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1
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Mitra A, Chakraborty D, Naik L, Dhiman R, Sarkar N. Anti-amyloidogenic hexapeptide-coated gold nanoparticles for enhanced inhibition of amyloid formation: A promising therapeutic approach. Int J Biol Macromol 2025; 284:138002. [PMID: 39586437 DOI: 10.1016/j.ijbiomac.2024.138002] [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: 09/27/2024] [Revised: 11/22/2024] [Accepted: 11/22/2024] [Indexed: 11/27/2024]
Abstract
Under specific external stimulus, misfolded and natively disordered globular proteins undergo irreversible transformation into pathogenic β-sheet-rich insoluble fibrillar structure, and deposition of theses fibrils in cells and tissues leads to disorders like Alzheimer's, Dementia, Type II diabetes, and many more. Here, we have developed a positively-charged Arg-containing hexapeptide, SqP7, and elucidated its anti-amyloidogenic propensity on in vitro HEWL amyloid formation under acidic and neutral fibrillation conditions using computational tools and several biophysical techniques. SqP7, at a five-fold molar excess, displayed excellent amyloid inhibition capability at both pH conditions (~83 % and 72 % inhibition under acidic and neutral fibrillation conditions, respectively), and was further chosen as a coating agent on gold nanoparticles. This was done to investigate whether coating of this peptide on gold nanoparticles has any effect on its anti-amyloidogenic efficiency and effective inhibition concentration. The synthesized SqP7-coated gold nanoparticles were characterized to be spherical and highly-dispersed having a mean diameter of 9.12 ± 2.08 nm. The anti-amyloidogenic capability of the synthesized SqP7-coated gold nanoparticles was further evaluated, and a 10-fold reduction in the effective inhibition concentration of SqP7 was observed. This peptide‑gold nanoparticle based integrated approach can lead to the development of highly effective therapeutics for amyloid-related diseases, offering improved prevention and treatment options.
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Affiliation(s)
- Amit Mitra
- Department of Biotechnology and Medical Engineering, National Institute of Technology Rourkela, Rourkela- 769008, Odisha, India
| | - Debashmita Chakraborty
- Department of Biotechnology and Medical Engineering, National Institute of Technology Rourkela, Rourkela- 769008, Odisha, India
| | - Lincoln Naik
- Laboratory of Mycobacterial Immunology, Department of Life Science, National Institute of Technology Rourkela, Rourkela- 769008, Odisha, India
| | - Rohan Dhiman
- Laboratory of Mycobacterial Immunology, Department of Life Science, National Institute of Technology Rourkela, Rourkela- 769008, Odisha, India
| | - Nandini Sarkar
- Department of Biotechnology and Medical Engineering, National Institute of Technology Rourkela, Rourkela- 769008, Odisha, India.
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Meng H, Elliott A, Mansfield J, Bailey M, Frogley M, Cinque G, Moger J, Stone N, Tamagnini F, Palombo F. Identification of tauopathy-associated lipid signatures in Alzheimer's disease mouse brain using label-free chemical imaging. Commun Biol 2024; 7:1341. [PMID: 39420210 PMCID: PMC11487145 DOI: 10.1038/s42003-024-07034-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2024] [Accepted: 10/08/2024] [Indexed: 10/19/2024] Open
Abstract
There is cumulative evidence that lipid metabolism plays a key role in the pathogenesis of various neurodegenerative disorders including Alzheimer's disease (AD). Visualising lipid content in a non-destructive label-free manner can aid in elucidating the AD phenotypes towards a better understanding of the disease. In this study, we combined multiple optical molecular-specific methods, Fourier transform infrared (FTIR) spectroscopic imaging, synchrotron radiation-infrared (SR-IR) microscopy, Raman and stimulated Raman scattering (SRS) microscopy, and optical-photothermal infrared (O-PTIR) microscopy with multivariate data analysis, to investigate the biochemistry of brain hippocampus in situ using a mouse model of tauopathy (rTg4510). We observed a significant difference in the morphology and lipid content between transgenic (TG) and wild type (WT) samples. Immunohistochemical staining revealed some degree of microglia co-localisation with elevated lipids in the brain. These results provide new evidence of tauopathy-related dysfunction in a preclinical study at a subcellular level.
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Affiliation(s)
- Hao Meng
- Department of Physics and Astronomy, University of Exeter, Exeter, EX4 4QL, UK
| | - Alicia Elliott
- Department of Physics and Astronomy, University of Exeter, Exeter, EX4 4QL, UK
| | - Jessica Mansfield
- Department of Physics and Astronomy, University of Exeter, Exeter, EX4 4QL, UK
| | - Michelle Bailey
- Department of Physics and Astronomy, University of Exeter, Exeter, EX4 4QL, UK
| | - Mark Frogley
- Diamond Light Source, MIRIAM beamline B22, Harwell Science & Innovation Campus, Didcot, OX11 0DE, UK
| | - Gianfelice Cinque
- Diamond Light Source, MIRIAM beamline B22, Harwell Science & Innovation Campus, Didcot, OX11 0DE, UK
| | - Julian Moger
- Department of Physics and Astronomy, University of Exeter, Exeter, EX4 4QL, UK
| | - Nick Stone
- Department of Physics and Astronomy, University of Exeter, Exeter, EX4 4QL, UK
| | - Francesco Tamagnini
- School of Pharmacy, University of Reading, Reading, RG6 6UB, UK
- Centro Studi Biomedici, Università degli Studi della Repubblica di San Marino, Salita alla Rocca, 44 - 47890, San Marino Città, Republic of San Marino
| | - Francesca Palombo
- Department of Physics and Astronomy, University of Exeter, Exeter, EX4 4QL, UK.
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Tantala J, Loyawattananan S, Boonprakobsak P, Klinkesorn U, Naksang P, Rachtanapun P, Rachtanapun C. Antilisterial effect of alkyl polyglycosides biosurfactant and modes of action. Int J Biol Macromol 2024; 280:135607. [PMID: 39276892 DOI: 10.1016/j.ijbiomac.2024.135607] [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: 06/04/2024] [Revised: 09/01/2024] [Accepted: 09/11/2024] [Indexed: 09/17/2024]
Abstract
Several outbreaks of Listeria monocytogenes originated mainly from contaminated contact surfaces. Thus, this study investigated the antilisterial effect of natural surfactants in terms of their use as a 2-in-1 sanitizing washer on a food contact surface and evaluated their modes of action. The antilisterial activity of alkyl polyglycosides (APGs), namely capryl glucoside (CA), coco glucoside (CG), and decyl glucoside (DG), was evaluated based on the minimum inhibitory concentration (MIC) and the minimum bactericidal concentration (MBC) using broth dilution assay. The results showed that CG had the strongest antilisterial activity. Therefore, CG was selected for further investigation. The time-kill assay showed a lethal effect of 0.5 % (w/w) CG by inactivating 4 Log reduction (99.99 %) of L. monocytogenes within 3 s. Furthermore, 1 % (w/w) CG with slight mechanical force in washing (by shaking) was efficient for sanitizing a stainless-steel coupon surface based on its ability to cause a total reduction of deposited L. monocytogenes (99.9 %) within 10 min. Scanning electron microscopy and applying Fourier-transform infrared spectroscopy revealed that CG chemically disrupted the cell wall and plasma membrane of L. monocytogenes within 5 min after a gentle wash. The results showed it had potent antimicrobial activity and was bactericidal against L. monocytogenes. Overall, our results supported the use of CG as a natural antibacterial surfactant to alter the chemical sanitizer and the possibility of its practical use in the food industry and for household use.
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Affiliation(s)
- Juthamas Tantala
- Department of Food Science and Technology, Faculty of Agro-Industry, Kasetsart University, Bangkok 10900, Thailand
| | - Suchawadee Loyawattananan
- Department of Food Science and Technology, Faculty of Agro-Industry, Kasetsart University, Bangkok 10900, Thailand
| | - Pensupha Boonprakobsak
- Department of Food Science and Technology, Faculty of Agro-Industry, Kasetsart University, Bangkok 10900, Thailand
| | - Utai Klinkesorn
- Department of Food Science and Technology, Faculty of Agro-Industry, Kasetsart University, Bangkok 10900, Thailand; Center for Advanced Studies for Agriculture and Food, Kasetsart University, Bangkok 10900, Thailand
| | - Porawan Naksang
- Department of Food Science and Technology, Faculty of Home Economics Technology, Rajamangala University of Technology Krungthep, Bangkok 10120, Thailand
| | - Pornchai Rachtanapun
- Division of Packaging Technology, Faculty of Agro-Industry, Chiang Mai University, Chiang Mai 50100, Thailand; Center of Excellence in Agro Bio-Circular-Green Industry (Agro BCG), Chiang Mai University, Chiang Mai 50100, Thailand; Center of Excellence in Materials Science and Technology, Chiang Mai University, Chiang Mai 50200, Thailand
| | - Chitsiri Rachtanapun
- Department of Food Science and Technology, Faculty of Agro-Industry, Kasetsart University, Bangkok 10900, Thailand; Center for Advanced Studies for Agriculture and Food, Kasetsart University, Bangkok 10900, Thailand.
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Bano A, Yadav P, Sharma M, Verma D, Vats R, Chaudhry D, Kumar P, Bhardwaj R. Extraction and characterization of exosomes from the exhaled breath condensate and sputum of lung cancer patients and vulnerable tobacco consumers-potential noninvasive diagnostic biomarker source. J Breath Res 2024; 18:046003. [PMID: 38988301 DOI: 10.1088/1752-7163/ad5eae] [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: 02/29/2024] [Accepted: 07/03/2024] [Indexed: 07/12/2024]
Abstract
Noninvasive sample sources of exosomes, such as exhaled breath and sputum, which are in close proximity to the tumor microenvironment and may contain biomarkers indicative of lung cancer, are far more permissive than invasive sample sources for biomarker screening. Standardized exosome extraction and characterization approaches for low-volume noninvasive samples are critically needed. We isolated and characterized exhaled breath condensate (EBC) and sputum exosomes from healthy nonsmokers (n= 30), tobacco smokers (n= 30), and lung cancer patients (n= 40) and correlated the findings with invasive sample sources. EBC samples were collected by using commercially available R-Tubes. To collect sputum samples the participants were directed to take deep breaths, hold their breath, and cough in a collection container. Dynamic light scattering, nanoparticle tracking analysis, and transmission electron microscopy were used to evaluate the exosome morphology. Protein isolation, western blotting, exosome quantification via EXOCET, and Fourier transform infrared spectroscopy were performed for molecular characterization. Exosomes were successfully isolated from EBC and sputum samples, and their yields were adequate and sufficiently pure for subsequent downstream processing and characterization. The exosomes were confirmed based on their size, shape, and surface marker expression. Remarkably, cancer exosomes were the largest in size not only in the plasma subgroups, but also in the EBC (p < 0.05) and sputum (p= 0.0036) subgroups, according to our findings. A significant difference in exosome concentrations were observed between the control sub-groups (p < 0.05). Our research confirmed that exosomes can be extracted from noninvasive sources, such as EBC and sputum, to investigate lung cancer diagnostic biomarkers for research, clinical, and early detection in smokers.
