM and carbon tetrachloride Mouse Models Using Fourier Transform Infrared Spectral Imaging. J Transl Med 2023; 103:100231. [PMID: 37544611 DOI: 10.1016/j.labinv.2023.100231] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2022] [Revised: 07/31/2023] [Accepted: 07/31/2023] [Indexed: 08/08/2023] Open
Abstract
Animal models of cirrhosis are of great interest to investigate the pathological process leading to the final stage of cirrhosis. The aim of this study was to analyze the different steps involved in the progressive development of cirrhosis using Fourier transform infrared spectral histology in 2 mouse models of cirrhosis, the STAM model of metabolic cirrhosis, and the carbon tetrachloride-induced cirrhosis model. Formalin-fixed, paraffin-embedded liver samples were obtained from 3 mice at 5 time points in each model to analyze the course of hepatic lesions up to the formation of cirrhosis. For each time point, adjacent 3-μm-thick liver sections were obtained for histologic stains and spectral histology. Fourier transform infrared acquisitions of liver sections were performed at projected pixel sizes of 25 μm × 25 μm and 6.25 μm × 6.25 μm. Spectral images were then preprocessed with an extended multiplicative signal correction and analyzed with common k-means clustering, including all stages in each model. In both models, the 2- and 4-class common k-means clustering in the 1000 to 1350 cm-1 range showed that spectral classes characterized by higher absorbance peaks of glycogen were predominant at baseline, then decreased markedly in early stages of hepatic damage, and almost disappeared in cirrhotic tissues. Concomitantly, spectral classes characterized by higher absorbance peaks of nucleic acids became progressively predominant during the course of hepatic lesions. These results were confirmed using k-means clustering on the peaks of interest identified for glycogen and nucleic acid content. Our study showed that the glycogen depletion previously described at the stage of cirrhosis is an early event in the pathological process, independently of the cause of cirrhosis. In addition, there was a progressive increase in the nucleic acid content, which may be linked to increased proliferation and polyploidy in response to cellular lesions.
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Affiliation(s)
- Julien Guillard
- Université de Reims Champagne-Ardenne, BioSpecT, Reims, France
| | - Valérie Untereiner
- Université de Reims Champagne-Ardenne, Plateforme en Imagerie Cellulaire et Tissulaire, Reims, France
| | - Roselyne Garnotel
- Université de Reims Champagne-Ardenne, BioSpecT, Reims, France; Laboratoire de Biochimie-Pharmacologie-Toxicologie, Pôle de Biologie Territoriale, Centre Hospitalo-Universitaire de Reims, Reims, France
| | - Camille Boulagnon-Rombi
- Laboratoire de Biopathologie, Pôle de Biologie Territoriale, Centre Hospitalo-Universitaire de Reims, Reims, France
| | - Cyril Gobinet
- Université de Reims Champagne-Ardenne, BioSpecT, Reims, France
| | - Isabelle Proult
- Université de Reims Champagne-Ardenne, Centre National de la Recherche Scientifique, MEDyC, Reims, France
| | | | - Gérard Thiéfin
- Université de Reims Champagne-Ardenne, BioSpecT, Reims, France; Service d'Hépato-Gastroentérologie et de Cancérologie Digestive, Centre Hospitalo-Universitaire de Reims, Reims, France.
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Ali S, Naveed A, Hussain I, Qazi J. Diagnosis and monitoring of hepatocellular carcinoma in Hepatitis C virus patients using attenuated total reflection Fourier transform infrared spectroscopy. Photodiagnosis Photodyn Ther 2023; 43:103677. [PMID: 37390855 DOI: 10.1016/j.pdpdt.2023.103677] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 06/22/2023] [Accepted: 06/23/2023] [Indexed: 07/02/2023]
Abstract
BACKGROUND Current diagnostic methods for assessment of hepatitis C virus related hepatocellular carcinoma and subsequent categorization of hepatocellular carcinoma into non-angio-invasive hepatocellular carcinoma and angio-invasive hepatocellular carcinoma, to establish appropriate treatment strategies, are costly, invasive and requires multiple screening steps. This demands alternative diagnostic approaches that are cost-effective, time-efficient, and minimally invasive, while maintaining their efficacy for screening of hepatitis c virus related hepatocellular carcinoma. In this study, we propose that attenuated total reflection Fourier transform infrared in conjunction with principal component analysis - linear discriminant analysis and support vector machine multivariate algorithms holds a potential as a sensitive tool for the detection of hepatitis C virus-related hepatocellular carcinoma and the subsequent categorization of hepatocellular carcinoma into non-angio-invasive hepatocellular carcinoma and angio-invasive hepatocellular carcinoma. METHODS Freeze-dried sera samples collected from 31 hepatitis c virus related hepatocellular carcinoma patients and 30 healthy individuals, were used to acquire mid-infrared absorbance spectra (3500-900 cm-1) using attenuated total reflection Fourier transform infrared. Chemometric machine learning techniques were utilized to build principal component analysis - linear discriminant analysis and support vector machine discriminant models for the spectral data of hepatocellular carcinoma patients and healthy individuals. Sensitivity, specificity, and external validation on blind samples were calculated. RESULTS Major variations were observed in the two spectral regions i.e., 3500-2800 and 1800-900 cm-1. IR spectral signatures of hepatocellular carcinoma were reliably different from healthy individuals. Principal component analysis - linear discriminant analysis and support vector machine models computed 100% accuracy for diagnosing hepatocellular carcinoma. To classify the non-angio-invasive hepatocellular carcinoma/ angio-invasive hepatocellular carcinoma status, diagnostic accuracy of 86.21% was achieved for principal component analysis - linear discriminant analysis. While the support vector machine showed a training accuracy of 98.28% and a cross-validation accuracy of 82.75%. External validation for support vector machine based classification observed 100% sensitivity and specificity for accurately classifying the freeze-dried sera samples for all categories. CONCLUSIONS We present the specific spectral signatures for non-angio-invasive hepatocellular carcinoma and angio-invasive hepatocellular carcinoma, which were prominently differentiated from healthy individuals. This study provides an initial insight into the potential of attenuated total reflection Fourier transform infrared to diagnose hepatitis C virus related hepatocellular carcinoma but also to further categorize into non-angio-invasive and angio-invasive hepatocellular carcinoma.
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Affiliation(s)
- Salmann Ali
- Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Ammara Naveed
- Department of gastroenterology and hepatology, Pakistan Kidney and Liver Institute, Lahore, Pakistan
| | - Irshad Hussain
- Department of Chemistry &Chemical Engineering, Syed Babar Ali School of Science and Engineering, Lahore University of Management Sciences (LUMS), DHA, Lahore Cantt 54792, Pakistan
| | - Javaria Qazi
- Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, Pakistan.
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Maitra I, Morais CLM, Lima KMG, Ashton KM, Bury D, Date RS, Martin FL. Attenuated Total Reflection Fourier-Transform Infrared Spectral Discrimination in Human Tissue of Oesophageal Transformation to Adenocarcinoma. J Pers Med 2023; 13:1277. [PMID: 37623527 PMCID: PMC10455976 DOI: 10.3390/jpm13081277] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Revised: 08/11/2023] [Accepted: 08/17/2023] [Indexed: 08/26/2023] Open
Abstract
This study presents ATR-FTIR (attenuated total reflectance Fourier-transform infrared) spectral analysis of ex vivo oesophageal tissue including all classifications to oesophageal adenocarcinoma (OAC). The article adds further validation to previous human tissue studies identifying the potential for ATR-FTIR spectroscopy in differentiating among all classes of oesophageal transformation to OAC. Tissue spectral analysis used principal component analysis quadratic discriminant analysis (PCA-QDA), successive projection algorithm quadratic discriminant analysis (SPA-QDA), and genetic algorithm quadratic discriminant analysis (GA-QDA) algorithms for variable selection and classification. The variables selected by SPA-QDA and GA-QDA discriminated tissue samples from Barrett's oesophagus (BO) to OAC with 100% accuracy on the basis of unique spectral "fingerprints" of their biochemical composition. Accuracy test results including sensitivity and specificity were determined. The best results were obtained with PCA-QDA, where tissues ranging from normal to OAC were correctly classified with 90.9% overall accuracy (71.4-100% sensitivity and 89.5-100% specificity), including the discrimination between normal and inflammatory tissue, which failed in SPA-QDA and GA-QDA. All the models revealed excellent results for distinguishing among BO, low-grade dysplasia (LGD), high-grade dysplasia (HGD), and OAC tissues (100% sensitivities and specificities). This study highlights the need for further work identifying potential biochemical markers using ATR-FTIR in tissue that could be utilised as an adjunct to histopathological diagnosis for early detection of neoplastic changes in susceptible epithelium.
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Affiliation(s)
- Ishaan Maitra
- School of Pharmacy and Biomedical Sciences, University of Central Lancashire, Preston PR1 2HE, UK
| | - Camilo L. M. Morais
- Institute of Chemistry, Biological Chemistry and Chemometrics, Federal University of Rio Grande do Norte, Natal 59078-970, Brazil; (C.L.M.M.); (K.M.G.L.)
- Center for Education, Science and Technology of the Inhamuns Region, State University of Ceará, Tauá 63660-000, Brazil
| | - Kássio M. G. Lima
- Institute of Chemistry, Biological Chemistry and Chemometrics, Federal University of Rio Grande do Norte, Natal 59078-970, Brazil; (C.L.M.M.); (K.M.G.L.)
| | - Katherine M. Ashton
- Lancashire Teaching Hospitals NHS Foundation Trust, Royal Preston Hospital, Preston PR2 9HT, UK; (K.M.A.); (R.S.D.)
| | - Danielle Bury
- Department of Cellular Pathology, Blackpool Teaching Hospitals NHS Foundation Trust, Blackpool FY3 8NR, UK;
| | - Ravindra S. Date
- Lancashire Teaching Hospitals NHS Foundation Trust, Royal Preston Hospital, Preston PR2 9HT, UK; (K.M.A.); (R.S.D.)
| | - Francis L. Martin
- Department of Cellular Pathology, Blackpool Teaching Hospitals NHS Foundation Trust, Blackpool FY3 8NR, UK;
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Callery EL, Morais CLM, Nugent L, Rowbottom AW. Classification of Systemic Lupus Erythematosus Using Raman Spectroscopy of Blood and Automated Computational Detection Methods: A Novel Tool for Future Diagnostic Testing. Diagnostics (Basel) 2022; 12:diagnostics12123158. [PMID: 36553165 PMCID: PMC9777204 DOI: 10.3390/diagnostics12123158] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Revised: 12/08/2022] [Accepted: 12/11/2022] [Indexed: 12/16/2022] Open
Abstract
The aim of this study was to explore the proof of concept for using Raman spectroscopy as a diagnostic platform in the setting of systemic lupus erythematosus (SLE). We sought to identify unique Raman signatures in serum blood samples to successfully segregate SLE patients from healthy controls (HC). In addition, a retrospective audit was undertaken to assess the clinical utility of current testing platforms used to detect anti-double stranded DNA (dsDNA) antibodies (n = 600). We examined 234 Raman spectra to investigate key variances between SLE patients (n = 8) and HC (n = 4). Multi-variant analysis and classification model construction was achieved using principal component analysis (PCA), PCA-linear discriminant analysis and partial least squares-discriminant analysis (PLS-DA). We achieved the successful segregation of Raman spectra from SLE patients and healthy controls (p-value < 0.0001). Classification models built using PLS-DA demonstrated outstanding performance characteristics with 99% accuracy, 100% sensitivity and 99% specificity. Twelve statistically significant (p-value < 0.001) wavenumbers were identified as potential diagnostic spectral markers. Molecular assignments related to proteins and DNA demonstrated significant Raman intensity changes between SLE and HC groups. These wavenumbers may serve as future biomarkers and offer further insight into the pathogenesis of SLE. Our audit confirmed previously reported inconsistencies between two key methodologies used to detect anti-dsDNA, highlighting the need for improved laboratory testing for SLE. Raman spectroscopy has demonstrated powerful performance characteristics in this proof-of-concept study, setting the foundations for future translation into the clinical setting.
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Affiliation(s)
- Emma L. Callery
- Department of Immunology, Royal Preston Hospital, Preston PR2 9HT, UK
- Correspondence: (E.L.C.); (A.W.R.)
| | - Camilo L. M. Morais
- Institute of Chemistry, Federal University of Rio Grande do Norte, Natal 59072-970, Brazil
| | - Lucy Nugent
- Department of Immunology, Whiston Hospital, Prescot L35 5DR, UK
| | - Anthony W. Rowbottom
- Department of Immunology, Royal Preston Hospital, Preston PR2 9HT, UK
- School of Medicine, University of Central Lancashire, Preston PR1 2HE, UK
- Correspondence: (E.L.C.); (A.W.R.)
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Zupančič B, Umek N, Ugwoke CK, Cvetko E, Horvat S, Grdadolnik J. Application of FTIR Spectroscopy to Detect Changes in Skeletal Muscle Composition Due to Obesity with Insulin Resistance and STZ-Induced Diabetes. Int J Mol Sci 2022; 23:ijms232012498. [PMID: 36293355 PMCID: PMC9603871 DOI: 10.3390/ijms232012498] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2022] [Revised: 10/12/2022] [Accepted: 10/14/2022] [Indexed: 11/16/2022] Open
Abstract
Age, obesity, and diabetes mellitus are pathophysiologically interconnected factors that significantly contribute to the global burden of non-communicable diseases. These metabolic conditions are associated with impaired insulin function, which disrupts the metabolism of carbohydrates, lipids, and proteins and can lead to structural and functional changes in skeletal muscle. Therefore, the alterations in the macromolecular composition of skeletal muscle may provide an indication of the underlying mechanisms of insulin-related disorders. The aim of this study was to investigate the potential of Fourier transform infrared (FTIR) spectroscopy to reveal the changes in macromolecular composition in weight-bearing and non-weight-bearing muscles of old, obese, insulin-resistant, and young streptozotocin (STZ)-induced diabetic mice. The efficiency of FTIR spectroscopy was evaluated by comparison with the results of gold-standard histochemical techniques. The differences in biomolecular phenotypes and the alterations in muscle composition in relation to their functional properties observed from FTIR spectra suggest that FTIR spectroscopy can detect most of the changes observed in muscle tissue by histochemical analyses and more. Therefore, it could be used as an effective alternative because it allows for the complete characterization of macromolecular composition in a single, relatively simple experiment, avoiding some obvious drawbacks of histochemical methods.
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Affiliation(s)
- Barbara Zupančič
- Laboratory for Molecular Structural Dynamics, Theory Department, National Institute of Chemistry, 1000 Ljubljana, Slovenia
| | - Nejc Umek
- Institute of Anatomy, Faculty of Medicine, University of Ljubljana, 1000 Ljubljana, Slovenia
- Correspondence: (N.U.); (J.G.)
| | | | - Erika Cvetko
- Institute of Anatomy, Faculty of Medicine, University of Ljubljana, 1000 Ljubljana, Slovenia
| | - Simon Horvat
- Chair for Genetics, Biotechnology and Immunology, Biotechnical Faculty, University of Ljubljana, 1230 Domžale, Slovenia
| | - Jože Grdadolnik
- Laboratory for Molecular Structural Dynamics, Theory Department, National Institute of Chemistry, 1000 Ljubljana, Slovenia
- Correspondence: (N.U.); (J.G.)
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Poonprasartporn A, Chan KA. Label-free study of intracellular glycogen level in metformin and resveratrol-treated insulin-resistant HepG2 by live-cell FTIR spectroscopy. Biosens Bioelectron 2022; 212:114416. [DOI: 10.1016/j.bios.2022.114416] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2022] [Revised: 05/13/2022] [Accepted: 05/19/2022] [Indexed: 11/25/2022]
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Egyir M, Luyima D, Park SJ, Lee KS, Oh TK. Volatilisations of ammonia from the soils amended with modified and nitrogen-enriched biochars. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 835:155453. [PMID: 35469865 DOI: 10.1016/j.scitotenv.2022.155453] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2022] [Revised: 04/15/2022] [Accepted: 04/18/2022] [Indexed: 06/14/2023]
Abstract
Biochar's capacity to abate NH3 emissions from fertilised agricultural soils may be enhanced through both modifications and formulation of slow-release biochar-based N fertilisers but there is a dearth of data in this area. Sulphuric acid (H2SO4), hydrogen peroxide (H2O2) and potassium hydroxide (KOH) were used to modify biochars which are denoted as BSAD, BHPO and BKOH, respectively. Nitrogen (N) enrichment was performed using urea and ammonium nitrate and the enriched biochars are denoted as BUR and BAN, respectively. The biochars were characterised by scanning electron microscopy (SEM), energy-dispersive X-ray spectroscopy (EDS), Fourier-transform infrared spectroscopy (FTIR), and X-ray photoelectron spectroscopy (XPS). The ammonia abatement potentials of both the modified and N-enriched biochars were assessed in the incubation experiments which lasted for 30 days. Urea was used as a control while non-modified biochar (PrBC) was included for comparison. Compared to the control, PrBC, BKOH, BHPO, BSAD, BUR and BAN attenuated gaseous NH3 emissions by 57.62%, 63.06%, 73.23% and 74.85%, 79.93% and 82.88%, respectively. Biochar modifications increased the content of oxygen containing surface groups especially carboxyl and sulphoxide in the case of BSAD as depicted from the instrumental analysis data, which most probably increased the sorption of NH3 and its transformation to nitrates thus, resulting in a higher NH3 abatement capacity than that of PrBC. XPS data indicated that N-enrichment resulted in reactions of N with the surface groups of biochar which slowed its release, concomitantly lowering NH3 volatilisation better than even the modified biochars.
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Affiliation(s)
- Michael Egyir
- Department of Bio-Environmental Chemistry, College of Agricultural and Life Sciences, Chungnam National University, Daejeon 34134, Republic of Korea
| | - Deogratius Luyima
- Department of Bio-Environmental Chemistry, College of Agricultural and Life Sciences, Chungnam National University, Daejeon 34134, Republic of Korea
| | - Seong-Jin Park
- Department of Soil and Fertilisers, National Institute of Agricultural Sciences, RDA, Wanju 55365, Republic of Korea.
| | - Kyo Suk Lee
- Department of Bio-Environmental Chemistry, College of Agricultural and Life Sciences, Chungnam National University, Daejeon 34134, Republic of Korea; Institute of Agricultural Sciences Research, Chungnam National University, Daejeon 34134, Republic of Korea.
| | - Taek-Keun Oh
- Department of Bio-Environmental Chemistry, College of Agricultural and Life Sciences, Chungnam National University, Daejeon 34134, Republic of Korea.
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11
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Cui D, Kong L, Wang Y, Zhu Y, Zhang C. In situ identification of environmental microorganisms with Raman spectroscopy. ENVIRONMENTAL SCIENCE AND ECOTECHNOLOGY 2022; 11:100187. [PMID: 36158754 PMCID: PMC9488013 DOI: 10.1016/j.ese.2022.100187] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Revised: 05/13/2022] [Accepted: 05/15/2022] [Indexed: 05/28/2023]
Abstract
Microorganisms in natural environments are crucial in maintaining the material and energy cycle and the ecological balance of the environment. However, it is challenging to delineate environmental microbes' actual metabolic pathways and intraspecific heterogeneity because most microorganisms cannot be cultivated. Raman spectroscopy is a culture-independent technique that can collect molecular vibration profiles from cells. It can reveal the physiological and biochemical information at the single-cell level rapidly and non-destructively in situ. The first part of this review introduces the principles, advantages, progress, and analytical methods of Raman spectroscopy applied in environmental microbiology. The second part summarizes the applications of Raman spectroscopy combined with stable isotope probing (SIP), fluorescence in situ hybridization (FISH), Raman-activated cell sorting and genomic sequencing, and machine learning in microbiological studies. Finally, this review discusses expectations of Raman spectroscopy and future advances to be made in identifying microorganisms, especially for uncultured microorganisms.
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Affiliation(s)
- Dongyu Cui
- Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, 511458, China
- Department of Ocean Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Lingchao Kong
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science & Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Yi Wang
- Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, 511458, China
- Department of Ocean Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Yuanqing Zhu
- Department of Ocean Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
- Shanghai Sheshan National Geophysical Observatory, Shanghai Earthquake Agency, Shanghai, 200062, China
| | - Chuanlun Zhang
- Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, 511458, China
- Department of Ocean Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
- Shenzhen Key Laboratory of Marine Archaea Geo-Omics, University of Southern University of Science and Technology, Shenzhen, 518055, China
- Shanghai Sheshan National Geophysical Observatory, Shanghai Earthquake Agency, Shanghai, 200062, China
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12
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El-Naggar NEA, Hamouda RA, Abou-El-Souod GW. Statistical optimization for simultaneous removal of methyl red and production of fatty acid methyl esters using fresh alga Scenedesmus obliquus. Sci Rep 2022; 12:7156. [PMID: 35504903 PMCID: PMC9065141 DOI: 10.1038/s41598-022-11069-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2021] [Accepted: 04/08/2022] [Indexed: 11/08/2022] Open
Abstract
Microalgae are a diverse group of microorganisms, the majority of which are photosynthetic in nature. Microalgae have different applications, the most important of which is the biological treatment of wastewater. Microalgae grow in various types of wastewater, such as wastewater polluted by Azo dyes, due to microalgae using wastewater as a culture medium, which contains many nutrients like nitrogen, phosphate, and carbon sources. Microalgae grow in various types of wastewater, such as wastewater polluted by Azo dyes, due to microalgae using wastewater as a culture medium, which contains many nutrients like nitrogen, phosphate, and carbon sources. So, microalgae are used for bioremediation of wastewater due to the efficiency of growing in wastewater and for the high production of lipids followed by trans-esterification to biodiesel. Face-centered central composite design (FCCCD) was used to determine the factors that have the most significant impact on the simultaneous decolorization of methyl red and lipid production by the fresh green alga Scenedesmus obliquus. The predicted results indicated that the alga decolorized 70.15% methyl red and produced 20.91% lipids by using 1 g/L nitrogen, an incubation time of 10 days, a pH of 8, and the concentration of methyl red is 17.65 mg/L. The dry biomasses of S. obliquus were also examined by SEM and FTIR before and after treatment with methyl red. SEM and FTIR showed that the properties of dry S. obliquus were altered after the biosorption of methyl red. According to GC-MS analysis of hexane extracts of S. obliquus, the lipid profile differed before and after methyl red decolorization. The results proved that it is possible to use S. obliquus to remove dyes and produce renewable fuels such as biodiesel. The novelty of this study is that this is the first time in which the effect of nitrogen concentrations in the medium used for algal growth on the removal of dye has been studied.
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Affiliation(s)
- Noura El-Ahmady El-Naggar
- Department of Bioprocess Development, Genetic Engineering and Biotechnology Research Institute, City of Scientific Research and Technological Applications (SRTA-City), New Borg El‑Arab City, 21934, Alexandria, Egypt.
| | - Ragaa A Hamouda
- Department of Biology, College of Sciences and Arts Khulis, University of Jeddah, Jeddah, Saudi Arabia
- Department of Microbial Biotechnology, Genetic Engineering and Biotechnology Research Institute (GEBRI), University of Sadat City, Sadat City, Egypt
| | - Ghada W Abou-El-Souod
- Department of Botany and Microbiology, Faculty of Science, Menoufia University, Shibīn al-Kawm, Menoufia, Egypt
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Hamouda RA, Salman AS, Alharbi AA, Alhasani RH, Elshamy MM. Assessment of the Antigenotoxic Effects of Alginate and ZnO/Alginate-Nanocomposites Extracted from Brown Alga Fucus vesiculosus in Mice. Polymers (Basel) 2021; 13:polym13213839. [PMID: 34771394 PMCID: PMC8587912 DOI: 10.3390/polym13213839] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2021] [Revised: 10/29/2021] [Accepted: 11/01/2021] [Indexed: 01/01/2023] Open
Abstract
Mitomycin C (MMC) is an alkylating chemotherapy drug that could induce DNA damage and genetic alteration. It has been used as a model mutagen for in vivo and in vitro studies. The current study aimed to evaluate the protective role of Zinc oxide alginate–nanocomposites (ZnO-Alg/NCMs) against MMC–induced genotoxicity in mice. Animals were treated as follows: the control group, the groups treated with Algin (400 mg/kg b.w), the groups treated with ZnO-Alg/NCMs (400 mg/kg b.w), the group treated with MMC, and the groups treated with MMC plus Algin or ZnO-Alg/NCMs. Pre-treatment with Algin and ZnO-Alg/NCMs was repeated for one or seven days. Zinc oxide alginate-nanocomposites (ZnO-Alg/NCMs) were synthesized with the aim of incorporating the intrinsic properties of their constituents as an antigenotoxic substance. In this study, alginate was extracted from the brown marine alga Fucus vesiculosus, Zinc oxide nanoparticles were synthesized by using water extract of the same alga, and loaded in alginate to synthesize ZnO-Alg/NCMs. ZnO-NPs and ZnO-Alg/NCMs were characterized by TEM, SEM, EDX, and Zeta potential. The obtained results confirmed that by TEM and SEM, ZnO-NPs are rod shaped which modified, when loaded in alginate matrix, into spherical shape. The physical stability of ZnO-Alg/NCMs was reported to be higher than ZnO-NPs due to the presence of more negative charges on ZnO-Alg/NCMs. The EDX analysis indicated that the amount of zinc was higher in ZnO-NPs than ZnO-Alg/NCMs. The in vivo results showed that treatment with MMC induced genotoxic disturbances. The combined treatment with Algin and ZnO-Alg/NCMs succeeded in inducing significant protection against MMC. It could be concluded that ZnO-Algin/NCMs is a promising candidate to protect against MMC–induced genotoxicity.