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Affiliation(s)
- Afsareen Bano
- Centre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, Haryana 124001, India
| | - Pooja Yadav
- Centre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, Haryana 124001, India
| | - Megha Sharma
- Centre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, Haryana 124001, India
| | - Deepika Verma
- Department of Biochemistry, All India Institute of Medical Sciences, Delhi 110029, India
| | - Ravina Vats
- Centre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, Haryana 124001, India
| | - Dhruva Chaudhry
- Department of Pulmonary & Critical Care Medicine, Pt. B. D. Sharma PGIMS, Rohtak, Haryana 124001, India
| | - Pawan Kumar
- Department of Pulmonary & Critical Care Medicine, Pt. B. D. Sharma PGIMS, Rohtak, Haryana 124001, India
| | - Rashmi Bhardwaj
- Centre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, Haryana 124001, India
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Shree P, Aggarwal Y, Kumar M, Majhee L, Singh NN, Prakash O, Chandra A, Mahuli SA, Shamsi S, Rai A. Saliva Based Diagnostic Prediction of Oral Squamous Cell Carcinoma using FTIR Spectroscopy. Indian J Otolaryngol Head Neck Surg 2024; 76:2282-2289. [PMID: 38883442 PMCID: PMC11169329 DOI: 10.1007/s12070-023-04294-z] [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: 10/07/2023] [Accepted: 10/14/2023] [Indexed: 06/18/2024] Open
Abstract
Oral cancer ranks as the sixth most prevalent form of cancer worldwide, presenting a significant public health concern. According to the World Health Organization (WHO), within a 5-year period following diagnosis, the mortality rate among oral cancer patients of all stages stands at 45%. In this study, a total of 60 patients divided into 2 groups were recruited. Group A included 30 histo-pathologically confirmed OSCC patients and Group B included 30 healthy controls. A standardized procedure was followed to collect saliva samples. FTIR spectroscopy was done for all the saliva samples collected from both Group A and B. An IR Prestige-21 (Shimadzu Corp, Japan) spectrometer was used to record IR spectra in the 40-4000 cm-1 range SVM classifier was applied in the classification of disease state from normal subjects using FTIR data. The peaks were identified at wave no 1180 cm-1, 1230 cm-1, 1340 cm-1, 1360 cm-1, 1420 cm-1, 1460 cm-1, 1500 cm-1, 1540 cm-1, 1560 cm-1, and 1637 cm-1. The observed results of SVM demonstrated the accuracy of 91.66% in the classification of Cancer tissues from the normal subjects with sensitivity of 83.33% while specificity and precision of 100.0%. The development of oral cancer leads to noticeable alterations in the secondary structure of proteins. These findings emphasize the promising use of ATR-FTIR platforms in conjunction with machine learning as a reliable, non-invasive, reagent-free, and highly sensitive method for screening and monitoring individuals with oral cancer.
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Affiliation(s)
- Priya Shree
- Dental College, Rajendra Institute of Medical Sciences (RIMS), Bariatu, Ranchi, Jharkhand 834009 India
| | - Yogendra Aggarwal
- Department of Bioengineering and Biotechnology, Birla Institute of Technology Mesra, Ranchi, India
| | - Manish Kumar
- Department of Bioengineering, Birla Institute of Technology, Mesra, Ranchi, 835215 India
| | - Lakhan Majhee
- Department of Pharmacology, Rajendra Institute of Medical Sciences, Ranchi, India
| | - Narendra Nath Singh
- Oral Pathology, Microbiology and Forensic Odontology, Dental College, Rajendra Institute of Medical Sciences (RIMS), Bariatu, Ranchi, 834009 India
| | - Om Prakash
- Oral and Maxillofacial Pathology, Dental College, Rajendra Institute of Medical Sciences (RIMS), Bariatu, Ranchi, 834009 India
| | - Akhilesh Chandra
- Department of Oral Pathology and Microbiology, Faculty of Dental Sciences, Banaras Hindu University, Varanasi, India
| | - Simpy Amit Mahuli
- Dental College, Rajendra Institute of Medical Sciences (RIMS), Bariatu, Ranchi, 834009 India
| | - Shoa Shamsi
- Dental College, Rajendra Institute of Medical Sciences (RIMS), Bariatu, Ranchi, 834009 India
| | - Arpita Rai
- Dental College, Rajendra Institute of Medical Sciences (RIMS), Bariatu, Ranchi, Jharkhand 834009 India
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Nurdin SU, Nurdjanah S, Triyandi R, Nurhadi B. Antioxidant Activity, Glycemic Response, and Functional Properties of Rice Cooked with Red Palm Oil. J Nutr Metab 2024; 2024:3483292. [PMID: 38725902 PMCID: PMC11081750 DOI: 10.1155/2024/3483292] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2023] [Revised: 01/02/2024] [Accepted: 04/04/2024] [Indexed: 05/12/2024] Open
Abstract
High rice consumption levels accompanied by a lifestyle lacking in physical activity leads to obesity and diabetes due to the rice consumed generally has high digestibility and high glycemic index. Red palm oil (RPO) is a vegetable oil suggested to have the potential to reduce starch digestibility and increase the bioactive compounds of rice. This research aimed to find out the best cooking method to produce rice with a sensory quality similar to regular rice and to study the effect of the best cooking method on the glycemic response and physicochemical properties of rice. The results showed that RPO addition increased the antioxidant activities and total carotenoid levels of rice. The addition of RPO after cooking has better antioxidant activity and total carotenoid than before cooking. Adding 2% RPO before or after cooking produced rice with similar or better sensory quality than regular rice. Rice cooked with 2% RPO added before cooking had a lower glycemic response than regular rice, which was suggested to be caused by the increasing formation of the amylose lipid complex and the triglycerides that protected the starch from amylase enzyme. The formation of the amylose lipid complex and triglyceride layers protecting rice starch was confirmed by the new peaks of the FTIR spectra, the appearance of oil-coated starch morphology, and the changes in the proportion of C and O atoms. In conclusion, the addition of 2% RPO before the cooking process can be considered as a cooking method to produce rice for diabetic patients.
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Affiliation(s)
- Samsu U. Nurdin
- Department of Agriculture Product Technology, Agriculture Faculty, Lampung University, Bandar Lampung 6235145, Indonesia
| | - Siti Nurdjanah
- Department of Agriculture Product Technology, Agriculture Faculty, Lampung University, Bandar Lampung 6235145, Indonesia
| | - Ramadhan Triyandi
- Department of Pharmacy, Faculty of Medicine, Lampung University, Bandar Lampung 6235145, Indonesia
| | - Bambang Nurhadi
- Department of Food Technology, Agriculture Technology Faculty, Padjadjaran University, Bandung 62 45363, Indonesia
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7
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Wongkhieo S, Tangmesupphaisan W, Siriwaseree J, Aramsirirujiwet Y, Wiriyajitsomboon P, Kaewgrajang T, Pumloifa S, Paemanee A, Kuaprasert B, Choowongkomon K, Chester AH, Swainson NM. In vitro cholesterol lowering activity of Ganoderma australe mycelia based on mass spectrometry, synchrotron Fourier-transform infrared analysis and liver-spheroid bioactivity. Sci Rep 2023; 13:13619. [PMID: 37604902 PMCID: PMC10442327 DOI: 10.1038/s41598-023-40861-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Accepted: 08/17/2023] [Indexed: 08/23/2023] Open
Abstract
Mycelia were cultivated from a Thai wild mushroom identified as Ganoderma australe based on polymerase chain reaction (PCR) and morphological analyses. The mycelial extracts were examined for their active ingredients using a liquid chromatography-tandem mass spectrometry (LC‒MS/MS) method. This revealed the presence of lovastatin and tentative compounds including p-coumaric, nicotinamide, gamma-aminobutyric acid, choline, nucleosides, amino acids, and saccharides. The extracts had an inhibitory effect on the activity of HMG-CoA reductase in a concentration-dependent manner. At 2.5 mg/mL, the G. australe extracts did not interfere with the viability of HepG2 spheroids, but their biochemical composition was altered as determined by Fourier-transform infrared (FTIR) spectroscopy. The lipid profile of the spheroids treated with the mycelial extract was distinct from that of the control and the 5 µM lovastatin treatment, corresponding with the production of cholesterol by the spheroids. The mycelia of G. australe increased the percentage of high-density lipoprotein (HDL) production to 71.35 ± 2.74%, compared to the control and lovastatin-treated spheroids (33.26 ± 3.15% and 32.13 ± 3.24%, respectively). This study revealed the superior effect of natural compound mixtures to pure lovastatin, and the potential use of Thailand's wild G. australe as a functional food to prevent or alleviate hypercholesterolemia.
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Affiliation(s)
- Sudthirak Wongkhieo
- Department of Biochemistry, Faculty of Science, Kasetsart University, Bangkok, 10900, Thailand
| | | | - Jeeraprapa Siriwaseree
- Department of Biochemistry, Faculty of Science, Kasetsart University, Bangkok, 10900, Thailand
| | - Yaovapa Aramsirirujiwet
- Department of Microbiology, Faculty of Science, Kasetsart University, Bangkok, 10900, Thailand
| | | | - Tharnrat Kaewgrajang
- Department of Forest Biology, Faculty of Forestry, Kasetsart University, 50 Ngamwongwan Rd, Lat Yao, Chatuchak, Bangkok, 10900, Thailand
| | - Saifa Pumloifa
- National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, 12120, Thailand
| | - Atchara Paemanee
- National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, 12120, Thailand
| | - Buabarn Kuaprasert
- Research Facility Department, Synchrotron Light Research Institute (Public Organization), 111 University Avenue, Muang District, Nakhon Ratchasima, 30000, Thailand
| | - Kiattawee Choowongkomon
- Department of Biochemistry, Faculty of Science, Kasetsart University, Bangkok, 10900, Thailand
| | - Adrian H Chester
- Heart Science Centre, Magdi Yacoub Institute, Harefield, UK
- National Heart and Lung Institute (NHLI), Imperial College London, London, UK
| | - Napachanok M Swainson
- Department of Biochemistry, Faculty of Science, Kasetsart University, Bangkok, 10900, Thailand.
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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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9
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Ellis BG, Ingham J, Whitley CA, Al Jedani S, Gunning PJ, Gardner P, Shaw RJ, Barrett SD, Triantafyllou A, Risk JM, Smith CI, Weightman P. Metric-based analysis of FTIR data to discriminate tissue types in oral cancer. Analyst 2023; 148:1948-1953. [PMID: 37067098 PMCID: PMC10152457 DOI: 10.1039/d3an00258f] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Accepted: 04/08/2023] [Indexed: 04/18/2023]
Abstract
A machine learning algorithm (MLA) has predicted the prognosis of oral potentially malignant lesions and discriminated between lymph node tissue and metastatic oral squamous cell carcinoma (OSCC). The MLA analyses metrics, which are ratios of Fourier transform infrared absorbances, and identifies key wavenumbers that can be associated with molecular biomarkers. The wider efficacy of the MLA is now shown in the more complex primary OSCC tumour setting, where it is able to identify seven types of tissue. Three epithelial and four non-epithelial tissue types were discriminated from each other with sensitivities between 82% and 96% and specificities between 90% and 99%. The wavenumbers involved in the five best discriminating metrics for each tissue type were tightly grouped, indicating that small changes in the spectral profiles of the different tissue types are important. The number of samples used in this study was small, but the information will provide a basis for further, larger investigations.
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Affiliation(s)
- Barnaby G Ellis
- Department of Physics, University of Liverpool, L69 7ZE, UK.
| | - James Ingham
- Department of Physics, University of Liverpool, L69 7ZE, UK.
| | - Conor A Whitley
- Department of Physics, University of Liverpool, L69 7ZE, UK.
| | - Safaa Al Jedani
- Department of Physics, University of Liverpool, L69 7ZE, UK.
| | - Philip J Gunning
- Liverpool Head and Neck Centre, Department of Molecular and Clinical Cancer Medicine, University of Liverpool, L7 8TX, UK
| | - Peter Gardner
- Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Richard J Shaw
- Liverpool Head and Neck Centre, Department of Molecular and Clinical Cancer Medicine, University of Liverpool, L7 8TX, UK
- Head and Neck Surgery, Liverpool University Foundation NHS Trust, Aintree Hospital, Liverpool, L9 7AL, UK
| | - Steve D Barrett
- Department of Physics, University of Liverpool, L69 7ZE, UK.
| | - Asterios Triantafyllou
- Department of Cellular Pathology, Liverpool Clinical Laboratories, University of Liverpool, Liverpool, L7 8YE, UK
| | - Janet M Risk
- Liverpool Head and Neck Centre, Department of Molecular and Clinical Cancer Medicine, University of Liverpool, L7 8TX, UK
| | | | - Peter Weightman
- Department of Physics, University of Liverpool, L69 7ZE, UK.