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Affiliation(s)
- Ragaa A. Hamouda
- Department of Biology, College of Sciences and Arts Khulais, University of Jeddah, Jeddah 21959, Saudi Arabia; (A.S.S.); (A.A.A.)
- Microbial Biotechnology Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), University of Sadat City, Sadat City 32897, Egypt
- Correspondence:
| | - Asmaa S. Salman
- Department of Biology, College of Sciences and Arts Khulais, University of Jeddah, Jeddah 21959, Saudi Arabia; (A.S.S.); (A.A.A.)
- Genetic and Cytology Department, National Research Center, Cairo 12622, Egypt
| | - Asrar A. Alharbi
- Department of Biology, College of Sciences and Arts Khulais, University of Jeddah, Jeddah 21959, Saudi Arabia; (A.S.S.); (A.A.A.)
| | - Reem Hasaballah Alhasani
- Department of Biology, Faculty of Applied Science, Umm Al-Qura University, Makkah 21961, Saudi Arabia;
| | - Maha M. Elshamy
- Botany Department, Faculty of Science, Mansoura University, Mansoura 35516, Egypt;
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Chen T, Li J, Xu L, Zhang D, Wang Z, Chen H. Deactivation of Caenorhabditis elegans nematodes in drinking water by PMS/UV-C: efficiency and mechanisms. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:58606-58616. [PMID: 34117548 DOI: 10.1007/s11356-021-14312-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2021] [Accepted: 05/03/2021] [Indexed: 06/12/2023]
Abstract
The occurrence and infestations of chlorine-resistant invertebrates in drinking water distributions have attracted concerns on water quality in China, making effective deactivation imperative. This study presents a novel strategy for nematode (Caenorhabditis elegans) deactivation using peroxymonosulfate (PMS)/UV-C. The results indicated that 100% deactivation efficiency was obtained under optimal conditions. An acidic pH and 0.25 mg/L Fe(II) were beneficial to the PMS/UV-C-triggered deactivation of nematodes. A mechanism study demonstrated that [Formula: see text] was activated by UV-C to produce ·OH and [Formula: see text], which resulted in oxidative stress and stimulated the occurrence of cell apoptosis, leading to nematode deactivation. The results reveal PMS/UV-C as an alternative to chlorination in water treatment plants (WTP) or an emergency application when chlorine-resistant invertebrates breed in a second-supply water tank is a promising strategy for disinfection. This approach possessed the advantages of avoiding the production of chlorine disinfection by-products (DBP) and greater efficacy of nematode deactivation. This work will provide ideas for on-going research efforts into chlorine-resistant invertebrate deactivation and eventually achieve the direct drinking of municipal tap water.
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Affiliation(s)
- Taoqin Chen
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai, 200092, China
| | - Jinzhe Li
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai, 200092, China
| | - Longqian Xu
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai, 200092, China
| | - Dong Zhang
- National Engineering Research Center of Urban Water Resources, Shanghai National Engineering Research Center of Urban Water Resources Co. Ltd, Shanghai, 200082, China
| | - Zheng Wang
- National Engineering Research Center of Urban Water Resources, Shanghai National Engineering Research Center of Urban Water Resources Co. Ltd, Shanghai, 200082, China
| | - Hongbin Chen
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai, 200092, China.
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Vannocci T, Quaroni L, de Riso A, Milordini G, Wolna M, Cinque G, Pastore A. Label-Free, Real-Time Measurement of Metabolism of Adherent and Suspended Single Cells by In-Cell Fourier Transform Infrared Microspectroscopy. Int J Mol Sci 2021; 22:ijms221910742. [PMID: 34639083 PMCID: PMC8509135 DOI: 10.3390/ijms221910742] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2021] [Revised: 09/20/2021] [Accepted: 09/23/2021] [Indexed: 11/16/2022] Open
Abstract
We used infrared (IR) microscopy to monitor in real-time the metabolic turnover of individual mammalian cells in morphologically different states. By relying on the intrinsic absorption of mid-IR light by molecular components, we could discriminate the metabolism of adherent cells as compared to suspended cells. We identified major biochemical differences between the two cellular states, whereby only adherent cells appeared to rely heavily on glycolytic turnover and lactic fermentation. We also report spectroscopic variations that appear as spectral oscillations in the IR domain, observed only when using synchrotron infrared radiation. We propose that this effect could be used as a reporter of the cellular conditions. Our results are instrumental in establishing IR microscopy as a label-free method for real-time metabolic studies of individual cells in different morphological states, and in more complex cellular ensembles.
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Affiliation(s)
- Tommaso Vannocci
- UK Dementia Research Institute at The Wohl Institute of King’s College London, London SE5 9RT, UK; (T.V.); (G.M.)
| | - Luca Quaroni
- Department of Physical Chemistry and Electrochemistry, Faculty of Chemistry, Jagiellonian University, 30-386 Kraków, Poland
- Correspondence: (L.Q.); (A.P.)
| | - Antonio de Riso
- Evotec (UK) Ltd., Dorothy Crowfoot Hodgkin Campus, Milton Park, Abingdon OX14 4RZ, UK;
| | - Giulia Milordini
- UK Dementia Research Institute at The Wohl Institute of King’s College London, London SE5 9RT, UK; (T.V.); (G.M.)
| | - Magda Wolna
- MIRIAM beamline B22, Diamond Light Source, Harwell Campus, Didcot OX11 0DE, UK; (M.W.); (G.C.)
| | - Gianfelice Cinque
- MIRIAM beamline B22, Diamond Light Source, Harwell Campus, Didcot OX11 0DE, UK; (M.W.); (G.C.)
| | - Annalisa Pastore
- UK Dementia Research Institute at The Wohl Institute of King’s College London, London SE5 9RT, UK; (T.V.); (G.M.)
- Correspondence: (L.Q.); (A.P.)
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16
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Willenbacher E, Brunner A, Zelger B, Unterberger SH, Stalder R, Huck CW, Willenbacher W, Pallua JD. Application of mid-infrared microscopic imaging for the diagnosis and classification of human lymphomas. JOURNAL OF BIOPHOTONICS 2021; 14:e202100079. [PMID: 34159739 DOI: 10.1002/jbio.202100079] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2021] [Revised: 06/15/2021] [Accepted: 06/15/2021] [Indexed: 06/13/2023]
Abstract
Mid-infrared (MIR) microscopic imaging of indolent and aggressive lymphomas was performed including formalin-fixed and paraffin-embedded samples of six follicular lymphomas and 12 diffuse large B-cell-lymphomas as well as reactive lymph nodes to investigate benefits and challenges for lymphoma diagnosis. MIR images were compared to defined pathological characteristics such as indolent versus aggressive versus reactive, germinal centre versus activated cell-of-origin (COO) subtypes, or a low versus a high proliferative index and level of PD-L1 expression. We demonstrated that MIR microscopic imaging can differentiate between reactive lymph nodes, indolent and aggressive lymphoma samples. Also, it has potential to be used in the subtyping of lymphomas, as shown with the differentiation between COO subtypes, the level of proliferation and PD-L1 expression. MIR microscopic imaging is a promising tool for diagnosis and subtyping of lymphoma and further evaluation is needed to fully explore the advantages and disadvantages of this method for pathological diagnosis.
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Affiliation(s)
- Ella Willenbacher
- Internal Medicine V: Hematology & Oncology, Medical University of Innsbruck, Innsbruck, Austria
| | - Andrea Brunner
- Institute of Pathology, Neuropathology and Molecular Pathology, Medical University of Innsbruck, Innsbruck, Austria
| | - Bettina Zelger
- Institute of Pathology, Neuropathology and Molecular Pathology, Medical University of Innsbruck, Innsbruck, Austria
| | | | - Roland Stalder
- Institute of Mineralogy and Petrography, Leopold-Franzens University Innsbruck, Innsbruck, Austria
| | - Christian W Huck
- Institute of Analytical Chemistry and Radiochemistry, Innsbruck, Austria
| | - Wolfgang Willenbacher
- Internal Medicine V: Hematology & Oncology, Medical University of Innsbruck, Innsbruck, Austria
- Oncotyrol, Center for personalized Cancer Medicine, Innsbruck, Austria
| | - Johannes D Pallua
- Institute of Pathology, Neuropathology and Molecular Pathology, Medical University of Innsbruck, Innsbruck, Austria
- University Hospital for Orthopedics and Traumatology, Medical University of Innsbruck, Innsbruck, Austria
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17
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Surface-enhanced Raman spectroscopy for comparison of serum samples of typhoid and tuberculosis patients of different stages. Photodiagnosis Photodyn Ther 2021; 35:102426. [PMID: 34217869 DOI: 10.1016/j.pdpdt.2021.102426] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 06/25/2021] [Accepted: 06/28/2021] [Indexed: 11/20/2022]
Abstract
BACKGROUND Surface-enhanced Raman spectroscopy (SERS) is a reliable tool for the identification and differentiation of two different human pathological conditions sharing the same symptomology, typhoid and tuberculosis (TB). OBJECTIVES To explore the potential of surface-enhanced Raman spectroscopy for differentiation of two different diseases showing the same symptoms and analysis by principal component analysis (PCA) and partial least square discriminate analysis (PLS-DA). METHODS Serum samples of clinically diagnosed typhoid and tuberculosis infected individuals were analyzed and differentiated by SERS using silver nanoparticles (Ag NPs) as a SERS substrate. For this purpose, the collected serum samples were analyzed under the SERS instrument and unique SERS spectra of typhoid and tuberculosis were compared showing notable spectral differences in protein, lipid and carbohydrates features. Different stages of the diseased class of typhoid (Early acute and late acute stage) and tuberculosis (Pulmonary and extra-pulmonary stage) were compared with each other and with healthy human serum samples, which were significantly separated. Moreover, SERS data was analyzed using multivariate data analysis techniques including principal component analysis (PCA) and partial least square discriminate analysis (PLS-DA) and differences were so prominent to observe. RESULTS SERS Spectral data of typhoid and tuberculosis showed clear differences and were significantly separated using PCA. SERS spectral data of both stages of typhoid and tuberculosis were separated according to 1st principle component. Moreover, by analyzing data using partial least square discriminate analysis, differentiation of two disease classes were considered more valid with a 100% value of sensitivity, specificity and accuracy. CONCLUSION SERS can be employed for identification and comparison of two different human pathological conditions sharing same symptomology.