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10
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AlYammahi J, Rambabu K, Thanigaivelan A, Hasan SW, Taher H, Show PL, Banat F. Production and characterization of camel milk powder enriched with date extract. Lebensm Wiss Technol 2023. [DOI: 10.1016/j.lwt.2023.114636] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/11/2023]
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11
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Anand BG, Shejale KP, Rajesh Kumar R, Thangam R, Prajapati KP, Kar K, Mala R. Bioactivation of an orthodontic wire using multifunctional nanomaterials to prevent plaque accumulation. BIOMATERIALS ADVANCES 2023; 148:213346. [PMID: 36963344 DOI: 10.1016/j.bioadv.2023.213346] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Revised: 01/29/2023] [Accepted: 02/12/2023] [Indexed: 02/18/2023]
Abstract
Controlling the growth of biofilm on orthodontic material has become a difficult challenge in modern dentistry. The antibacterial efficacy of currently used orthodontic material becomes limited due to the higher affinity of oral microbial flora for plaque formation on the material surface. Thus it is crutial to device an efficient strategy to prevent plaque buildup caused by pathogenic microbiota. In this work, we have fabricated a bioactive orthodontic wire using titanium nanoparticles (TiO2NPs) and silver nanoparticles (AgNPs). AgNPs were synthesized from the extracts of Ocimum sanctum, Ocimum tenuiflorum, Solanum surattense, and Syzygium aromaticum, while the TiO2NPs were synthesized by the Sol-Gel method. The nanoparticles were characterized by various biophysical techniques. The surface of the dental wire was molded by functionalizing these AgNPs followed by an additional coating of TiO2NPs. Functionalized dental wires were found to counteract the formation of tenacious intraoral biofilm, and showed an enhanced anti-bacterial effect against Multi-Drug Resistant (MDR) bacteria isolated from patients with various dental ailments. Data revealed that such surface coating counteracts the bacterial pathogens by inducing the leakage of Ag ions which eventually disrupts the cell membrane as confirmed from TEM micrographs. The results offer a significant opportunity for innovations in developing nanoparticle-based formulations to modify or fabricate an effective orthodontic material.
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Affiliation(s)
- Bibin G Anand
- Biomolecular Self Assembly Lab, Department of Biotechnology, School of Bioengineering, SRM Institute of Science and Technology, Kattankulathur, Tamil Nadu-603203, India; Biophysical and Biomaterials Research Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi- 110067, India.
| | - Kiran P Shejale
- Department of Chemical Engineering, Pohang University of Science and Technology, Pohang 37673, Republic of Korea
| | - R Rajesh Kumar
- School of Nanoscience and Technology, Indian Institute of Technology Kharagpur, West Bengal 721302, India
| | - Ramar Thangam
- Dynamic Nano-Bioengineering Lab, Department of Materials Science & Engineering, Korea University, Seoul 02841, Republic of Korea
| | - Kailash Prasad Prajapati
- Biophysical and Biomaterials Research Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi- 110067, India
| | - Karunakar Kar
- Biophysical and Biomaterials Research Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi- 110067, India
| | - R Mala
- Department of Biotechnology, Mepco Schlenk Engineering College, Sivakasi 626123, India.
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12
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Prada P, Brunel B, Moulin D, Rouillon L, Netter P, Loeuille D, Slimano F, Bouche O, Peyrin-Biroulet L, Jouzeau JY, Piot O. Identification of circulating biomarkers of Crohn's disease and spondyloarthritis using Fourier transform infrared spectroscopy. JOURNAL OF BIOPHOTONICS 2023; 16:e202200200. [PMID: 36112612 DOI: 10.1002/jbio.202200200] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Revised: 09/14/2022] [Accepted: 09/15/2022] [Indexed: 06/15/2023]
Abstract
Crohn's disease (CD) and spondyloarthritis (SpA) are two inflammatory diseases sharing many common features (genetic polymorphism, armamentarium). Both diseases lack diagnostic markers of certainty. While the diagnosis of CD is made by a combination of clinical, and biological criteria, the diagnosis of SpA may take several years to be confirmed. Based on the hypothesis that CD and SpA alter the biochemical profile of plasma, the objective of this study was to evaluate the analytical capability of Fourier transform infrared spectroscopy (FTIR) in identifying spectral biomarkers. Plasma from 104 patients was analyzed. After data processing of the spectra by Extended Multiplicative Signal Correction and linear discriminant analysis, we demonstrated that it was possible to distinguish CD and SpA from controls with an accuracy of 97% and 85% respectively. Spectral differences were mainly associated with proteins and lipids. This study showed that FTIR analysis is efficient to identify plasma biosignatures specific to CD or SpA.
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Affiliation(s)
- Pierre Prada
- EA7506-BioSpectroscopie Translationnelle (BioSpecT), Université de Reims Champagne-Ardenne, Reims, France
| | - Benjamin Brunel
- EA7506-BioSpectroscopie Translationnelle (BioSpecT), Université de Reims Champagne-Ardenne, Reims, France
- FEMTO-ST Institute, CNRS UMR-6174, Université de Bourgogne Franche-Comté, Besançon, France
| | - David Moulin
- Ingénierie Moléculaire et Ingénierie Articulaire (IMoPA), UMR-7365 CNRS, Faculté de Médecine, Université de Lorraine et Hôpital Universitaire de Nancy, Nancy, France
| | - Lise Rouillon
- EA7506-BioSpectroscopie Translationnelle (BioSpecT), Université de Reims Champagne-Ardenne, Reims, France
| | - Patrick Netter
- Ingénierie Moléculaire et Ingénierie Articulaire (IMoPA), UMR-7365 CNRS, Faculté de Médecine, Université de Lorraine et Hôpital Universitaire de Nancy, Nancy, France
| | - Damien Loeuille
- Ingénierie Moléculaire et Ingénierie Articulaire (IMoPA), UMR-7365 CNRS, Faculté de Médecine, Université de Lorraine et Hôpital Universitaire de Nancy, Nancy, France
| | - Florian Slimano
- EA7506-BioSpectroscopie Translationnelle (BioSpecT), Université de Reims Champagne-Ardenne, Reims, France
| | - Olivier Bouche
- EA7506-BioSpectroscopie Translationnelle (BioSpecT), Université de Reims Champagne-Ardenne, Reims, France
| | - Laurent Peyrin-Biroulet
- Département de Gastroentérologie, Hôpital Universitaire de Nancy-Brabois, Vandœuvre-lès-Nancy, France
| | - Jean-Yves Jouzeau
- Ingénierie Moléculaire et Ingénierie Articulaire (IMoPA), UMR-7365 CNRS, Faculté de Médecine, Université de Lorraine et Hôpital Universitaire de Nancy, Nancy, France
| | - Olivier Piot
- EA7506-BioSpectroscopie Translationnelle (BioSpecT), Université de Reims Champagne-Ardenne, Reims, France
- Plateforme d'Imagerie Cellulaire ou Tissulaire (PICT), Université de Reims Champagne-Ardenne, Reims, France
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13
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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: 0.3] [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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14
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Shahid A, Inam‐ur‐Raheem M, Aadil RM, Israr B. Phytochemical Screening and
In Vitro
Radical Scavenging Activities of “Gola” Guava Fruit and Leaf Extracts. J FOOD PROCESS PRES 2022. [DOI: 10.1111/jfpp.16989] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2022]
Affiliation(s)
- Arashi Shahid
- National Institute of Food Science and Technology University of Agriculture Faisalabad Pakistan
| | - Muhammad Inam‐ur‐Raheem
- National Institute of Food Science and Technology University of Agriculture Faisalabad Pakistan
| | - Rana Muhammad Aadil
- National Institute of Food Science and Technology University of Agriculture Faisalabad Pakistan
| | - Beenish Israr
- Institute of Home Science, University of Agriculture Faisalabad Pakistan
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15
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Kathuria D, Dhiman AK, Surekha A. Effect of different extraction techniques and drying conditions for the assay of isoflavone from
Harit
soya seeds. J FOOD PROCESS PRES 2022. [DOI: 10.1111/jfpp.16107] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Deepika Kathuria
- Department of Food Science and Technology Dr YS Parmar University of Horticulture and Forestry Solan India
| | - Anju K. Dhiman
- Department of Food Science and Technology Dr YS Parmar University of Horticulture and Forestry Solan India
| | - Attri Surekha
- Department of Food Science and Technology Dr YS Parmar University of Horticulture and Forestry Solan India
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16
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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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17
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Paluszkiewicz C, Roman M, Piergies N, Pięta E, Woźniak M, Guidi MC, Miśkiewicz-Orczyk K, Marków M, Ścierski W, Misiołek M, Drozdzowska B, Kwiatek WM. Tracking of the biochemical changes upon pleomorphic adenoma progression using vibrational microspectroscopy. Sci Rep 2021; 11:18010. [PMID: 34504182 PMCID: PMC8429647 DOI: 10.1038/s41598-021-97377-2] [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: 03/15/2021] [Accepted: 08/23/2021] [Indexed: 02/08/2023] Open
Abstract
Head and neck tumors can be very challenging to treat because of the risk of problems or complications after surgery. Therefore, prompt and accurate diagnosis is extremely important to drive appropriate treatment decisions, which may reduce the chance of recurrence. This paper presents the original research exploring the feasibility of Fourier transform infrared (FT-IR) and Raman spectroscopy (RS) methods to investigate biochemical alterations upon the development of the pleomorphic adenoma. Principal component analysis (PCA) was used for a detailed assessment of the observed changes and to determine the spectroscopic basis for salivary gland neoplastic pathogenesis. It is implied that within the healthy margin, as opposed to the tumoral tissue, there are parts that differ significantly in lipid content. This observation shed new light on the crucial role of lipids in tissue physiology and tumorigenesis. Thus, a novel approach that eliminates the influence of lipids on the elucidation of biochemical changes is proposed. The performed analysis suggests that the highly heterogeneous healthy margin contains more unsaturated triacylglycerols, while the tumoral section is rich in proteins. The difference in protein content was also observed for these two tissue types, i.e. the healthy tissue possesses more proteins in the anti-parallel β-sheet conformation, whereas the tumoral tissue is dominated by proteins rich in unordered random coils. Furthermore, the pathogenic tissue shows a higher content of carbohydrates and reveals noticeable differences in nucleic acid content. Finally, FT-IR and Raman spectroscopy methods were proposed as very promising methods in the discrimination of tumoral and healthy tissues of the salivary gland.