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18
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K MG, Barzegari S, Hajian P, Zham H, Mirzaei HR, Shirazi FH. Diagnosis of normal and malignant human gastric tissue samples by FTIR spectra combined with mathematical models. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129493] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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19
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Mistek-Morabito E, Lednev IK. Discrimination of menstrual and peripheral blood traces using attenuated total reflection Fourier transform-infrared (ATR FT-IR) spectroscopy and chemometrics for forensic purposes. Anal Bioanal Chem 2021; 413:2513-2522. [PMID: 33580831 DOI: 10.1007/s00216-021-03206-w] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2020] [Revised: 12/23/2020] [Accepted: 01/29/2021] [Indexed: 12/22/2022]
Abstract
Body fluid traces can provide highly valuable clues in forensic investigations. In particular, bloodstains are a common occurrence in criminal investigation, and the discrimination of menstrual and peripheral blood is a crucial step for casework involving rape and sexual assault. Most of the current protocols require the detection of characteristic menstrual blood components using sophisticated procedures that need to be performed in a laboratory. The present study uses attenuated total reflection Fourier transform-infrared (ATR FT-IR) spectroscopy as a nondestructive technique for discriminating menstrual and peripheral blood traces. This method incorporates statistical analysis and was evaluated by internal and external validation testing. A partial least squares discriminant analysis (PLSDA) classification model was created for differentiating the two types of blood in a binary manner. Excellent separation between menstrual and peripheral blood samples was achieved during internal validation. External validation resulted in 100% accuracy for predicting a sample as peripheral or menstrual blood. This study demonstrates that ATR FT-IR spectroscopy combined with chemometrics is a reliable approach for rapid and nondestructive discrimination of menstrual and peripheral bloodstains. It offers a significant advantage to forensic science due to the availability of portable instruments and the potential for bloodstain analysis at a crime scene. Graphical abstract.
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Affiliation(s)
- Ewelina Mistek-Morabito
- Department of Chemistry, University at Albany, State University of New York, 1400 Washington Avenue, Albany, NY, 12222, USA
| | - Igor K Lednev
- Department of Chemistry, University at Albany, State University of New York, 1400 Washington Avenue, Albany, NY, 12222, USA.
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20
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Low-Vacuum Filtration as an Alternative Extracellular Vesicle Concentration Method: A Comparison with Ultracentrifugation and Differential Centrifugation. Pharmaceutics 2020; 12:pharmaceutics12090872. [PMID: 32933147 PMCID: PMC7558926 DOI: 10.3390/pharmaceutics12090872] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2020] [Revised: 08/29/2020] [Accepted: 09/06/2020] [Indexed: 12/16/2022] Open
Abstract
Recent years have brought great focus on the development of drug delivery systems based on extracellular vesicles (EVs). Considering the possible applications of EVs as drug carriers, the isolation process is a crucial step. To solve the problems involved in EV isolation, we developed and validated a new EV isolation method—low-vacuum filtration (LVF)—and compared it with two commonly applied procedures—differential centrifugation (DC) and ultracentrifugation (UC). EVs isolated from endothelial cell culture media were characterized by (a) Transmission Electron Microscopy (TEM), (b) Nanoparticle Tracking Analysis (NTA), (c) Western blot and (d) Attenuated Total Reflection Fourier-Transform Infrared Spectroscopy (ATR-FTIR). Additionally, the membrane surface was imaged with Environmental Scanning Electron Microscopy (ESEM). We found that LVF was a reproducible and efficient method for EV isolation from conditioned media. Additionally, we observed a correlation between ATR-FTIR spectra quality and EV and protein concentration. ESEM imaging confirmed that the actual pore diameter was close to the values calculated theoretically. LVF is an easy, fast and inexpensive EV isolation method that allows for the isolation of both ectosomes and exosomes from high-volume sources with good repeatability. We believe that it could be an efficient alternative to commonly applied methods.
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21
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Moreau J, Bouzy P, Guillard J, Untereiner V, Garnotel R, Marchal A, Gobinet C, Terryn C, Sockalingum GD, Thiéfin G. Analysis of Hepatic Fibrosis Characteristics in Cirrhotic Patients with and without Hepatocellular Carcinoma by FTIR Spectral Imaging. Molecules 2020; 25:molecules25184092. [PMID: 32906799 PMCID: PMC7570752 DOI: 10.3390/molecules25184092] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2020] [Revised: 08/31/2020] [Accepted: 09/04/2020] [Indexed: 12/12/2022] Open
Abstract
The evolution of cirrhosis is marked by quantitative and qualitative modifications of the fibrosis tissue and an increasing risk of complications such as hepatocellular carcinoma (HCC). Our purpose was to identify by FTIR imaging the spectral characteristics of hepatic fibrosis in cirrhotic patients with and without HCC. FTIR images were collected at projected pixel sizes of 25 and 2.7 μm from paraffinized hepatic tissues of five patients with uncomplicated cirrhosis and five cirrhotic patients with HCC and analyzed by k-means clustering. When compared to the adjacent histological section, the spectral clusters corresponding to hepatic fibrosis and regeneration nodules were easily identified. The fibrosis area estimated by FTIR imaging was correlated to that evaluated by digital image analysis of histological sections and was higher in patients with HCC compared to those without complications. Qualitative differences were also observed when fibrosis areas were specifically targeted at higher resolution. The partition in two clusters of the fibrosis tissue highlighted subtle differences in the spectral characteristics of the two groups of patients. These data show that the quantitative and qualitative changes of fibrosis tissue occurring during the course of cirrhosis are detectable by FTIR imaging, suggesting the possibility of subclassifying cirrhosis into different steps of severity.
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Affiliation(s)
- Johanna Moreau
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; (J.M.); (P.B.); (J.G.); (R.G.); (A.M.); (C.G.); (G.D.S.)
- Service d’Hépato-Gastroentérologie et de Cancérologie Digestive, Centre Hospitalier Universitaire de Reims, 51092 Reims, France
| | - Pascaline Bouzy
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; (J.M.); (P.B.); (J.G.); (R.G.); (A.M.); (C.G.); (G.D.S.)
| | - Julien Guillard
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; (J.M.); (P.B.); (J.G.); (R.G.); (A.M.); (C.G.); (G.D.S.)
| | - Valérie Untereiner
- Université de Reims Champagne-Ardenne, Plateforme en Imagerie Cellulaire et Tissulaire (PICT), 51097 Reims Cedex, France; (V.U.); (C.T.)
| | - Roselyne Garnotel
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; (J.M.); (P.B.); (J.G.); (R.G.); (A.M.); (C.G.); (G.D.S.)
- Laboratoire de Biochimie-Pharmacologie-Toxicologie, Centre Hospitalier Universitaire de Reims, 51092 Reims, France
| | - Aude Marchal
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; (J.M.); (P.B.); (J.G.); (R.G.); (A.M.); (C.G.); (G.D.S.)
- Service d’Anatomie et Cytologie Pathologique, Centre Hospitalier Universitaire de Reims, 51100 Reims, France
| | - Cyril Gobinet
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; (J.M.); (P.B.); (J.G.); (R.G.); (A.M.); (C.G.); (G.D.S.)
| | - Christine Terryn
- Université de Reims Champagne-Ardenne, Plateforme en Imagerie Cellulaire et Tissulaire (PICT), 51097 Reims Cedex, France; (V.U.); (C.T.)
| | - Ganesh D. Sockalingum
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; (J.M.); (P.B.); (J.G.); (R.G.); (A.M.); (C.G.); (G.D.S.)
| | - Gérard Thiéfin
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; (J.M.); (P.B.); (J.G.); (R.G.); (A.M.); (C.G.); (G.D.S.)
- Service d’Hépato-Gastroentérologie et de Cancérologie Digestive, Centre Hospitalier Universitaire de Reims, 51092 Reims, France
- Correspondence: ; Tel.: +33-6-87517-344; Fax: +33-3-26788-836
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Liang J, Mantelos A, Toh ZQ, Tortorella SM, Ververis K, Vongsvivut J, Bambery KR, Licciardi PV, Hung A, Karagiannis TC. Investigation of potential anti-pneumococcal effects of l-sulforaphane and metabolites: Insights from synchrotron-FTIR microspectroscopy and molecular docking studies. J Mol Graph Model 2020; 97:107568. [PMID: 32097886 DOI: 10.1016/j.jmgm.2020.107568] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Accepted: 02/10/2020] [Indexed: 01/06/2023]
Abstract
Streptococcus pneumoniae infection can lead to pneumococcal disease, a major cause of mortality in children under the age of five years. In low- and middle-income country settings where pneumococcal disease burden is high, vaccine use is low and widespread antibiotic use has led to increased rates of multi-drug resistant pneumococci. l-sulforaphane (LSF), derived from broccoli and other cruciferous vegetables, has established anti-inflammatory, antioxidant, and anti-microbial properties. Hence, we sought to investigate the potential role of LSF against pneumococcal infection. Using a combination of in vitro and computational methods, the results showed that LSF and relevant metabolites had a potential to reduce pneumococcal adherence through modulation of host receptors, regulation of inflammation, or through direct modification of bacterial factors. Treatment with LSF and metabolites reduced pneumococcal adherence to respiratory epithelial cells. Synchrotron-Fourier transform infrared microspectroscopy (S-FTIR) revealed biochemical changes in protein and lipid profiles of lung epithelial cells following treatment with LSF or metabolites. Molecular docking studies of 116 pneumococcal and 89 host factors revealed a potent effect for the metabolite LSF-glutathione (GSH). A comprehensive list of factors involved in interactions between S. pneumoniae and host cells was compiled to construct a bacterium and host interaction network. Network analysis revealed plasminogen, fibronectin, and RrgA as key factors involved in pneumococcal-host interactions. Therefore, we propose that these constitute critical targets for direct inhibition by LSF and/or metabolites, which may disrupt pneumococcal-host adherence. Overall, our findings further enhance understanding of the potential role of LSF to modulate pneumococcal-host dynamics.
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Affiliation(s)
- Julia Liang
- Epigenomic Medicine, Department of Diabetes, Central Clinical School, Monash University, Melbourne, VIC, 3004, Australia; School of Science, RMIT University, VIC, 3001, Australia
| | - Anita Mantelos
- Epigenomic Medicine, Department of Diabetes, Central Clinical School, Monash University, Melbourne, VIC, 3004, Australia; Murdoch Children's Research Institute, Melbourne, Parkville, VIC, 3052, Australia; Department of Paediatrics, University of Melbourne, Parkville, VIC, 3052, Australia
| | - Zheng Quan Toh
- Murdoch Children's Research Institute, Melbourne, Parkville, VIC, 3052, Australia
| | - Stephanie M Tortorella
- Epigenomic Medicine, Department of Diabetes, Central Clinical School, Monash University, Melbourne, VIC, 3004, Australia
| | - Katherine Ververis
- Epigenomic Medicine, Department of Diabetes, Central Clinical School, Monash University, Melbourne, VIC, 3004, Australia
| | | | - Keith R Bambery
- ANSTO Australian Synchrotron, 800 Blackburn Road, Clayton, VIC, 3168, Australia
| | - Paul V Licciardi
- Murdoch Children's Research Institute, Melbourne, Parkville, VIC, 3052, Australia; Department of Paediatrics, University of Melbourne, Parkville, VIC, 3052, Australia
| | - Andrew Hung
- School of Science, RMIT University, VIC, 3001, Australia
| | - Tom C Karagiannis
- Epigenomic Medicine, Department of Diabetes, Central Clinical School, Monash University, Melbourne, VIC, 3004, Australia; Department of Clinical Pathology, The University of Melbourne, Parkville, VIC, 3052, Australia.
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23
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Diem M, Ergin A, Mu X. Spectral histopathology of the lung: A review of two large studies. JOURNAL OF BIOPHOTONICS 2019; 12:e201900061. [PMID: 31177622 DOI: 10.1002/jbio.201900061] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2019] [Revised: 05/06/2019] [Accepted: 06/04/2019] [Indexed: 06/09/2023]
Abstract
This paper summarizes results from two large lung cancer studies comprising over 700 samples that demonstrate the ability of spectral histopathology (SHP) to distinguish cancerous tissue regions from normal tissue, to differentiate benign lesions from normal tissue and cancerous lesions, and to classify lung cancer types. Furthermore, malignancy-associated changes can be identified in cancer-adjacent normal tissue. The ability to differentiate a multitude of normal cells and tissue types allow SHP to identify tumor margins and immune cell infiltration. Finally, SHP easily distinguishes small cell lung cancer (SCLC) from non-SCLC (NSCLC) and provides a further differentiation of NSCLC into adenocarcinomas and squamous cell carcinomas with an accuracy comparable of classical histopathology combined with immunohistochemistry. Case studies are presented that demonstrates that SHP can resolve interobserver discrepancies in standard histopathology.