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Affiliation(s)
- Czesława Paluszkiewicz
- grid.413454.30000 0001 1958 0162Institute of Nuclear Physics, Polish Academy of Sciences, Radzikowskiego 152, 31-342 Kraków, Poland
| | - Maciej Roman
- grid.413454.30000 0001 1958 0162Institute of Nuclear Physics, Polish Academy of Sciences, Radzikowskiego 152, 31-342 Kraków, Poland
| | - Natalia Piergies
- grid.413454.30000 0001 1958 0162Institute of Nuclear Physics, Polish Academy of Sciences, Radzikowskiego 152, 31-342 Kraków, Poland
| | - Ewa Pięta
- grid.413454.30000 0001 1958 0162Institute of Nuclear Physics, Polish Academy of Sciences, Radzikowskiego 152, 31-342 Kraków, Poland
| | - Monika Woźniak
- grid.413454.30000 0001 1958 0162Institute of Nuclear Physics, Polish Academy of Sciences, Radzikowskiego 152, 31-342 Kraków, Poland
| | - Mariangela Cestelli Guidi
- grid.463190.90000 0004 0648 0236INFN-Laboratori Nazionali di Frascati, Via E. Fermi 40, 00044 Frascati, Italy
| | - Katarzyna Miśkiewicz-Orczyk
- grid.411728.90000 0001 2198 0923Department of Otorhinolaryngology and Laryngological Oncology in Zabrze, Medical University of Silesia Katowice, 41800 Zabrze, Poland
| | - Magdalena Marków
- grid.411728.90000 0001 2198 0923Department of Otorhinolaryngology and Laryngological Oncology in Zabrze, Medical University of Silesia Katowice, 41800 Zabrze, Poland
| | - Wojciech Ścierski
- grid.411728.90000 0001 2198 0923Department of Otorhinolaryngology and Laryngological Oncology in Zabrze, Medical University of Silesia Katowice, 41800 Zabrze, Poland
| | - Maciej Misiołek
- grid.411728.90000 0001 2198 0923Department of Otorhinolaryngology and Laryngological Oncology in Zabrze, Medical University of Silesia Katowice, 41800 Zabrze, Poland
| | - Bogna Drozdzowska
- grid.411728.90000 0001 2198 0923Department of Pathomorphology Zabrze, Medical University of Silesia, Katowice, Poland
| | - Wojciech M. Kwiatek
- grid.413454.30000 0001 1958 0162Institute of Nuclear Physics, Polish Academy of Sciences, Radzikowskiego 152, 31-342 Kraków, Poland
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18
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Dizaji AN, Ozek NS, Yilmaz A, Aysin F, Yilmaz M. Gold nanorod arrays enable highly sensitive bacterial detection via surface-enhanced infrared absorption (SEIRA) spectroscopy. Colloids Surf B Biointerfaces 2021; 206:111939. [PMID: 34186307 DOI: 10.1016/j.colsurfb.2021.111939] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Revised: 06/18/2021] [Accepted: 06/22/2021] [Indexed: 12/26/2022]
Abstract
Infrared (IR) spectroscopy is a unique and powerful method in the identification, characterization, and classification of chemical and biological molecules. However, the low absorbance of biological molecules has arisen as a major bottleneck and inhibits the application of IR in practical applications. To overcome this limitation, in the last four decades, surface-enhanced IR absorption (SEIRA) spectroscopy has been proposed and has become the focus of interest in various applications. In this study, for the first time, we proposed the employment of 3D anisotropic gold nanorod arrays (GNAs) as a highly active SEIRA platform in bacterial detection. For this, GNA platforms were fabricated through an oblique angle deposition (OAD) approach by using a physical vapor deposition (PVD) system. OAD of gold at proper deposition angle (10°) created closely-packed and columnar gold nanorod structures onto the glass slides in a well-controlled manner. GNA platform was tested as a SEIRA system in three different species of bacteria (Escherichia coli, Staphylococcus aureus, and Bacillus subtilis) by collecting IR spectra of each bacteria from different parts of GNA. The employment of GNA provided robust IR spectra with high reproducibility and signal-to-noise ratio. For the comparison, IR spectra of each bacteria were collected from aluminum foil and a smooth gold surface (SGS). No or very low IR spectra were observed in comparison to the GNA platform for these substrates. Unsupervised (PCA, HCA) and supervised (SIMCA, LDA, and SVM classification) machine learning analysis of bacteria spectra obtained from GNA substrate indicated that all bacteria samples can be detected and identified without using a label-containing biosensor, in a fast and simple manner.
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Affiliation(s)
- Araz Norouz Dizaji
- Department of Chemical Engineering, Ataturk University, 25240 Erzurum, Turkey; East Anatolia High Technology Application and Research Center (DAYTAM), Ataturk University, 25240 Erzurum, Turkey
| | - Nihal Simsek Ozek
- East Anatolia High Technology Application and Research Center (DAYTAM), Ataturk University, 25240 Erzurum, Turkey; Department of Biology, Ataturk University, 25240 Erzurum, Turkey
| | - Asli Yilmaz
- East Anatolia High Technology Application and Research Center (DAYTAM), Ataturk University, 25240 Erzurum, Turkey; Department of Molecular Biology and Genetics, Ataturk University, 25240 Erzurum, Turkey
| | - Ferhunde Aysin
- East Anatolia High Technology Application and Research Center (DAYTAM), Ataturk University, 25240 Erzurum, Turkey; Department of Biology, Ataturk University, 25240 Erzurum, Turkey
| | - Mehmet Yilmaz
- Department of Chemical Engineering, Ataturk University, 25240 Erzurum, Turkey; East Anatolia High Technology Application and Research Center (DAYTAM), Ataturk University, 25240 Erzurum, Turkey; Department of Nanoscience and Nanoengineering, Ataturk University, 25240 Erzurum, Turkey.
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19
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Kuhar N, Nazeer SS, Kumar RV, Mukherjee G, Umapathy S. Infrared Microspectroscopy With Multivariate Analysis to Differentiate Oral Hyperplasia From Squamous Cell Carcinoma: A Proof of Concept for Early Diagnosis. Lasers Surg Med 2021; 53:1435-1445. [PMID: 34058028 DOI: 10.1002/lsm.23427] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2020] [Revised: 04/21/2021] [Accepted: 05/17/2021] [Indexed: 01/31/2023]
Abstract
BACKGROUND AND OBJECTIVES Despite having numerous advances in therapeutics, mortality and morbidity due to oral cancer incidence are still very high. Early detection can improve the chances of survival in most patients. However, diagnosis at early stages can be challenging as premalignant conditions are usually asymptomatic. Currently, histological assessment remains the gold standard for diagnosis. Early diagnosis poses challenges to pathologists due to less severe morphological changes associated with early stages. Therefore, a fast and robust method of detection based on molecular changes is needed for early diagnosis. © 2021 Wiley Periodicals LLC. STUDY DESIGN/MATERIAL AND METHODS In the present study, Fourier transform infrared (FTIR) spectroscopic imaging has been used to differentiate early-stage oral hyperplasia from adjacent normal (AN) and oral squamous cell carcinoma (OSCC). Hyperplasia is often considered as an initial event in the pathogenesis of oral cancer and OSCC is the most common advanced stage of malignancy. Differentiating normal versus hyperplasia and hyperplasia versus OSCC can remain quite challenging on occasion using conventional staining as the histological assessment is based on morphological changes. RESULTS Unsupervised hierarchical cluster analysis (UHCA) has been performed on FTIR images of multiple tissues together that provided some degree of classification among tissue groups. The AN epithelium clustered distinctively using UHCA from both hyperplasia and grades 1 and 2 of OSCC. An increase in the content of DNA, denaturation of protein, and altered lipid structures were more clearly elucidated with spectral analysis. CONCLUSION This study demonstrates a simple strategy to differentiate early-stage oral hyperplasia from AN and OSCC using UHCA. This study also proposes a future alternative method where FTIR imaging can be used as a diagnostic tool for cancer at early stages.
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Affiliation(s)
- Nikki Kuhar
- Department of Inorganic and Physical Chemistry, Indian Institute of Science, Bengaluru, Karnataka, 560 012, India
| | - Shaiju S Nazeer
- Department of Inorganic and Physical Chemistry, Indian Institute of Science, Bengaluru, Karnataka, 560 012, India.,Department of Chemistry, Indian Institute of Space Sciences and Technology, Thiruvananthapuram, Kerala, 695 547, India
| | - Rekha V Kumar
- Department of Pathology, Kidwai Memorial Institute of Oncology, Bengaluru, Karnataka, 560 029, India
| | - Geetashree Mukherjee
- Department of Pathology, Kidwai Memorial Institute of Oncology, Bengaluru, Karnataka, 560 029, India
| | - Siva Umapathy
- Department of Inorganic and Physical Chemistry, Indian Institute of Science, Bengaluru, Karnataka, 560 012, India.,Department of Instrumentation & Applied Physics, Indian Institute of Science, Bangalore, Karnataka, 560012, India
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20
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Byrne HJ, Behl I, Calado G, Ibrahim O, Toner M, Galvin S, Healy CM, Flint S, Lyng FM. Biomedical applications of vibrational spectroscopy: Oral cancer diagnostics. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 252:119470. [PMID: 33503511 DOI: 10.1016/j.saa.2021.119470] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2020] [Revised: 01/09/2021] [Accepted: 01/10/2021] [Indexed: 06/12/2023]
Abstract
Vibrational spectroscopy, based on either infrared absorption or Raman scattering, has attracted increasing attention for biomedical applications. Proof of concept explorations for diagnosis of oral potentially malignant disorders and cancer are reviewed, and recent advances critically appraised. Specific examples of applications of Raman microspectroscopy for analysis of histological, cytological and saliva samples are presented for illustrative purposes, and the future prospects, ultimately for routine, chairside in vivo screening are discussed.
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Affiliation(s)
- Hugh J Byrne
- FOCAS Research Institute, Technological University Dublin, City Campus, Dublin 8, Ireland.
| | - Isha Behl
- School of Physics and Clinical and Optometric Sciences, Technological University Dublin, City Campus, Dublin 8, Ireland; Radiation and Environmental Science Centre, FOCAS Research Institute, Technological University Dublin, City Campus, Dublin 8, Ireland
| | - Genecy Calado
- School of Physics and Clinical and Optometric Sciences, Technological University Dublin, City Campus, Dublin 8, Ireland; Radiation and Environmental Science Centre, FOCAS Research Institute, Technological University Dublin, City Campus, Dublin 8, Ireland
| | - Ola Ibrahim
- School of Dental Science, Trinity College Dublin, Lincoln Place, Dublin 2, Ireland
| | - Mary Toner
- Central Pathology Laboratory, St. James Hospital, James Street, Dublin 8, Ireland
| | - Sheila Galvin
- Oral Medicine Unit, Dublin Dental University Hospital, Trinity College Dublin, Lincoln Place, Dublin 2, Ireland
| | - Claire M Healy
- Oral Medicine Unit, Dublin Dental University Hospital, Trinity College Dublin, Lincoln Place, Dublin 2, Ireland
| | - Stephen Flint
- Oral Medicine Unit, Dublin Dental University Hospital, Trinity College Dublin, Lincoln Place, Dublin 2, Ireland
| | - Fiona M Lyng
- School of Physics and Clinical and Optometric Sciences, Technological University Dublin, City Campus, Dublin 8, Ireland; Radiation and Environmental Science Centre, FOCAS Research Institute, Technological University Dublin, City Campus, Dublin 8, Ireland
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21
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Kazarian SG. Perspectives on infrared spectroscopic imaging from cancer diagnostics to process analysis. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 251:119413. [PMID: 33461133 DOI: 10.1016/j.saa.2020.119413] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2020] [Revised: 12/28/2020] [Accepted: 12/30/2020] [Indexed: 05/20/2023]
Abstract
This perspective paper discusses the recent and potential developments in the application of infrared spectroscopic imaging, with a focus on Fourier transform infrared (FTIR) spectroscopic imaging. The current state-of-the-art has been briefly reported, that includes recent trends and advances in applications of FTIR spectroscopic imaging to biomedical systems. Here, some new opportunities for research in the biomedical field, particularly for cancer diagnostics, and also in the engineering field of process analysis; as well as challenges in FTIR spectroscopic imaging are discussed. Current and future prospects that will bring spectroscopic imaging technologies to the frontier of advanced medical diagnostics and to process analytics in engineering applications will be outlined in this opinion paper.
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Affiliation(s)
- Sergei G Kazarian
- Department of Chemical Engineering, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom.
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22
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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: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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23
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Wang R, Wang Y. Fourier Transform Infrared Spectroscopy in Oral Cancer Diagnosis. Int J Mol Sci 2021; 22:1206. [PMID: 33530491 PMCID: PMC7865696 DOI: 10.3390/ijms22031206] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2020] [Revised: 01/19/2021] [Accepted: 01/21/2021] [Indexed: 12/13/2022] Open
Abstract
Oral cancer is one of the most common cancers worldwide. Despite easy access to the oral cavity and significant advances in treatment, the morbidity and mortality rates for oral cancer patients are still very high, mainly due to late-stage diagnosis when treatment is less successful. Oral cancer has also been found to be the most expensive cancer to treat in the United States. Early diagnosis of oral cancer can significantly improve patient survival rate and reduce medical costs. There is an urgent unmet need for an accurate and sensitive molecular-based diagnostic tool for early oral cancer detection. Fourier transform infrared spectroscopy has gained increasing attention in cancer research due to its ability to elucidate qualitative and quantitative information of biochemical content and molecular-level structural changes in complex biological systems. The diagnosis of a disease is based on biochemical changes underlying the disease pathology rather than morphological changes of the tissue. It is a versatile method that can work with tissues, cells, or body fluids. In this review article, we aim to summarize the studies of infrared spectroscopy in oral cancer research and detection. It provides early evidence to support the potential application of infrared spectroscopy as a diagnostic tool for oral potentially malignant and malignant lesions. The challenges and opportunities in clinical translation are also discussed.
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Affiliation(s)
| | - Yong Wang
- School of Dentistry, University of Missouri–Kansas City, Kansas City, MO 64108, USA;
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Ding J, Yu M, Zhu L, Zhang T, Xia J, Sun G. Diverse spectral band-based deep residual network for tongue squamous cell carcinoma classification using fiber optic Raman spectroscopy. Photodiagnosis Photodyn Ther 2020; 32:102048. [PMID: 33017657 DOI: 10.1016/j.pdpdt.2020.102048] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2020] [Revised: 09/13/2020] [Accepted: 09/18/2020] [Indexed: 11/17/2022]
Abstract
The research is to propose a new classification framework, called diverse spectral band-based deep residual network (DSB-ResNet), which can distinguish tongue squamous cell carcinoma (TSCC) from non-cancerous tissue. A fiber optic Raman spectroscopy system is used to collect Raman spectral data of TSCC and normal tissues. DSB-ResNet takes advantage of diverse spectral band-based spectra without processing to derive spectral representations from different spectral bands of Raman spectra, which improves the ability to identify TSCC. To show the superiority of the proposed method, the existing methods are used as the competitive methods to compare with the DSB-RestNet, the results demonstrate our method has the highest performance with 97.38 %, 98.75 %, and 98.25 % for sensitivity, specificity, and accuracy, respectively. The experimental results show that the DSB-ResNet is able to distinguish TSCC from non-cancerous tissue successfully. The proposed method is expected to provide a theoretical and methodological base for accurate detection of TSCC.
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Affiliation(s)
- Jingya Ding
- Key Laboratory of the Ministry of Education for Optoelectronic Measurement Technology and Instrument, Beijing Information Science and Technology University, Beijing, 100192, China.
| | - Mingxin Yu
- Key Laboratory of the Ministry of Education for Optoelectronic Measurement Technology and Instrument, Beijing Information Science and Technology University, Beijing, 100192, China.
| | - Lianqing Zhu
- Key Laboratory of the Ministry of Education for Optoelectronic Measurement Technology and Instrument, Beijing Information Science and Technology University, Beijing, 100192, China; School of Instrument Science and Opto-electronics Engineering, Hefei University of Technology, Hefei, 230009, China.
| | - Tao Zhang
- Department of stomatology, Peking Union Medical College Hospital, No. 1 Shuaifuyuan Wangfujing, Dongcheng District, Beijing 100730, China.
| | - Jiabin Xia
- Key Laboratory of the Ministry of Education for Optoelectronic Measurement Technology and Instrument, Beijing Information Science and Technology University, Beijing, 100192, China; School of Instrument Science and Opto-electronics Engineering, Hefei University of Technology, Hefei, 230009, China.
| | - Guangkai Sun
- Key Laboratory of the Ministry of Education for Optoelectronic Measurement Technology and Instrument, Beijing Information Science and Technology University, Beijing, 100192, China.
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Hou SW, He SY, Xie J, Li MY, Hong MS, Guan FL, Hu YL, Huang YL, Xu CH. Integral characterization of normal and alopecic hair at different degeneration stages by in-situ visible and chemical imaging. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 235:118315. [PMID: 32289732 DOI: 10.1016/j.saa.2020.118315] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2019] [Revised: 03/29/2020] [Accepted: 03/29/2020] [Indexed: 06/11/2023]
Abstract
Direct exploration to differences between normal hair (NH) and alopecic hair (AH) at different degeneration stages is still lacking. To reveal compositional and structural variation of AH with reference to NH internally and externally, infrared spectroscopic imaging combined with scanning electron microscopy was applied to investigate integral changes of hair chemical profiles and surface texture structures, and infrared macro-fingerprinting analysis revealed detailed chemical compositions of NH and AH. Results showed that AH had excessive irregular laminated structures compared to NH, leading to a lower weight bearing capacity. Spatial distributions of lipids, phosphates, lipoproteins and phospholipids in hair transverse sections showed that their infrared absorptions were intensified and gradually centralized to medulla with average variable-areas increasing upto 2.3 folds (lipoproteins area changed from 13% in NH to 30% in AH)as the alopecia progressed. Extracted pixel spectra from the chemical images showed different fingerprint characteristics in 1075-1120 cm-1. Specifically, compared to NH, AH showed red shift of phosphate peaks, indicating the occurrence of phosphates transformation. In this study, in-situ visible and infrared chemical imaging directly revealed more irregular laminated scalps with decreasing weight bearing capacity and increasing distributive areas expanding to medulla of key components (phosphates, phospholipids, etc.) that were relevant to alopecia development from NH to AH, and offered a fast, eco-friendly and effective method for hair research.
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Affiliation(s)
- Shi-Wei Hou
- College of Food Science & Technology, Shanghai Ocean University, Shanghai 201306, PR China
| | - Si-Yu He
- College of Food Science & Technology, Shanghai Ocean University, Shanghai 201306, PR China; Shanghai Qinpu Biotechnology Pte Ltd, Shanghai 201306, PR China
| | - Jun Xie
- College of Food Science & Technology, Shanghai Ocean University, Shanghai 201306, PR China; Shanghai Qinpu Biotechnology Pte Ltd, Shanghai 201306, PR China
| | - Ming-You Li
- College of Fisheries and Life Science, Shanghai Ocean University, Shanghai 201306, PR China
| | - Miao-Si Hong
- Dermatological Department, Shanghai Sixty People's hospital East, Shanghai 201306, PR China
| | - Fu-Lan Guan
- Department of Pharmacology, Yale University, New Haven, CT, 06520, USA
| | - Yu-Ling Hu
- Simson Hair Transplant, Shanghai 201607, PR China
| | - Yan-Li Huang
- Dermatological Department, Shanghai Sixty People's hospital East, Shanghai 201306, PR China.
| | - Chang-Hua Xu
- College of Food Science & Technology, Shanghai Ocean University, Shanghai 201306, PR China; Shanghai Engineering Research Center of Aquatic-Product Processing & Preservation, Shanghai 201306, PR China; National R&D Branch Center for Freshwater Aquatic Products Processing Technology (Shanghai), Shanghai 201306, PR China; Department of Pharmacology, Yale University, New Haven, CT, 06520, USA.
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26
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Paluszkiewicz C, Piergies N, Guidi MC, Pięta E, Ścierski W, Misiołek M, Drozdzowska B, Ziora P, Lisowska G, Kwiatek WM. Nanoscale infrared probing of amyloid formation within the pleomorphic adenoma tissue. Biochim Biophys Acta Gen Subj 2020; 1864:129677. [PMID: 32634535 DOI: 10.1016/j.bbagen.2020.129677] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2020] [Revised: 06/09/2020] [Accepted: 06/25/2020] [Indexed: 01/09/2023]
Abstract
BACKGROUND The process of malignant transformations of many tumour cases is still unclear and more specific experimental approaches are necessary. The detailed identification of the pathological changes may help in the therapy progression through the development of drugs with more selective action. METHODS In this study, the AFM-IR nanospectroscopy was applied for the first time to the pleomorphic adenoma (TM) and the marginal tissue characterizations. In order to verify the obtained spectral information, conventional FT-IR investigations were also performed. RESULTS The AFM-IR data (topographies, intensity maps, and spectra) show structural changes observed for the margin and TM samples. Additionally, within the tumour tissue the fibril-like areas, characteristic for amyloid diseases, were distinguished. CONCLUSIONS The application of AFM-IR allows to determine changes in the protein secondary structures between the fibrils and the regions outside them. It has been proved that, for the former areas, the α-helix/random coil/ β-sheet components dominate, while for the latter regions the α-helix/random coil indicate the main contribution to the protein composition. GENERAL SIGNIFICANCE The FT-IR results remain in good agreement with the AFM-IR data recorded for the areas outside the fibrils of the TM. This observation confirms that by means of the conventional FT-IR method the identification of the considered fibrils structure would be impossible. Only application of the AFM-IR nanospectroscopy allow for characterization and visualization of the fibrillization process occurring within the investigated tumour tissue.
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Affiliation(s)
| | - Natalia Piergies
- Institute of Nuclear Physics Polish Academy of Sciences, PL-31342 Krakow, Poland.