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Affiliation(s)
- Max Diem
- CIRECA LLC, Cambridge, Massachusetts
- Department of Chemistry and Chemical Biology, Northeastern University, Boston, Massachusetts
| | | | - Xinying Mu
- CIRECA LLC, Cambridge, Massachusetts
- Department of Mathematics and Statistics, Boston University, Boston, Massachusetts
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24
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Oliveira ALMS, Maciel GM, Rossetto R, Liz MV, Rampazzo Ribeiro V, Haminiuk CWI. Saccharomyces cerevisiae
biosorbed with grape pomace flavonoids: adsorption studies and
in vitro
simulated gastrointestinal digestion. Int J Food Sci Technol 2019. [DOI: 10.1111/ijfs.14110] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Anna Lou Mucharski Strafit Oliveira
- Academic Department of Chemistry and Biology (DAQBi) Graduate Program in Environmental Science and Technology (PPGCTA) Federal University of Technology – Paraná Sede Ecoville Curitiba Paraná 81280‐340 Brazil
| | - Giselle Maria Maciel
- Academic Department of Chemistry and Biology (DAQBi) Graduate Program in Environmental Science and Technology (PPGCTA) Federal University of Technology – Paraná Sede Ecoville Curitiba Paraná 81280‐340 Brazil
| | - Raquel Rossetto
- Graduate Program in Food Engineering (PPGEAL) Federal University of Paraná, Polytechnic Centre Curitiba Paraná 81531‐990 Brazil
| | - Marcus Vinicius Liz
- Academic Department of Chemistry and Biology (DAQBi) Graduate Program in Environmental Science and Technology (PPGCTA) Federal University of Technology – Paraná Sede Ecoville Curitiba Paraná 81280‐340 Brazil
| | - Valéria Rampazzo Ribeiro
- Graduate Program in Food Engineering (PPGEAL) Federal University of Paraná, Polytechnic Centre Curitiba Paraná 81531‐990 Brazil
| | - Charles Windson Isidoro Haminiuk
- Academic Department of Chemistry and Biology (DAQBi) Graduate Program in Environmental Science and Technology (PPGCTA) Federal University of Technology – Paraná Sede Ecoville Curitiba Paraná 81280‐340 Brazil
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25
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Kar S, Katti DR, Katti KS. Fourier transform infrared spectroscopy based spectral biomarkers of metastasized breast cancer progression. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 208:85-96. [PMID: 30292907 DOI: 10.1016/j.saa.2018.09.052] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2018] [Revised: 09/28/2018] [Accepted: 09/29/2018] [Indexed: 06/08/2023]
Abstract
Breast cancer is a global health issue and the second leading cause of cancer death in women. Breast cancer tends to migrate to bone and causes bone metastases which is ultimately the cause of death. Here, we report the use of FTIR to identify spectral biomarkers of cancer progression on 3D in vitro model of breast cancer bone metastasis. Our results indicate that the following spectral biomarkers can monitor cancer progression, for example, lipids (CH2 asymmetric/CH2 symmetric stretch), Amide I/Amide II, and RNA/DNA. Principal component analysis also confirmed the involvement of protein, lipids and nucleic acids in cancer progression on sequential culture. The collective observations from this study suggest successful application of FTIR as a non-invasive and accurate method to identify biochemical changes in cancer cells during the progression of breast cancer bone metastasis.
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Affiliation(s)
- Sumanta Kar
- Department of Civil and Environmental Engineering, CIE 201, NDSU, Fargo, ND 58104, United States of America
| | - Dinesh R Katti
- Department of Civil and Environmental Engineering, CIE 201, NDSU, Fargo, ND 58104, United States of America
| | - Kalpana S Katti
- Department of Civil and Environmental Engineering, CIE 201, NDSU, Fargo, ND 58104, United States of America.
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26
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Pezzotti G, Horiguchi S, Boschetto F, Adachi T, Marin E, Zhu W, Yamamoto T, Kanamura N, Ohgitani E, Mazda O. Raman Imaging of Individual Membrane Lipids and Deoxynucleoside Triphosphates in Living Neuronal Cells during Neurite Outgrowth. ACS Chem Neurosci 2018; 9:3038-3048. [PMID: 30024146 DOI: 10.1021/acschemneuro.8b00235] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Abstract
Recent developments in Raman imaging at the microscopic scale were exploited here with the specific purpose of locating spectral fingerprints of individual membrane lipids and deoxynucleoside triphosphates during neuronal cell networking and separation. After carefully screening the Raman spectra of isolated lipid components, we located an in situ mapped specific Raman fingerprints from individual phospholipids at the micrometric level in comparison with the total lipid distribution within single living cells. We concurrently examined silent zones of lipid emissions and exploited those peculiar spectral ranges for mapping both abundance and localization of individual DNA nucleoside triphosphates. This work represents a first step toward label-free/molecular-selective Raman patterning with high spectral resolution of the relevant chemical species involved with the functionality of neuronal cells.
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Affiliation(s)
- Giuseppe Pezzotti
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan
- Department of Orthopedic Surgery, Tokyo Medical University,6-7-1 Nishi-Shinjuku, Shinjuku-ku, 160-0023 Tokyo, Japan
- The Center for Advanced Medical Engineering and Informatics, Osaka University, Yamadaoka, Suita, 565-0871 Osaka, Japan
- Department of Immunology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine Kamigyo-ku, 465 Kajii-cho, Kawaramachi dori 602-0841 Kyoto, Japan
| | - Satoshi Horiguchi
- Department of Immunology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine Kamigyo-ku, 465 Kajii-cho, Kawaramachi dori 602-0841 Kyoto, Japan
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Francesco Boschetto
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan
- Department of Immunology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine Kamigyo-ku, 465 Kajii-cho, Kawaramachi dori 602-0841 Kyoto, Japan
| | - Tetsuya Adachi
- Department of Immunology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine Kamigyo-ku, 465 Kajii-cho, Kawaramachi dori 602-0841 Kyoto, Japan
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Elia Marin
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Wenliang Zhu
- Ceramic Physics Laboratory, Kyoto Institute of Technology, Sakyo-ku, Matsugasaki, 606-8585 Kyoto, Japan
| | - Toshiro Yamamoto
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Narisato Kanamura
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan
| | - Eriko Ohgitani
- Department of Immunology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine Kamigyo-ku, 465 Kajii-cho, Kawaramachi dori 602-0841 Kyoto, Japan
| | - Osam Mazda
- Department of Immunology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine Kamigyo-ku, 465 Kajii-cho, Kawaramachi dori 602-0841 Kyoto, Japan
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27
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Ménez B, Pisapia C, Andreani M, Jamme F, Vanbellingen QP, Brunelle A, Richard L, Dumas P, Réfrégiers M. Abiotic synthesis of amino acids in the recesses of the oceanic lithosphere. Nature 2018; 564:59-63. [PMID: 30405236 DOI: 10.1038/s41586-018-0684-z] [Citation(s) in RCA: 107] [Impact Index Per Article: 17.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Accepted: 10/12/2018] [Indexed: 11/09/2022]
Abstract
Abiotic hydrocarbons and carboxylic acids are known to be formed on Earth, notably during the hydrothermal alteration of mantle rocks. Although the abiotic formation of amino acids has been predicted both from experimental studies and thermodynamic calculations, its occurrence has not been demonstrated in terrestrial settings. Here, using a multimodal approach that combines high-resolution imaging techniques, we obtain evidence for the occurrence of aromatic amino acids formed abiotically and subsequently preserved at depth beneath the Atlantis Massif (Mid-Atlantic Ridge). These aromatic amino acids may have been formed through Friedel-Crafts reactions catalysed by an iron-rich saponite clay during a late alteration stage of the massif serpentinites. Demonstrating the potential of fluid-rock interactions in the oceanic lithosphere to generate amino acids abiotically gives credence to the hydrothermal theory for the origin of life, and may shed light on ancient metabolisms and the functioning of the present-day deep biosphere.
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Affiliation(s)
- Bénédicte Ménez
- Institut de Physique du Globe de Paris, Sorbonne Paris Cité, Université Paris Diderot, CNRS, Paris, France.
| | - Céline Pisapia
- Institut de Physique du Globe de Paris, Sorbonne Paris Cité, Université Paris Diderot, CNRS, Paris, France.,Synchrotron SOLEIL, Gif-sur-Yvette, France
| | - Muriel Andreani
- Laboratoire de Géologie de Lyon: Terre, Planètes, Environnement, UMR5276, ENS-Université Lyon I, Villeurbanne, France
| | | | - Quentin P Vanbellingen
- Institut de Chimie des Substances Naturelles, CNRS UPR2301, Université Paris-Sud, Université Paris-Saclay, Gif-sur-Yvette, France
| | - Alain Brunelle
- Institut de Chimie des Substances Naturelles, CNRS UPR2301, Université Paris-Sud, Université Paris-Saclay, Gif-sur-Yvette, France
| | - Laurent Richard
- Nazarbayev University, School of Mining & Geosciences, Astana, Kazakhstan
| | - Paul Dumas
- Synchrotron SOLEIL, Gif-sur-Yvette, France
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28
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Raman spectroscopic detection of high-grade cervical cytology: Using morphologically normal appearing cells. Sci Rep 2018; 8:15048. [PMID: 30301922 PMCID: PMC6177468 DOI: 10.1038/s41598-018-33417-8] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2018] [Accepted: 09/27/2018] [Indexed: 01/08/2023] Open
Abstract
This study aims to detect high grade squamous intraepithelial cells (HSIL) by investigating HSIL associated biochemical changes in morphologically normal appearing intermediate and superficial cells using Raman spectroscopy. Raman spectra (n = 755) were measured from intermediate and superficial cells from negative cytology ThinPrep specimens (n = 18) and from morphologically normal appearing intermediate and superficial cells from HSIL cytology ThinPrep specimens (n = 17). The Raman data was subjected to multivariate algorithms including the standard principal component analysis (PCA)-linear discriminant analysis (LDA) and partial least squares discriminant analysis (PLS-DA) together with random subsets cross-validation for discriminating negative cytology from HSIL. The PCA-LDA method yielded sensitivities of 74.9%, 72.8%, and 75.6% and specificities of 89.9%, 81.9%, and 84.5%, for HSIL diagnosis based on the dataset obtained from intermediate, superficial and mixed intermediate/superficial cells, respectively. The PLS-DA method provided improved sensitivities of 95.5%, 95.2% and 96.1% and specificities of 92.7%, 94.7% and 93.5% compared to the PCA-LDA method. The results demonstrate that the biochemical signatures of morphologically normal appearing cells can be used to discriminate between negative and HSIL cytology. In addition, it was found that mixed intermediate and superficial cells could be used for HSIL diagnosis as the biochemical differences between negative and HSIL cytology were greater than the biochemical differences between intermediate and superficial cell types.
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29
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Siddiqui AJ, Sherazi STH, Ahmed S, Iqbal Choudhary M, Musharraf SG. A comparative profiling of oral cancer patients and high risk niswar users using FT-IR and chemometric analysis. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 203:177-184. [PMID: 29864641 DOI: 10.1016/j.saa.2018.05.107] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2017] [Revised: 05/22/2018] [Accepted: 05/27/2018] [Indexed: 06/08/2023]
Abstract
Oral cancer is one of the major cancer types, which has increased sustainably in Southeast Asian countries due to the extensive use of a variety of tobacco and betel nut products. The current study is focused on developing an easy, efficient and cost-effective method for plasma profiling of oral cancer patients and tobacco users in order to have a progressive picture towards oral cancer. For this purpose, the profiling of 147 plasma samples including 67 oral cancer patients' samples, 60 "niswar" (a dipping tobacco product) user samples, and 20 healthy controls using attenuated total reflectance-fourier transform infrared spectroscopy (ATR-FTIR), and chemometric analysis was carried out. Fingerprint region (500-1500 cm-1) of all three groups showed interesting variations in peaks pattern. From these observations, height ratios of two bands H1646/H1550 and H1080/H1024 with p value of 2.01 × 10-6 and 8.39 × 10-7, respectively, showed a pattern between healthy to oral cancer and "niswar" user samples. Chemometric analysis of the data showed a clean separation among the groups. PLS-DA and OPLS-DA models provided 87.7% and 89.5% classification rate, respectively. Area under the curve (AUC) for healthy control, oral cancer and "niswar" users were found to be 0.97, 0.95 and 0.92%, respectively. The results of the present study indicate that FT-IR spectroscopy, in conjunction with chemometric data, can be effectively used for the preliminary differentiation of plasma samples of oral cancer patients, "niswar" users and control samples of healthy persons.