| | | | - Ewa Pięta
- Institute of Nuclear Physics Polish Academy of Sciences, PL-31342 Krakow, Poland
| | - Wojciech Ścierski
- Department of Otorhinolaryngology and Laryngological Oncology in Zabrze, Medical University of Silesia Katowice, PL-41800 Zabrze, Poland
| | - Maciej Misiołek
- Department of Otorhinolaryngology and Laryngological Oncology in Zabrze, Medical University of Silesia Katowice, PL-41800 Zabrze, Poland
| | - Bogna Drozdzowska
- Department and Chair of Pathomorphology, School of Medicine with the Division of Dentistry in Zabrze, Medical University of Silesia, Katowice, PL-41800 Zabrze, Poland
| | - Paweł Ziora
- Department and Chair of Pathomorphology, School of Medicine with the Division of Dentistry in Zabrze, Medical University of Silesia, Katowice, PL-41800 Zabrze, Poland
| | - Grażyna Lisowska
- Department of Otorhinolaryngology and Laryngological Oncology in Zabrze, Medical University of Silesia Katowice, PL-41800 Zabrze, Poland
| | - Wojciech M Kwiatek
- Institute of Nuclear Physics Polish Academy of Sciences, PL-31342 Krakow, Poland
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Attenuated total reflection: Fourier transform infrared spectroscopy for detection of heterogeneous vancomycin—intermediate Staphylococcus aureus. World J Microbiol Biotechnol 2020; 36:22. [DOI: 10.1007/s11274-019-2788-5] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2019] [Accepted: 12/17/2019] [Indexed: 10/25/2022]
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28
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Grube M, Kalnenieks U, Muter O. Metabolic response of bacteria to elevated concentrations of glyphosate-based herbicide. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 173:373-380. [PMID: 30784801 DOI: 10.1016/j.ecoenv.2019.02.045] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Revised: 02/08/2019] [Accepted: 02/13/2019] [Indexed: 06/09/2023]
Abstract
Glyphosate-based herbicides (GBHs) are the most widespread commonly used broad-spectrum herbicides that contaminate soils and waters, are toxic to bacteria, plants and animals, and have been classified as 'probably carcinogenic to humans' by the International Agency for Research on Cancer in 2015. Particular soil bacteria and fungi can degrade GBHs, hence, search for new GBH-degrading strains or microbial consortia, effective under specific growth conditions and local environment, seems to be a promising solution for bio-remediation of glyphosate-contaminated environment. Consequently, there is a need for rapid and informative methods to evaluate the GBH-induced changes of the metabolic pathways in cells, that may serve as indicators of GBH-degrading potential. Three new GBH-degrading bacterial strains, Pseudomonas sp., Actinobacteria and Serratia sp. were isolated from sludge of municipal waste water treatment plant (Daugavgriva, Riga, Latvia), agricultural soil and plant tissue, respectively. This study examined the response of these isolates to elevated concentrations of glyphosate (GLP) (100 and 500 mg/L) in GBH Klinik® 360 SL. The GBH-induced shift of metabolic activity in cells of Pseudomonas sp. was shown by tests on EcoPlates™. Fourier transform infrared (FTIR) spectroscopy analyses were used to evaluate the metabolomic response of bacteria to elevated concentrations of GBH in the growth environment. The spectra of Pseudomonas sp. and Serratia sp., incubated with and without GBH, were similar, thus indicating their GBH-resistance. The absorption at 1736 cm-1, assigned to ester carbonyl stretch vibrations, was detected in spectra of all three bacteria. The highest ester content was detected in Actinobacteria grown in medium with 1.0% molasses and 100 or 500 mg/L GLP in GBH Klinik®. An increase of cellular amounts of esters, either those of phospholipids or poly-β-hydroxybutyrates, indicates degradation of GLP. Therefore, monitoring the ester carbonyl stretch vibration band in FTIR spectra of bacterial biomass may speed up the search GBH-degrading strains. Microbiological tests and cell metabolic response studies by FTIR spectroscopy showed that the three new isolates of Pseudomonas sp., Actinobacteria and Serratia sp. were resistant to elevated concentrations of GBH Klinik® in growth environment and exhibited the potential for GBH degradation.
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Affiliation(s)
- Mara Grube
- Institute of Microbiology and Biotechnology, University of Latvia, Riga, Latvia.
| | - Uldis Kalnenieks
- Institute of Microbiology and Biotechnology, University of Latvia, Riga, Latvia
| | - Olga Muter
- Institute of Microbiology and Biotechnology, University of Latvia, Riga, Latvia
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Sharma M, Kaur R, Kaushik K, Kaushal N. Redox modulatory protective effects of ω-3 fatty acids rich fish oil against experimental colitis. Toxicol Mech Methods 2019; 29:244-254. [PMID: 30489199 DOI: 10.1080/15376516.2018.1553220] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
Ulcerative colitis (UC), a form of inflammatory bowel disease (IBD), is an immune-modulated disorder characterized by chronic and recurring inflammatory episodes. Oxidative stress and COX pathway of prostaglandin (PG) biosynthesis are indispensable to pathogenesis of UC. Any imbalance between PGs can compromise the mucosal homeostasis, leading to mucosal damage and chronic inflammation. However, blocking these PGs using classical Cox inhibitors such as non-steroidal anti-inflammatory drugs (NSAIDs) can instead aggravate signs of IBD. Therefore, realizing the need for safer and well tolerable alterative treatment approaches, currently, we evaluated the efficacy of n-3 fatty acids rich fish oil (FO) in the resolution of UC. Using a dextran sodium sulfate (DSS) model of experimental colitis, we have demonstrated that supplementation of FO containing 180 mg EPA and 120 mg DHA for 1 month relieved the signs (diarrhea, bloody stools, weight loss) of colitis-associated inflammation. To understand the biophysical changes associated with FO mediated inflammatory regulation, impedance measurement and Fourier transform infrared spectroscopy (FTIR) were done. These changes were also correlated with oxidative stress through markers such as GST, glutathione peroxidase (GPx), LPO, catalase, protein carbonyl content, GR, etc. in colonic mucosa. The modulation of COX mediated pathways in UC-associated inflammation was observed by protein expressions of various pro-inflammatory cytokines such as TNF-α and enzymes of PG synthesis such as COX-2, PGES, TXAS, and anti-inflammatory PGDS. Refuting the earlier reports that suggested the contradictory effects of FO, in the current study, we evidently demonstrated that the protective effects of FO are mediated through molecular mechanisms involving the redox-regulation of metabolism of key lipid metabolites.
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Affiliation(s)
- Mohita Sharma
- a Department of Biophysics , Panjab University , Chandigarh , India
| | - Ramanpreet Kaur
- a Department of Biophysics , Panjab University , Chandigarh , India
| | - Kuldeep Kaushik
- b Department of Zoology , Dev Samaj College for Women , Ferozepur City , India
| | - Naveen Kaushal
- a Department of Biophysics , Panjab University , Chandigarh , India
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Cals FLJ, Bakker Schut TC, Caspers PJ, Baatenburg de Jong RJ, Koljenović S, Puppels GJ. Raman spectroscopic analysis of the molecular composition of oral cavity squamous cell carcinoma and healthy tongue tissue. Analyst 2019; 143:4090-4102. [PMID: 30083685 DOI: 10.1039/c7an02106b] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
A Raman tissue spectrum is a quantitative representation of the overall molecular composition of that tissue. Raman spectra are often used as tissue fingerprints without further interpretation of the specific information that they contain about the tissue's molecular composition. In this study, we analyzed the differences in molecular composition between oral cavity squamous cell carcinoma (OCSCC) and healthy tissue structures in tongue, based on their Raman spectra. A total of 1087 histopathologically annotated spectra (142 OCSCC, 202 surface squamous epithelium, 61 muscle, 65 adipose tissue, 581 connective tissue, 26 gland, and 10 nerve) were obtained from Raman maps of 44 tongue samples from 21 patients. A characteristic, average spectrum of each tissue structure was fitted with a set of 55 pure-compound reference spectra, to define the best library of fit-spectra. Reference spectra represented proteins, lipids, nucleic acids, carbohydrates, amino acids and other miscellaneous molecules. A non-negative least-squares algorithm was used for fitting. Individual spectra per histopathological annotation were then fitted with this selected library in order to determine the molecular composition per tissue structure. The spectral contribution per chemical class was calculated. The results show that all characteristic tissue-type spectra could be fitted with a low residual of <4.82%. The content of carbohydrates, proteins and amino acids was the strongest discriminator between OCSCC and healthy tissue. The combination of carbohydrates, proteins and amino acids was used for a classification model of 'tumor' versus 'healthy tissue'. Validation of this model on an independent dataset showed a specificity of 93% at a sensitivity of 100%.
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Affiliation(s)
- F L J Cals
- Department of Otorhinolaryngology and Head and Neck Surgery, Erasmus MC Cancer institute, University Medical Center Rotterdam, The Netherlands
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31
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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: 33] [Impact Index Per Article: 5.5] [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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Bhattacharjee TT, Nicodemo MC, Sant'Anna LB, Lo Schiavo Arisawa EA, Raniero L. Tendinopathy diagnosis and treatment monitoring using attenuated total reflectance-Fourier transform infrared spectroscopy. JOURNAL OF BIOPHOTONICS 2018; 11:e201700256. [PMID: 29160619 DOI: 10.1002/jbio.201700256] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2017] [Accepted: 11/19/2017] [Indexed: 06/07/2023]
Abstract
Tendinopathy, an important sports injury afflicting athletes and general public, is associated with huge economic losses. The currently used diagnostic tests are subjective, show moderate sensitivity and specificity; while treatment failures persist despite advances in therapy. This highlights the need for tendinopathy diagnostic and treatment monitoring tools. This study investigates tendon injury, natural healing and effect of treatment using ATR-FTIR complemented with histopathology. Control (C), injured (I) and treated (T) rat tendons were extracted 3, 7, 14 and 28 days post-injury/treatment, representing phases of healing; and subjected to hematoxylin & eosin staining as well as spectroscopy. While C showed no change, I- and T-related histological changes could be clearly observed in stained sections. ATR-FTIR spectra highlighted the biochemical changes within groups. Multivariate analysis could classify C, I and T with 75%; different days between groups with 84%; and different days within group with 65% efficiency. Results suggest that such analysis can not only identify C, I or T but also different phases of healing. Difference between I and T at different time points also suggest change in rate of healing. Further studies may help develop this technique for clinical diagnosis and treatment monitoring in future.
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Affiliation(s)
- Tanmoy T Bhattacharjee
- Laboratory of Nanosensors, Research and Development Institute (IPD), University of Paraíba Valley (UNIVAP), São Paulo, Brazil
| | - Mariana C Nicodemo
- Biostimulation and Tissue Repair Laboratory, Research and Development Institute (IPD), University of Paraíba Valley (UNIVAP), São Paulo, Brazil
| | - Luciana B Sant'Anna
- Histology and Regenerative Therapy Laboratory, Research and Development Institute (IPD), University of Paraíba Valley (UNIVAP), São Paulo, Brazil
| | - Emilia A Lo Schiavo Arisawa
- Biostimulation and Tissue Repair Laboratory, Research and Development Institute (IPD), University of Paraíba Valley (UNIVAP), São Paulo, Brazil
| | - Leandro Raniero
- Laboratory of Nanosensors, Research and Development Institute (IPD), University of Paraíba Valley (UNIVAP), São Paulo, Brazil
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33
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Tozar T, Andrei IR, Costin R, Pirvulescu R, Pascu ML. Case series about ex vivo identification of squamous cell carcinomas by laser-induced autofluorescence and Fourier transform infrared spectroscopy. Lasers Med Sci 2018; 33:861-869. [PMID: 29380083 DOI: 10.1007/s10103-018-2445-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2017] [Accepted: 01/12/2018] [Indexed: 01/10/2023]
Abstract
An ex vivo case series aimed at identification of normal laryngeal tissue from laryngeal epidermoid squamous keratinized carcinoma by measuring laser-induced autofluorescence (LIAF) and Fourier transform infrared-attenuated total reflectance (FTIR-ATR) spectra is presented. The case series results were obtained for paired samples extracted from three patients (exclusion: macroscopic changes of normal vocal cord observed during surgery; surgical intervention on vocal cord, treated only with chemotherapy or radiotherapy for carcinoma; inclusion: men, aged 57-68, non-smokers). For LIAF analysis, a 375-nm picosecond pulsed laser diode with 31 MHz pulse repetition rate, 100 ps full-time width at half-maximum, and average power 0.49 μW was used. LIAF and FTIR-ATR spectra show noticeable differences between normal and malignant tissues. LIAF spectra differed in shape of emitted band, peak position, and band relative intensity of the two kinds of samples, evidencing hypsochromic shift and mean fluorescence intensity decrease of (75.42 ± 3)% in malignant tissue with respect to the normal one. The lack of 1745 cm-1 band in FTIR-ATR spectra for malignant tissues could be considered an important indicative of the presence of this kind of tissue; moreover, it resulted a greater contribution of lipids and proteins in normal tissue and of collagen in malignant tissue. Penetration depth of the evanescent wave was about 2 μm at an angle of 42°. The two spectroscopic methods are complementary, are applicable for real-time measurements, and may enhance cancer detection and diagnostics. Results presented in this study evidence the potential of the two methods for future in vivo studies.
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Affiliation(s)
- Tatiana Tozar
- National Institute for Laser, Plasma and Radiation Physics, Magurele, Ilfov, Romania
| | - Ionut Relu Andrei
- National Institute for Laser, Plasma and Radiation Physics, Magurele, Ilfov, Romania
| | - Romeo Costin
- Carol Davila Central University Emergency Military Hospital, Bucharest, Romania
| | - Ruxandra Pirvulescu
- Ophthalmology Clinic, University of Medicine and Pharmacy "Carol Davila", Emergency University Hospital, Bucharest, Romania
| | - Mihail Lucian Pascu
- National Institute for Laser, Plasma and Radiation Physics, Magurele, Ilfov, Romania. .,Faculty of Physics, University of Bucharest, Magurele, Ilfov, Romania.
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Rai V, Mukherjee R, Routray A, Ghosh AK, Roy S, Ghosh BP, Mandal PB, Bose S, Chakraborty C. Serum-based diagnostic prediction of oral submucous fibrosis using FTIR spectrometry. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 189:322-329. [PMID: 28826108 DOI: 10.1016/j.saa.2017.08.018] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2016] [Revised: 08/04/2017] [Accepted: 08/07/2017] [Indexed: 06/07/2023]
Abstract
Oral submucous fibrosis (OSF) is found to have the highest malignant potentiality among all other pre-cancerous lesions. However, its detection prior to tissue biopsy can be challenging in clinics. Moreover, biopsy examination is invasive and painful. Hence, there is an urgent need of new technology that facilitates accurate diagnostic prediction of OSF prior to biopsy. Here, we used FTIR spectroscopy coupled with chemometric techniques to distinguish the serum metabolic signatures of OSF patients (n=30) and healthy controls (n=30). Serum biochemical analyses have been performed to further support the FTIR findings. Absorbance intensities of 45 infrared wavenumbers differed significantly between OSF and normal serum FTIR spectra representing alterations in carbohydrates, proteins, lipids and nucleic acids. Nineteen prominent significant wavenumbers (P≤0.001) at 1020, 1025, 1035, 1039, 1045, 1078, 1055, 1100, 1117, 1122, 1151, 1169, 1243, 1313, 1398, 1453, 1544, 1650 and 1725cm-1 provided excellent segregation of OSF spectra from normal using multivariate statistical techniques. These findings provided essential information on the metabolic features of blood serum of OSF patients and established that FTIR spectroscopy coupled with chemometric analysis can be potentially useful in the rapid and accurate preoperative screening/diagnosis of OSF.
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Affiliation(s)
- Vertika Rai
- School of Medical Science & Technology, Indian Institute of Technology, Kharagpur, India
| | - Rashmi Mukherjee
- Advanced Technology Development Centre, Indian Institute of Technology, Kharagpur, India
| | - Aurobinda Routray
- Dept. of Electrical Engineering, Indian Institute of Technology, Kharagpur, India
| | - Ananta Kumar Ghosh
- Dept. of Biotechnology, Indian Institute of Technology, Kharagpur, India
| | - Seema Roy
- B C Roy Technology Hospital, Indian Institute of Technology, Kharagpur, India
| | - Barnali Paul Ghosh
- B C Roy Technology Hospital, Indian Institute of Technology, Kharagpur, India
| | | | - Surajit Bose
- Awadh Dental College and Hospital, Tata Jamshedpur, India
| | - Chandan Chakraborty
- School of Medical Science & Technology, Indian Institute of Technology, Kharagpur, India.
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Colorectal Cancer and Colitis Diagnosis Using Fourier Transform Infrared Spectroscopy and an Improved K-Nearest-Neighbour Classifier. SENSORS 2017; 17:s17122739. [PMID: 29186913 PMCID: PMC5750796 DOI: 10.3390/s17122739] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/02/2017] [Revised: 10/31/2017] [Accepted: 11/02/2017] [Indexed: 01/03/2023]
Abstract
Combining Fourier transform infrared spectroscopy (FTIR) with endoscopy, it is expected that noninvasive, rapid detection of colorectal cancer can be performed in vivo in the future. In this study, Fourier transform infrared spectra were collected from 88 endoscopic biopsy colorectal tissue samples (41 colitis and 47 cancers). A new method, viz., entropy weight local-hyperplane k-nearest-neighbor (EWHK), which is an improved version of K-local hyperplane distance nearest-neighbor (HKNN), is proposed for tissue classification. In order to avoid limiting high dimensions and small values of the nearest neighbor, the new EWHK method calculates feature weights based on information entropy. The average results of the random classification showed that the EWHK classifier for differentiating cancer from colitis samples produced a sensitivity of 81.38% and a specificity of 92.69%.
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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: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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37
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Chen L, Zhang Y, Jiang H, Wang X, Liu C. Cytidine Mediated AuAg Nanoclusters as Bright Fluorescent Probe for Tumor Imagingin vivo. CHINESE J CHEM 2016. [DOI: 10.1002/cjoc.201500748] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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38
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Singh SP, Ibrahim O, Byrne HJ, Mikkonen JW, Koistinen AP, Kullaa AM, Lyng FM. Recent advances in optical diagnosis of oral cancers: Review and future perspectives. Head Neck 2015; 38 Suppl 1:E2403-11. [PMID: 26613806 DOI: 10.1002/hed.24293] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2015] [Revised: 07/30/2015] [Accepted: 09/12/2015] [Indexed: 12/16/2022] Open
Abstract
Optical diagnosis techniques offer several advantages over traditional approaches, including objectivity, speed, and cost, and these label-free, noninvasive methods have the potential to change the future workflow of cancer management. The oral cavity is particularly accessible and, thus, such methods may serve as alternate/adjunct tools to traditional methods. Recently, in vivo human clinical studies have been initiated with a view to clinical translation of such technologies. A comprehensive review of optical methods in oral cancer diagnosis is presented. After an introduction to the epidemiology and etiological factors associated with oral cancers currently used, diagnostic methods and their limitations are presented. A thorough review of fluorescence, infrared absorption, and Raman spectroscopic methods in oral cancer diagnosis is presented. The applicability of minimally invasive methods based on serum/saliva is also discussed. The review concludes with a discussion on future demands and scope of developments from a clinical point of view. © 2015 Wiley Periodicals, Inc. Head Neck 38: E2403-E2411, 2016.
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Affiliation(s)
- S P Singh
- Institute of Dentistry, University of Eastern Finland, Kuopio, Finland.,SIB Laboratories, University of Eastern Finland, Kuopio, Finland
| | - Ola Ibrahim
- DIT Centre for Radiation and Environmental Science, FOCAS Research Institute, Dublin Institute of Technology, Dublin, Ireland.,School of Physics, Dublin Institute of Technology, Dublin, Ireland
| | - Hugh J Byrne
- FOCAS Research Institute, Dublin Institute of Technology, Dublin, Ireland
| | - Jopi W Mikkonen
- SIB Laboratories, University of Eastern Finland, Kuopio, Finland
| | - Arto P Koistinen
- SIB Laboratories, University of Eastern Finland, Kuopio, Finland
| | - Arja M Kullaa
- Institute of Dentistry, University of Eastern Finland, Kuopio, Finland.,Research Group of Oral Health Sciences, Faculty of Medicine, University of Oulu, Oulu, Finland
| | - Fiona M Lyng
- DIT Centre for Radiation and Environmental Science, FOCAS Research Institute, Dublin Institute of Technology, Dublin, Ireland.,School of Physics, Dublin Institute of Technology, Dublin, Ireland
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39
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Noninvasive surface detection of papillary thyroid carcinoma by Fourier transform infrared spectroscopy. Chem Res Chin Univ 2015. [DOI: 10.1007/s40242-015-4354-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Zohdi V, Whelan DR, Wood BR, Pearson JT, Bambery KR, Black MJ. Importance of tissue preparation methods in FTIR micro-spectroscopical analysis of biological tissues: 'traps for new users'. PLoS One 2015; 10:e0116491. [PMID: 25710811 PMCID: PMC4339720 DOI: 10.1371/journal.pone.0116491] [Citation(s) in RCA: 95] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2014] [Accepted: 12/10/2014] [Indexed: 11/19/2022] Open
Abstract
Fourier Transform Infrared (FTIR) micro-spectroscopy is an emerging technique for the biochemical analysis of tissues and cellular materials. It provides objective information on the holistic biochemistry of a cell or tissue sample and has been applied in many areas of medical research. However, it has become apparent that how the tissue is handled prior to FTIR micro-spectroscopic imaging requires special consideration, particularly with regards to methods for preservation of the samples. We have performed FTIR micro-spectroscopy on rodent heart and liver tissue sections (two spectroscopically very different biological tissues) that were prepared by desiccation drying, ethanol substitution and formalin fixation and have compared the resulting spectra with that of fully hydrated freshly excised tissues. We have systematically examined the spectra for any biochemical changes to the native state of the tissue caused by the three methods of preparation and have detected changes in infrared (IR) absorption band intensities and peak positions. In particular, the position and profile of the amide I, key in assigning protein secondary structure, changes depending on preparation method and the lipid absorptions lose intensity drastically when these tissues are hydrated with ethanol. Indeed, we demonstrate that preserving samples through desiccation drying, ethanol substitution or formalin fixation significantly alters the biochemical information detected using spectroscopic methods when compared to spectra of fresh hydrated tissue. It is therefore imperative to consider tissue preparative effects when preparing, measuring, and analyzing samples using FTIR spectroscopy.
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Affiliation(s)
- Vladislava Zohdi
- Department of Anatomy & Developmental Biology, Monash University, Clayton, Victoria 3800, Australia
| | - Donna R. Whelan
- Centre for Biospectroscopy and School of Chemistry, Monash University, Clayton, Victoria 3800, Australia
| | - Bayden R. Wood
- Centre for Biospectroscopy and School of Chemistry, Monash University, Clayton, Victoria 3800, Australia
| | - James T. Pearson
- Department of Physiology, Monash University, Clayton, Victoria 3800, Australia
| | - Keith R. Bambery
- Centre for Biospectroscopy and School of Chemistry, Monash University, Clayton, Victoria 3800, Australia
| | - M. Jane Black
- Department of Anatomy & Developmental Biology, Monash University, Clayton, Victoria 3800, Australia
- * E-mail:
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41
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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: 0.8] [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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42
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Yasser M, Shaikh R, Chilakapati MK, Teni T. Raman spectroscopic study of radioresistant oral cancer sublines established by fractionated ionizing radiation. PLoS One 2014; 9:e97777. [PMID: 24841281 PMCID: PMC4026477 DOI: 10.1371/journal.pone.0097777] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2014] [Accepted: 04/23/2014] [Indexed: 01/24/2023] Open
Abstract
Radiotherapy is an important treatment modality for oral cancer. However, development of radioresistance is a major hurdle in the efficacy of radiotherapy in oral cancer patients. Identifying predictors of radioresistance is a challenging task and has met with little success. The aim of the present study was to explore the differential spectral profiles of the established radioresistant sublines and parental oral cancer cell lines by Raman spectroscopy. We have established radioresistant sublines namely, 50Gy-UPCI:SCC029B and 70Gy-UPCI:SCC029B from its parental UPCI:SCC029B cell line, by using clinically admissible 2Gy fractionated ionizing radiation (FIR). The developed radioresistant character was validated by clonogenic cell survival assay and known radioresistance-related protein markers like Mcl-1, Bcl-2, Cox-2 and Survivin. Altered cellular morphology with significant increase (p<0.001) in the number of filopodia in radioresistant cells with respect to parental cells was observed. The Raman spectra of parental UPCI:SCC029B, 50Gy-UPCI:SCC029B and 70Gy-UPCI:SCC029B cells were acquired and spectral features indicate possible differences in biomolecules like proteins, lipids and nucleic acids. Principal component analysis (PCA) provided three clusters corresponding to radioresistant 50Gy, 70Gy-UPCI:SCC029B sublines and parental UPCI:SCC029B cell line with minor overlap, which suggest altered molecular profile acquired by the radioresistant cells due to multiple doses of irradiation. The findings of this study support the potential of Raman spectroscopy in prediction of radioresistance and possibly contribute to better prognosis of oral cancer.