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Affiliation(s)
- Amna Jabbar Siddiqui
- H.E.J. Research Institute of Chemistry, International Center for Chemical and Biological Sciences, University of Karachi, Karachi 75270, Pakistan
| | | | - Shakil Ahmed
- Industrial Analytical Centre (IAC), H.E.J. Research Institute of Chemistry, International Center for Chemical and Biological Sciences, University of Karachi, Karachi, 75270, Pakistan
| | - M Iqbal Choudhary
- H.E.J. Research Institute of Chemistry, International Center for Chemical and Biological Sciences, University of Karachi, Karachi 75270, Pakistan; Dr. Panjwani Center for Molecular Medicine and Drug Research, International Center for Chemical and Biological Sciences, University of Karachi, Karachi 75270, Pakistan; Department of Biochemistry, Faculty of Science, King Abdulaziz University, Jeddah 22254, Saudi Arabia
| | - Syed Ghulam Musharraf
- H.E.J. Research Institute of Chemistry, International Center for Chemical and Biological Sciences, University of Karachi, Karachi 75270, Pakistan; Dr. Panjwani Center for Molecular Medicine and Drug Research, International Center for Chemical and Biological Sciences, University of Karachi, Karachi 75270, Pakistan.
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30
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Pallua JD, Brunner A, Zelger B, Stalder R, Unterberger SH, Schirmer M, Tappert MC. Clinical infrared microscopic imaging: An overview. Pathol Res Pract 2018; 214:1532-1538. [PMID: 30220435 DOI: 10.1016/j.prp.2018.08.026] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/19/2018] [Revised: 08/22/2018] [Accepted: 08/26/2018] [Indexed: 11/16/2022]
Abstract
New developments in Mid-infrared microscopic imaging instrumentation and data analysis have turned this method into a conventional technique. This imaging method offers a global analysis of samples, with a resolution close to the cellular level enabling the acquisition of local molecular expression profiles. It is possible to get chemo-morphological information about the tissue status, which represents an essential benefit for future analytical interpretation of pathological changes of tissue. In this review, we give an overview of Mid-infrared microscopic imaging and its applications in clinical research.
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Affiliation(s)
- J D Pallua
- Department of Pathology, Medical University of Innsbruck, Müllerstraße 44, 6020, Innsbruck, Austria; Institute of Legal Medicine, Medical University of Innsbruck, Müllerstraße 44, 6020, Innsbruck, Austria.
| | - A Brunner
- Department of Pathology, Medical University of Innsbruck, Müllerstraße 44, 6020, Innsbruck, Austria
| | - B Zelger
- Department of Pathology, Medical University of Innsbruck, Müllerstraße 44, 6020, Innsbruck, Austria
| | - R Stalder
- Institute of Mineralogy and Petrography, Leopold-Franzens University Innsbruck, Innrain 52, 6020, Innsbruck, Austria
| | - S H Unterberger
- Material-Technology, Leopold-Franzens University Innsbruck, Technikerstraße 13, 6020, Innsbruck, Austria
| | - M Schirmer
- Department of Internal Medicine, Clinic II, Medical University of Innsbruck, Anichstrasse 35, 6020, Innsbruck, Austria
| | - M C Tappert
- Hyperspectral Intelligence Inc., Box 851, V0N 1V0, Gibsons, Canada
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31
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Rapid measures of user's adherence to vaginal drug products using attenuated total reflectance Fourier transform infrared spectroscopy (ATR-FTIR) and multivariate discriminant techniques. PLoS One 2018; 13:e0197906. [PMID: 29799875 PMCID: PMC5969765 DOI: 10.1371/journal.pone.0197906] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2017] [Accepted: 05/10/2018] [Indexed: 11/30/2022] Open
Abstract
Background The topical HIV prevention (microbicides) field is in acute need of a method to rapidly and objectively measure adherence to product use in clinical trials. Infrared (IR) spectroscopy has been used in many pharmaceutical and forensic applications but has yet to be applied to adherence monitoring. In this study, we report on efforts to test the feasibility of using IR spectroscopy as a means to measure residual active or placebo vaginal product, semen exposure and vaginal insertion from a single swab. Methods A portable IR spectrometer equipped with diamond attenuated total reflectance (ATR) was used to capture spectra of unused vs. vaginally-used swabs, vaginal swabs containing semen, and vaginal swabs to which either tenofovir-containing or matching placebo products (vaginal gel or insert) were added. Spectral data obtained from swabs placed directly on the spectrometer were divided into calibration and testing sets for developing and validating discriminant models set up to provide yes/no predictions of: vaginal vs. non-vaginal use, presence vs. no presence of each test product, and presence vs. no presence of semen. Further validation of models was performed using vaginal swabs collected from a clinical study evaluating vaginally administered placebo insert formulations. Results For each discriminant model developed to predict vaginal vs. non-vaginal use, presence vs. no presence of each test product, and presence vs. no presence of semen, classified validation samples not included in the model development were correctly identified into their respective classes with minimal prediction error. Clinically obtained vaginal swabs collected 15–60 minutes after placebo insert use were also correctly identified, further validating the models. Conclusion Our findings demonstrate the proof of concept that IR spectroscopy can be a method for rapid detection and characterization of microbicide products and biological fluids present in vaginal swabs. This novel method has potential to support real-time, on-site adherence monitoring in clinical or field settings.
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32
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Kolev SK, Petkov PS, Rangelov MA, Trifonov DV, Milenov TI, Vayssilov GN. Interaction of Na+, K+, Mg2+ and Ca2+ counter cations with RNA. Metallomics 2018; 10:659-678. [DOI: 10.1039/c8mt00043c] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
Data on the location of alkaline and alkaline earth ions at RNA from crystallography, spectroscopy and computational modeling are reviewed.
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Affiliation(s)
- Stefan K. Kolev
- Acad. E. Djakov Institute of Electronics
- Bulgarian Academy of Sciences
- 1784 Sofia
- Bulgaria
| | - Petko St. Petkov
- Faculty of Chemistry and Pharmacy
- University of Sofia
- 1126 Sofia
- Bulgaria
| | - Miroslav A. Rangelov
- Laboratory of BioCatalysis
- Institute of Organic Chemistry
- Bulgarian Academy of Sciences
- 1113 Sofia
- Bulgaria
| | | | - Teodor I. Milenov
- Acad. E. Djakov Institute of Electronics
- Bulgarian Academy of Sciences
- 1784 Sofia
- Bulgaria
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33
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Understanding the antimicrobial activity of selected disinfectants against methicillin-resistant Staphylococcus aureus (MRSA). PLoS One 2017; 12:e0186375. [PMID: 29036196 PMCID: PMC5643108 DOI: 10.1371/journal.pone.0186375] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2017] [Accepted: 09/30/2017] [Indexed: 01/09/2023] Open
Abstract
Disinfectants and biocidal products have been widely used to combat Methicillin-resistant Staphylococcus aureus (MRSA) infections in homes and healthcare environments. Although disruption of cytoplasmic membrane integrity has been documented as the main bactericidal effect of biocides, little is known about the biochemical alterations induced by these chemical agents. In this study, we used Fourier transform infrared (FT-IR) spectroscopy and chemometric tools as an alternative non-destructive technique to determine the bactericidal effects of commonly used disinfectants against MRSA USA-300. FTIR spectroscopy permits a detailed characterization of bacterial reactivity, allowing an understanding of the fundamental mechanism of action involved in the interaction between bacteria and disinfectants. The disinfectants studied were ethanol 70% (N = 5), isopropanol (N = 5), sodium hypochlorite (N = 5), triclosan (N = 5) and triclocarban (N = 5). Results showed less than 5% colony forming units growth of MRSA treated with triclocarban and no growth in the other groups. Nearly 70,000 mid-infrared spectra from the five treatments and the two control (untreated; N = 4) groups of MRSA (bacteria grown in TSB and incubated at 37°C (Control I) / at ambient temperature (Control II), for 24h) were pre-processed and analyzed using principal component analysis followed by linear discriminant analysis (PCA-LDA). Clustering of strains of MRSA belonging to five treatments and the discrimination between each treatment and two control groups in MRSA (untreated) were investigated. PCA-LDA discriminatory frequencies suggested that ethanol-treated spectra are the most similar to isopropanol-treated spectra biochemically. Also reported here are the biochemical alterations in the structure of proteins, lipid membranes, and phosphate groups of MRSA produced by sodium hypochlorite, triclosan, and triclocarban treatments. These findings provide mechanistic information involved in the interaction between MRSA strains and hygiene products; thereby demonstrating the potential of spectroscopic analysis as an objective, robust, and label-free tool for evaluating the macromolecular changes involved in disinfectant-treated MRSA.
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34
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Wood BR. The importance of hydration and DNA conformation in interpreting infrared spectra of cells and tissues. Chem Soc Rev 2016; 45:1980-98. [PMID: 26403652 DOI: 10.1039/c5cs00511f] [Citation(s) in RCA: 123] [Impact Index Per Article: 15.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Since Watson and Crick's historical papers on the structure and function of DNA based on Rosalind Franklin's and Maurice Wilkin's X-ray diffraction patterns tremendous scientific curiosity has been aroused by the unique and dynamic structure of the molecule of life. A-DNA and B-DNA represent different conformations of the DNA molecule, which is stabilised by hydrogen interactions between base pairs, stacking interactions between neighboring bases and long-range intra- and inter-backbone forces. This review highlights the contribution Fourier transform infrared (FTIR) spectroscopy has made to the understanding of DNA conformation in relation to hydration and its potential role in clinical diagnostics. The review will first begin by elucidating the main forms of DNA conformation found in nature and the general structures of the A, B and Z forms. This is followed by a detailed critique on infrared spectroscopy applied to DNA conformation highlighting pivotal studies on isolated DNA, polynucleotides, nucleoprotein and nucleohistone complexes. A discussion on the potential of diagnosing cancer using FTIR spectroscopy based on the detection of DNA bands in cells and tissues will ensue, highlighting the recent studies investigating the conformation of DNA in hydrated and dehydrated cells. The method of hydration as a way to facilitate DNA conformational band assignment will be discussed and the conformational change to the A-form upon dehydration will be used to explain the reason for the apparent lack of FTIR DNA signals observed in fixed or air-dried cells and tissues. The advantages of investigating B-DNA in the hydrated state, as opposed to A-DNA in the dehydrated state, are exemplified in a series of studies that show: (1) improved quantification of DNA in cells; (2) improved discrimination and reproducibility of FTIR spectra recorded of cells progressing through the cell cycle; (3) insights into the biological significance of A-DNA as evidenced by an interesting study on bacteria, which can survive desiccation and at the same time undergo the B-A-B transition. Finally, the importance of preserving the B-DNA conformation for the diagnosis of cancer is put forward as way to improve the sensitivity of this powerful technique.
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Affiliation(s)
- Bayden R Wood
- Centre for Biospectroscopy, School of Chemistry, Monash University, 3800, Victoria, Australia.
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35
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Hackett MJ, Sylvain NJ, Hou H, Caine S, Alaverdashvili M, Pushie MJ, Kelly ME. Concurrent Glycogen and Lactate Imaging with FTIR Spectroscopy To Spatially Localize Metabolic Parameters of the Glial Response Following Brain Ischemia. Anal Chem 2016; 88:10949-10956. [DOI: 10.1021/acs.analchem.6b02588] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Mark J. Hackett
- Nanochemistry
Research Institute, Department of Chemistry, Curtin University, GPO Box U1987, Perth, Western Australia 6845, Australia
| | - Nicole J. Sylvain
- Department
of Surgery, Division of Neurosurgery, College of Medicine, University of Saskatchewan, 107 Wiggins Road, Suite B419 Health
Sciences Building, Saskatoon, Saskatchewan S7N 5E5, Canada
| | - Huishu Hou
- Department
of Surgery, Division of Neurosurgery, College of Medicine, University of Saskatchewan, 107 Wiggins Road, Suite B419 Health
Sciences Building, Saskatoon, Saskatchewan S7N 5E5, Canada
| | - Sally Caine
- College
of Pharmacy and Nutrition, College of Medicine, University of Saskatchewan, 107 Wiggins
Road, Suite B221 Health Sciences Building, Saskatoon, Saskatchewan S7N 5E5, Canada
| | - Mariam Alaverdashvili
- College
of Pharmacy and Nutrition, College of Medicine, University of Saskatchewan, 107 Wiggins
Road, Suite B221 Health Sciences Building, Saskatoon, Saskatchewan S7N 5E5, Canada
| | - Michael J. Pushie
- Department
of Surgery, Division of Neurosurgery, College of Medicine, University of Saskatchewan, 107 Wiggins Road, Suite B419 Health
Sciences Building, Saskatoon, Saskatchewan S7N 5E5, Canada
| | - Michael E. Kelly
- Department
of Surgery, Division of Neurosurgery, College of Medicine, University of Saskatchewan, 107 Wiggins Road, Suite B419 Health
Sciences Building, Saskatoon, Saskatchewan S7N 5E5, Canada
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36
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Elshemey WM, Ismail AM, Elbialy NS. Molecular-Level Characterization of Normal, Benign, and Malignant Breast Tissues Using FTIR Spectroscopy. J Med Biol Eng 2016. [DOI: 10.1007/s40846-016-0133-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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37
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Pezzotti G, Bock RM, McEntire BJ, Jones E, Boffelli M, Zhu W, Baggio G, Boschetto F, Puppulin L, Adachi T, Yamamoto T, Kanamura N, Marunaka Y, Bal BS. Silicon Nitride Bioceramics Induce Chemically Driven Lysis in Porphyromonas gingivalis. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2016; 32:3024-35. [PMID: 26948186 DOI: 10.1021/acs.langmuir.6b00393] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/11/2023]
Abstract
Organisms of Gram-negative phylum bacteroidetes, Porphyromonas gingivalis, underwent lysis on polished surfaces of silicon nitride (Si3N4) bioceramics. The antibacterial activity of Si3N4 was mainly the result of chemically driven principles. The lytic activity, although not osmotic in nature, was related to the peculiar pH-dependent surface chemistry of Si3N4. A buffering effect via the formation of ammonium ions (NH4(+)) (and their modifications) was experimentally observed by pH microscopy. Lysis was confirmed by conventional fluorescence spectroscopy, and the bacteria's metabolism was traced with the aid of in situ Raman microprobe spectroscopy. This latter technique revealed the formation of peroxynitrite within the bacterium itself. Degradation of the bacteria's nucleic acid, drastic reduction in phenilalanine, and reduction of lipid concentration were observed due to short-term exposure (6 days) to Si3N4. Altering the surface chemistry of Si3N4 by either chemical etching or thermal oxidation influenced peroxynitrite formation and affected bacteria metabolism in different ways. Exploiting the peculiar surface chemistry of Si3N4 bioceramics could be helpful in counteracting Porphyromonas gingivalis in an alkaline pH environment.
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Affiliation(s)
- Giuseppe Pezzotti
- Ceramic Physics Laboratory, Kyoto Institute of Technology , Sakyo-ku, Matsugasaki, 606-8126 Kyoto, Japan
- Department of Molecular Cell Physiology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - Ryan M Bock
- Amedica Corporation, 1885 West 2100 South, Salt Lake City, Utah 84119, United States
| | - Bryan J McEntire
- Amedica Corporation, 1885 West 2100 South, Salt Lake City, Utah 84119, United States
| | - Erin Jones
- Amedica Corporation, 1885 West 2100 South, Salt Lake City, Utah 84119, United States
| | - Marco Boffelli
- Ceramic Physics Laboratory, Kyoto Institute of Technology , Sakyo-ku, Matsugasaki, 606-8126 Kyoto, Japan
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - Wenliang Zhu
- Department of Medical Engineering for Treatment of Bone and Joint Disorders, Osaka University , 2-2 Yamadaoka, Suita, Osaka 565-0854, Japan
| | - Greta Baggio
- Ceramic Physics Laboratory, Kyoto Institute of Technology , Sakyo-ku, Matsugasaki, 606-8126 Kyoto, Japan
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - Francesco Boschetto
- Ceramic Physics Laboratory, Kyoto Institute of Technology , Sakyo-ku, Matsugasaki, 606-8126 Kyoto, Japan
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - Leonardo Puppulin
- Department of Molecular Cell Physiology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - Tetsuya Adachi
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - Toshiro Yamamoto
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - Narisato Kanamura
- Department of Dental Medicine, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - Yoshinori Marunaka
- Department of Molecular Cell Physiology, Graduate School of Medical Science, Kyoto Prefectural University of Medicine , Kamigyo-ku, Kyoto 602-8566, Japan
| | - B Sonny Bal
- Amedica Corporation, 1885 West 2100 South, Salt Lake City, Utah 84119, United States
- Department of Orthopaedic Surgery, University of Missouri , Columbia, Missouri 65212, United States
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38
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Kuepper C, Großerueschkamp F, Kallenbach-Thieltges A, Mosig A, Tannapfel A, Gerwert K. Label-free classification of colon cancer grading using infrared spectral histopathology. Faraday Discuss 2016; 187:105-18. [DOI: 10.1039/c5fd00157a] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In recent years spectral histopathology (SHP) has been established as a label-free method to identify cancer within tissue. Herein, this approach is extended. It is not only used to identify tumour tissue with a sensitivity of 94% and a specificity of 100%, but in addition the tumour grading is determined. Grading is a measure of how much the tumour cells differ from the healthy cells. The grading ranges from G1 (well-differentiated), to G2 (moderately differentiated), G3 (poorly differentiated) and in rare cases to G4 (anaplastic). The grading is prognostic and is needed for the therapeutic decision of the clinician. The presented results show good agreement between the annotation by SHP and by pathologists. A correlation matrix is presented, and the results show that SHP provides prognostic values in colon cancer, which are obtained in a label-free and automated manner. It might become an important automated diagnostic tool at the bedside in precision medicine.
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Affiliation(s)
- C. Kuepper
- Chair of Biophysics
- Faculty of Biology and Biotechnology Ruhr University Bochum
- Germany
| | - F. Großerueschkamp
- Chair of Biophysics
- Faculty of Biology and Biotechnology Ruhr University Bochum
- Germany
| | | | - A. Mosig
- Chair of Biophysics
- Faculty of Biology and Biotechnology Ruhr University Bochum
- Germany
| | - A. Tannapfel
- Institute of Pathology
- Ruhr University Bochum
- Germany
| | - K. Gerwert
- Chair of Biophysics
- Faculty of Biology and Biotechnology Ruhr University Bochum
- Germany
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39
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Kumar S, Verma T, Mukherjee R, Ariese F, Somasundaram K, Umapathy S. Raman and infra-red microspectroscopy: towards quantitative evaluation for clinical research by ratiometric analysis. Chem Soc Rev 2016; 45:1879-900. [DOI: 10.1039/c5cs00540j] [Citation(s) in RCA: 81] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
We demonstrate how ratioing spectral bands can circumvent experimental artefacts, and present a library of ratios from the biomedical literature.
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Affiliation(s)
- Srividya Kumar
- Department of Inorganic and Physical Chemistry
- Indian Institute of Science
- Bengaluru 560 012
- India
| | - Taru Verma
- Centre for Biosystems Science and Engineering
- Indian Institute of Science
- Bangalore-560012
- India
| | - Ria Mukherjee
- Department of Inorganic and Physical Chemistry
- Indian Institute of Science
- Bengaluru 560 012
- India
| | - Freek Ariese
- Department of Inorganic and Physical Chemistry
- Indian Institute of Science
- Bengaluru 560 012
- India
| | - Kumaravel Somasundaram
- Department of Microbiology and Cell Biology
- Indian Institute of Science
- Bangalore 560 012
- India
| | - Siva Umapathy
- Department of Inorganic and Physical Chemistry
- Indian Institute of Science
- Bengaluru 560 012
- India
- Department of Instrumentation and Applied Physics
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40
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Großerueschkamp F, Kallenbach-Thieltges A, Behrens T, Brüning T, Altmayer M, Stamatis G, Theegarten D, Gerwert K. Marker-free automated histopathological annotation of lung tumour subtypes by FTIR imaging. Analyst 2015; 140:2114-20. [PMID: 25529256 DOI: 10.1039/c4an01978d] [Citation(s) in RCA: 70] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
By integration of FTIR imaging and a novel trained random forest classifier, lung tumour classes and subtypes of adenocarcinoma are identified in fresh-frozen tissue slides automated and marker-free. The tissue slices are collected under standard operation procedures within our consortium and characterized by current gold standards in histopathology. In addition, meta data of the patients are taken. The improved standards on sample collection and characterization results in higher accuracy and reproducibility as compared to former studies and allows here for the first time the identification of adenocarcinoma subtypes by this approach. The differentiation of subtypes is especially important for prognosis and therapeutic decision.
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Affiliation(s)
- Frederik Großerueschkamp
- Protein Research Unit Ruhr within Europe (PURE), Department of Biophysics, Ruhr University Bochum, Germany.
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41
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FTIR spectral signature of anticancer drugs. Can drug mode of action be identified? BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2015; 1864:85-101. [PMID: 26327318 DOI: 10.1016/j.bbapap.2015.08.010] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2015] [Revised: 08/18/2015] [Accepted: 08/25/2015] [Indexed: 12/26/2022]
Abstract
Infrared spectroscopy has brought invaluable information about proteins and about the mechanism of action of enzymes. These achievements are difficult to transpose to living organisms as all biological molecules absorb in the mid infrared, with usually a high degree of overlap. Deciphering the contribution of each enzyme is therefore almost impossible. On the other hand, small changes in the infrared spectra of cells induced by environmental conditions or drugs may provide an accurate signature of the metabolic shift experienced by the cell as a response to a change in the growth medium. The present paper aims at reviewing the contribution of infrared spectroscopy to the description of small chemical changes that occur in cells when they are exposed to a drug. In particular, this review will focus on cancer cells and anti-cancer drugs. Results accumulated so far tend to demonstrate that infrared spectroscopy could be a very accurate descriptor of the mode of action of anticancer drugs. If confirmed, such a segmentation of potential drugs according to their "mode of action" will be invaluable for the discovery of new therapeutic molecules. This article is part of a Special Issue entitled: Physiological Enzymology and Protein Functions.
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42
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Combining multiset resolution and segmentation for hyperspectral image analysis of biological tissues. Anal Chim Acta 2015; 881:24-36. [DOI: 10.1016/j.aca.2015.04.053] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2014] [Revised: 04/24/2015] [Accepted: 04/28/2015] [Indexed: 11/19/2022]
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43
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Shi C, Cao X, Chen X, Sun Z, Xiang Z, Zhao H, Qian W, Han X. Intracellular surface-enhanced Raman scattering probes based on TAT peptide-conjugated Au nanostars for distinguishing the differentiation of lung resident mesenchymal stem cells. Biomaterials 2015; 58:10-25. [PMID: 25941778 DOI: 10.1016/j.biomaterials.2015.04.010] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2014] [Revised: 04/02/2015] [Accepted: 04/03/2015] [Indexed: 12/22/2022]
Abstract
Lung resident mesenchymal stem cells (LR-MSCs) are important regulators of pathophysiological processes including tissue repair and fibrosis, inflammation, angiogenesis and tumor formation. Therefore, increasing attention has focused on the functional differentiation of LR-MSCs. However, the distinction between the undifferentiated and differentiated LR-MSCs, which are closely related and morphologically similar, is difficult to achieve by conventional methods. In this study, by employing the TAT Peptide-conjugated Au nanostars (AuNSs) as an intracellular probe, we developed a method for the identification of LR-MSC differentiation by surface-enhanced Raman scattering (SERS) spectroscopy. SERS spectra were analyzed using principal component analysis (PCA) that allowed unambiguous distinction of subtypes and monitoring of component changes during cellular differentiation. Furthermore, to ascertain whether co-culture with alveolar epithelial type II (ATII) cells and incubation with transform growth factor (TGF)-β were involved in regulating the differentiation of LR-MSCs, we investigated the protein expression levels of epithelial markers and fibroblastic markers on LR-MSCs. Our results demonstrated that co-culture with ATII cells or incubation with TGF-β could induce the differentiation of LR-MSCs as confirmed by SERS analysis, a method that is capable of noninvasive characterization of and distinction between subtypes of LR-MSCs during differentiation. We have provided a new tool that may facilitate stem cell research.
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Affiliation(s)
- Chaowen Shi
- Immunology and Reproduction Biology Laboratory & State Key Laboratory of Analytical Chemistry for Life Science & Jiangsu Key Laboratory of Molecular Medicine, Medical School, Nanjing University, Nanjing, Jiangsu 210093, China.
| | - Xiaowei Cao
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing 210096, China.
| | - Xiang Chen
- Immunology and Reproduction Biology Laboratory & State Key Laboratory of Analytical Chemistry for Life Science & Jiangsu Key Laboratory of Molecular Medicine, Medical School, Nanjing University, Nanjing, Jiangsu 210093, China.
| | - Zhaorui Sun
- Immunology and Reproduction Biology Laboratory & State Key Laboratory of Analytical Chemistry for Life Science & Jiangsu Key Laboratory of Molecular Medicine, Medical School, Nanjing University, Nanjing, Jiangsu 210093, China.
| | - Zou Xiang
- Department of Microbiology and Immunology, Mucosal Immunobiology and Vaccine Research Center, Institute of Biomedicine, University of Gothenburg, Gothenburg, Sweden.
| | - Hang Zhao
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing 210096, China.
| | - Weiping Qian
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing 210096, China.
| | - Xiaodong Han
- Immunology and Reproduction Biology Laboratory & State Key Laboratory of Analytical Chemistry for Life Science & Jiangsu Key Laboratory of Molecular Medicine, Medical School, Nanjing University, Nanjing, Jiangsu 210093, China.
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44
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Orphanou CM, Walton-Williams L, Mountain H, Cassella J. The detection and discrimination of human body fluids using ATR FT-IR spectroscopy. Forensic Sci Int 2015; 252:e10-6. [PMID: 25944716 DOI: 10.1016/j.forsciint.2015.04.020] [Citation(s) in RCA: 93] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2015] [Revised: 04/16/2015] [Accepted: 04/18/2015] [Indexed: 12/31/2022]
Abstract
Blood, saliva, semen and vaginal secretions are the main human body fluids encountered at crime scenes. Currently presumptive tests are routinely utilised to indicate the presence of body fluids, although these are often subject to false positives and limited to particular body fluids. Over the last decade more sensitive and specific body fluid identification methods have been explored, such as mRNA analysis and proteomics, although these are not yet appropriate for routine application. This research investigated the application of ATR FT-IR spectroscopy for the detection and discrimination of human blood, saliva, semen and vaginal secretions. The results demonstrated that ATR FT-IR spectroscopy can detect and distinguish between these body fluids based on the unique spectral pattern, combination of peaks and peak frequencies corresponding to the macromolecule groups common within biological material. Comparisons with known abundant proteins relevant to each body fluid were also analysed to enable specific peaks to be attributed to the relevant protein components, which further reinforced the discrimination and identification of each body fluid. Overall, this preliminary research has demonstrated the potential for ATR FT-IR spectroscopy to be utilised in the routine confirmatory screening of biological evidence due to its quick and robust application within forensic science.
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Affiliation(s)
- Charlotte-Maria Orphanou
- Forensic & Crime Science, Staffordshire University, Science Centre, Leek Road, Stoke-on-Trent, Staffordshire ST4 2DF, United Kingdom.
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45
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Skotti E, Kountouri S, Bouchagier P, Tsitsigiannis DI, Polissiou M, Tarantilis PA. FTIR spectroscopic evaluation of changes in the cellular biochemical composition of the phytopathogenic fungus Alternaria alternata induced by extracts of some Greek medicinal and aromatic plants. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2014; 127:463-472. [PMID: 24657421 DOI: 10.1016/j.saa.2014.02.113] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2013] [Revised: 02/21/2014] [Accepted: 02/26/2014] [Indexed: 06/03/2023]
Abstract
In this study, the biological activity of aquatic extracts of selected Greek medicinal and aromatic plants to the phytopathogenic fungus Alternaria alternata was investigated. Lamiaceae species (Hyssopus officinalis L., Melissa officinalis L., Origanum dictamnus L., Origanum vulgare L. and Salvia officinalis L.) were found to enhance significantly the mycelium growth whereas Crocus sativus appears to inhibit it slightly. M. officinalis and S. officinalis caused the highest stimulation in mycelium growth (+97%) and conidia production (+65%) respectively. In order to further investigate the bioactivity of plant extracts to A. alternata, we employed Fourier Transform Infrared Spectroscopy (FTIR). Differences of original spectra were assigned mainly to amides of proteins. The second derivative transformation of spectra revealed changes in spectral regions corresponding to absorptions of the major cellular constituents such as cell membrane and proteins. Principal component analysis of the second derivative transformed spectra confirmed that fatty acids of the cell membranes, amides of proteins and polysaccharides of the cell wall had the major contribution to data variation. FTIR band area ratios were found to correlate with fungal mycelium growth.
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Affiliation(s)
- Efstathia Skotti
- Laboratory of Chemistry, Department of Food Science and Human Nutrition, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Sophia Kountouri
- Laboratory of Phytopathology, Department of Crop Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Pavlos Bouchagier
- Department of Food Technology, Technological Educational Institute of Ionian Islands, GR 28100 Kefallonia, Greece
| | - Dimitrios I Tsitsigiannis
- Laboratory of Phytopathology, Department of Crop Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Moschos Polissiou
- Laboratory of Chemistry, Department of Food Science and Human Nutrition, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Petros A Tarantilis
- Laboratory of Chemistry, Department of Food Science and Human Nutrition, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece.
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46
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Birarda G, Bedolla DE, Mitri E, Pacor S, Grenci G, Vaccari L. Apoptotic pathways of U937 leukemic monocytes investigated by infrared microspectroscopy and flow cytometry. Analyst 2014; 139:3097-106. [DOI: 10.1039/c4an00317a] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Infrared microspectroscopy and flow cytometry were used to study apoptosis in starved and CCCP-treated U937 monocyte cells.
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Affiliation(s)
- Giovanni Birarda
- Elettra-Sincrotrone Trieste
- SISSI Beamline
- Trieste, Italy
- Lawrence Berkeley National Laboratory
- Berkeley, USA
| | | | - Elisa Mitri
- Università degli studi di Trieste
- Trieste, Italy
- CNR-IOM
- TASC Laboratory
- 34149 Trieste, Italy
| | | | - Gianluca Grenci
- CNR-IOM
- TASC Laboratory
- 34149 Trieste, Italy
- Mechanobiology Institute (MBI)
- National University of Singapore
| | - Lisa Vaccari
- Elettra-Sincrotrone Trieste
- SISSI Beamline
- Trieste, Italy
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47
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Wood BR, Kiupel M, McNaughton D. Progress in Fourier Transform Infrared Spectroscopic Imaging Applied to Venereal Cancer Diagnosis. Vet Pathol 2013; 51:224-37. [DOI: 10.1177/0300985813501340] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
Fourier transform infrared imaging spectroscopy is a powerful technique that provides molecular and spatial information at the single-cell level. We report on the progress of this technology in the field of cancer research, focusing on human cervical cancer because of the inherent difficulty in grading this type of cancer and as a model for venereal cancers in dogs. Using a suite of multivariate imaging processing techniques, we demonstrate the potential of this technique to identify histologic features in the normal epithelium and cervical intraepithelial neoplasia stages I and III. We highlight the advantages and detail the barriers that need to be overcome before implementation of this technology in the clinical environment.
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Affiliation(s)
- B. R. Wood
- Centre for Biospectroscopy, School of Chemistry, Monash University, Victoria, Australia
| | - M. Kiupel
- Department of Pathobiology and Diagnostic Investigation, Diagnostic Center for Population and Animal Health, Michigan State University, East Lansing, USA
| | - D. McNaughton
- Centre for Biospectroscopy, School of Chemistry, Monash University, Victoria, Australia
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48
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Kolev S, Petkov PS, Rangelov M, Vayssilov GN. Ab initio molecular dynamics of Na⁺ and Mg²⁺ countercations at the backbone of RNA in water solution. ACS Chem Biol 2013; 8:1576-89. [PMID: 23642311 DOI: 10.1021/cb300463h] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
The interactions between sodium or magnesium ions and phosphate groups of the RNA backbone represented as dinucleotide fragments in water solution have been studied using ab initio Born-Oppenheimer molecular dynamics. All systems have been simulated at 300 and 320 K. Sodium ions have mobility higher than that of the magnesium ions and readily change their position with respect to the phosphate groups, from directly bonded to completely solvated state, with a rough estimate of the lifetime of bonded Na(+) of about 20-30 ps. The coordination number of the sodium ions frequently changes in irregular intervals ranging from several femtoseconds to about 10 ps with the most frequently encountered coordination number five, followed by six. The magnesium ion is stable both as directly bonded to an oxygen atom from the phosphate group and completely solvated by water. In both states the Mg(2+) ion has exactly six oxygen atoms in the first coordination shell; moreover, during the whole simulation of more than 100 ps no exchange of ligand in the first coordination shells has been observed. Solvation of the terminal phosphate oxygen atoms by water molecules forming hydrogen bonds in different locations of the ions is also discussed. The stability of the system containing sodium ions essentially does not depend on the position of the ions with respect to the phosphate groups.
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Affiliation(s)
- Stefan Kolev
- Faculty of Chemistry and Pharmacy, University of Sofia, Boulevard James Bouchier 1, 1126 Sofia, Bulgaria
| | - Petko St. Petkov
- Faculty of Chemistry and Pharmacy, University of Sofia, Boulevard James Bouchier 1, 1126 Sofia, Bulgaria
| | - Miroslav Rangelov
- Laboratory of BioCatalysis, Institute of Organic Chemistry, Bulgarian Academy of Sciences, Str. Acad. G. Bontchev, Bl. 9, 1113 Sofia, Bulgaria
| | - Georgi N. Vayssilov
- Faculty of Chemistry and Pharmacy, University of Sofia, Boulevard James Bouchier 1, 1126 Sofia, Bulgaria
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49
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Grube M, Dimanta I, Gavare M, Strazdina I, Liepins J, Juhna T, Kalnenieks U. Hydrogen-producing Escherichia coli strains overexpressing lactose permease: FT-IR analysis of the lactose-induced stress. Biotechnol Appl Biochem 2013; 61:111-7. [PMID: 23725289 DOI: 10.1002/bab.1128] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2013] [Accepted: 05/22/2013] [Indexed: 11/07/2022]
Abstract
The lactose permease gene (lacY) was overexpressed in the septuple knockout mutant of Escherichia coli, previously engineered for hydrogen production from glucose. It was expected that raising the lactose transporter activity would elevate the intracellular lactose concentration, inactivate the lactose repressor, induce the lactose operon, and as a result stimulate overall lactose consumption and conversion. However, overexpression of the lactose transporter caused a considerable growth delay in the recombinant strain on lactose, resembling to some extent the "lactose killing" phenomenon. Therefore, the recombinant strain was subjected to selection on lactose-containing media. Selection on plates with 3% lactose yielded a strain with a decreased content of the recombinant plasmid but with an improved ability to grow and produce hydrogen on lactose. Macromolecular analysis of its biomass by means of Fourier transform-infrared spectroscopy demonstrated that increase of the cellular polysaccharide content might contribute to the adaptation of E. coli to lactose stress.
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Affiliation(s)
- Mara Grube
- Institute of Microbiology and Biotechnology, University of Latvia, Riga, Latvia; Department of Water Engineering and Technology, Riga Technical University, Riga, Latvia
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50
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Kallenbach-Thieltges A, Großerüschkamp F, Mosig A, Diem M, Tannapfel A, Gerwert K. Immunohistochemistry, histopathology and infrared spectral histopathology of colon cancer tissue sections. JOURNAL OF BIOPHOTONICS 2013; 6:88-100. [PMID: 23225612 DOI: 10.1002/jbio.201200132] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2012] [Revised: 10/26/2012] [Accepted: 11/12/2012] [Indexed: 06/01/2023]
Abstract
During the past years, many studies have shown that infrared spectral histopathology (SHP) can distinguish different tissue types and disease types independently of morphological criteria. In this manuscript, we report a comparison of immunohistochemical (IHC), histopathological and spectral histopathological results for colon cancer tissue sections. A supervised algorithm, based on the "random forest" methodology, was trained using classical histopathology, and used to automatically identify colon tissue types, and areas of colon adenocarcinoma. The SHP images subsequently were compared to IHC-based images. This comparison revealed excellent agreement between the methods, and demonstrated that label-free SHP detects compositional changes in tissue that are the basis of the sensitivity of IHC.
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