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Affiliation(s)
- Mohd Yasser
- KS-121, Teni Laboratory, ACTREC, Tata Memorial Centre, Kharghar-Node, Navi Mumbai, India
| | - Rubina Shaikh
- KS-04, Chilakapati Laboratory, ACTREC, Tata Memorial Centre, Kharghar-Node, Navi Mumbai, India
| | - Murali Krishna Chilakapati
- KS-04, Chilakapati Laboratory, ACTREC, Tata Memorial Centre, Kharghar-Node, Navi Mumbai, India
- * E-mail: (MKC); (TT)
| | - Tanuja Teni
- KS-121, Teni Laboratory, ACTREC, Tata Memorial Centre, Kharghar-Node, Navi Mumbai, India
- * E-mail: (MKC); (TT)
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Craig D, McAughtrie S, Simpson J, McCraw C, Faulds K, Graham D. Confocal SERS Mapping of Glycan Expression for the Identification of Cancerous Cells. Anal Chem 2014; 86:4775-82. [DOI: 10.1021/ac4038762] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Derek Craig
- Centre for Molecular
Nanometrology, WestCHEM,
Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral Street, Glasgow G1 1XL, U.K
| | - Sarah McAughtrie
- Centre for Molecular
Nanometrology, WestCHEM,
Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral Street, Glasgow G1 1XL, U.K
| | - Jonathan Simpson
- Centre for Molecular
Nanometrology, WestCHEM,
Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral Street, Glasgow G1 1XL, U.K
| | - Corinna McCraw
- Centre for Molecular
Nanometrology, WestCHEM,
Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral Street, Glasgow G1 1XL, U.K
| | - Karen Faulds
- Centre for Molecular
Nanometrology, WestCHEM,
Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral Street, Glasgow G1 1XL, U.K
| | - Duncan Graham
- Centre for Molecular
Nanometrology, WestCHEM,
Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral Street, Glasgow G1 1XL, U.K
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44
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Wang X, Shen X, Sheng D, Chen X, Liu X. FTIR spectroscopic comparison of serum from lung cancer patients and healthy persons. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2014; 122:193-197. [PMID: 24316532 DOI: 10.1016/j.saa.2013.11.049] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2013] [Revised: 10/21/2013] [Accepted: 11/10/2013] [Indexed: 06/02/2023]
Abstract
The incidence and mortality of lung cancer remains so high that it is very urgent to develop an effective method for early detection of lung cancer. Serum can reflect physiological and pathological changes of human body, so FTIR spectroscopy was used to compare lung cancer patients' and healthy persons' serum in this study. The A1080/A1170 ratio might be potentially useful for distinguishing lung cancer patients' serum from healthy persons' serum. Moreover, the result of curve fitting indicated that the ratios of α-helix/antiparallel β-sheet were lower for lung cancer patients' serum than those for healthy persons' serum. These results indicated that IR spectra of serum might be potentially useful for detecting lung cancer.
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Affiliation(s)
- Xin Wang
- School of Basic Medical Sciences, Anhui Medical University, Hefei, Anhui 230032, China
| | - Xiang Shen
- The First Affiliated Hospital, Anhui Medical University, Hefei, Anhui 230032, China
| | - Daping Sheng
- The First Affiliated Hospital, Anhui Medical University, Hefei, Anhui 230032, China.
| | - Xianliang Chen
- School of Basic Medical Sciences, Anhui Medical University, Hefei, Anhui 230032, China
| | - Xingcun Liu
- The First Affiliated Hospital, Anhui Medical University, Hefei, Anhui 230032, China.
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45
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Guerra M, López MA, Estéves I, Zubillaga AL, Cróquer A. Fourier-transformed infrared spectroscopy: a tool to identify gross chemical changes from healthy to yellow band disease tissues. DISEASES OF AQUATIC ORGANISMS 2014; 107:249-258. [PMID: 24429476 DOI: 10.3354/dao02680] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Yellow band disease (YBD) is a common and wide-spread Caribbean syndrome that affects the genus Orbicella, a group of species that constitute the framework of Caribbean coral reefs. Previous studies have shown that the structure and function of bacterial assemblages vary between healthy tissues and YBD lesions; however, how the molecular composition of tissues varies as tissues transition from healthy to YBD has not been determined before. The present study provides the first survey of macromolecules found from healthy (H), apparently healthy (AH), transition (TR) and YBD tissues of Orbicella faveolata. For this, we used Fourier-transformed mid-infrared spectroscopy (FTIR) to compare absorption profiles as a proxy for the gross molecular composition of decalcified H, AH and YBD tissues. We found a significantly higher level of infrared absorption for bands assigned to lipids in H tissues compared to YBD tissues, suggesting that lipid compounds are more abundant in compromised tissues in relation to other macromolecules. We also found a lower level of intensity of bands assigned to carbohydrates and proteins in YBD tissues, compared to H and AH tissues. A similar pattern was observed for phospholipidic compounds in relation to fatty acids. This study is the first to show that healthy and YBD-compromised tissues have different infrared absorption profiles, suggesting that alterations in the biochemical composition occur during pathogenesis. Future studies should focus on determining the actual concentration of these compounds in H, AH, TR and YBD tissues and on testing the role of translocation of photoassimilates from H tissues and/or from endolithic algae to YBD tissues.
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Affiliation(s)
- Mayamarú Guerra
- Unidad de Tecnología Laser y Optoelectrónica and Unidad de Geoquímica, Instituto Zuliano de Investigaciones Tecnológicas, Km 15 Carretera Via a La Cañada, Maracaibo 4001, Venezuela
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46
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Chen Z, Butke R, Miller B, Hitchcock CL, Allen HC, Povoski SP, Martin EW, Coe JV. Infrared metrics for fixation-free liver tumor detection. J Phys Chem B 2013; 117:12442-50. [PMID: 24053455 DOI: 10.1021/jp4073087] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Infrared (IR) spectroscopic imaging of human liver tissue slices has been used to identify and characterize liver tumors. Liver tissue, containing a liver metastasis of breast origin (mucinous carcinoma), was surgically removed from a consenting patient and frozen without formalin fixation or dehydration procedures, so that lipids and water remained in the tissues. A set of IR metrics (ratios of various IR peaks) was determined for tumors in fixation-free liver tissues. K-means cluster analysis was used to tell tumor from nontumor. In this case, there was a large reduction in lipid content upon going from nontumor to tumor tissue, and a well-resolved IR spectrum of nontumor liver lipid was obtained and analyzed. These IR metrics may someday guide work on IR spectroscopic diagnostics on patients in the operating room. This work also suggests utility for these methods beyond the identification of liver tumors, perhaps in the study of liver lipids.
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Affiliation(s)
- Zhaomin Chen
- Department of Chemistry and Biochemistry, The Ohio State University , 100 West 18th Avenue, Columbus , Ohio 43210-1173, United States
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47
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Detection of gastric cancer with Fourier transform infrared spectroscopy and support vector machine classification. BIOMED RESEARCH INTERNATIONAL 2013; 2013:942427. [PMID: 24000331 PMCID: PMC3755429 DOI: 10.1155/2013/942427] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/30/2013] [Accepted: 07/19/2013] [Indexed: 11/17/2022]
Abstract
Early diagnosis and early medical treatments are the keys to save the patients' lives and improve the living quality. Fourier transform infrared (FT-IR) spectroscopy can distinguish malignant from normal tissues at the molecular level. In this paper, programs were made with pattern recognition method to classify unknown samples. Spectral data were pretreated by using smoothing and standard normal variate (SNV) methods. Leave-one-out cross validation was used to evaluate the discrimination result of support vector machine (SVM) method. A total of 54 gastric tissue samples were employed in this study, including 24 cases of normal tissue samples and 30 cases of cancerous tissue samples. The discrimination results of SVM method showed the sensitivity with 100%, specificity with 83.3%, and total discrimination accuracy with 92.2%.
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Krishnaswamy V, Laughney AM, Wells WA, Paulsen KD, Pogue BW. Scanning in situ spectroscopy platform for imaging surgical breast tissue specimens. OPTICS EXPRESS 2013; 21:2185-94. [PMID: 23389199 PMCID: PMC3601741 DOI: 10.1364/oe.21.002185] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
A non-contact localized spectroscopic imaging platform has been developed and optimized to scan 1 x 1 cm² square regions of surgically resected breast tissue specimens with ~150-micron resolution. A color corrected, image-space telecentric scanning design maintained a consistent sampling geometry and uniform spot size across the entire imaging field. Theoretical modeling in ZEMAX allowed estimation of the spot size, which is equal at both the center and extreme positions of the field with ~5% variation across the designed waveband, indicating excellent color correction. The spot sizes at the center and an extreme field position were also measured experimentally using the standard knife-edge technique and were found to be within ~8% of the theoretical predictions. Highly localized sampling offered inherent insensitivity to variations in background absorption allowing direct imaging of local scattering parameters, which was validated using a matrix of varying concentrations of Intralipid and blood in phantoms. Four representative, pathologically distinct lumpectomy tissue specimens were imaged, capturing natural variations in tissue scattering response within a given pathology. Variations as high as 60% were observed in the average reflectance and relative scattering power images, which must be taken into account for robust classification performance. Despite this variation, the preliminary data indicates discernible scatter power contrast between the benign vs malignant groups, but reliable discrimination of pathologies within these groups would require investigation into additional contrast mechanisms.
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Affiliation(s)
| | - Ashley M. Laughney
- Thayer School of Engineering, Dartmouth College, 14 Engineering Drive, Hanover, New Hampshire 03755,
USA
| | - Wendy A. Wells
- Department of Pathology, Geisel School of Medicine at Dartmouth, Hanover, New Hampshire 03755,
USA
| | - Keith D. Paulsen
- Thayer School of Engineering, Dartmouth College, 14 Engineering Drive, Hanover, New Hampshire 03755,
USA
| | - Brian W. Pogue
- Thayer School of Engineering, Dartmouth College, 14 Engineering Drive, Hanover, New Hampshire 03755,
USA
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49
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San-Blas E, Cubillán N, Guerra M, Portillo E, Esteves I. Characterization of Xenorhabdus and Photorhabdus bacteria by Fourier transform mid-infrared spectroscopy with attenuated total reflection (FT-IR/ATR). SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2012; 93:58-62. [PMID: 22465768 DOI: 10.1016/j.saa.2012.03.006] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2011] [Revised: 02/28/2012] [Accepted: 03/03/2012] [Indexed: 05/31/2023]
Abstract
The use of Fourier transform mid-infrared spectroscopy with attenuated total reflection for characterizing entomopathogenic bacteria from genera Xenorhabdus and Photorhabdus is evaluated for the first time. The resulting spectra of Xenorhabdus poinarii and Photorhabdus luminiscens were compared with the spectrum of Escherichia coli samples. The absorption spectra generated by the bacteria samples, were very different at the region below 1400cm(-1) which represents the stretching vibrations of phosphate and carbohydrates. Star diagrams of the fingerprint section of nematodes spectra (between 1,350 and 1,650 cm(-1)) for separation between spectra was used and showed to be a useful tool for classification purposes.
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Affiliation(s)
- Ernesto San-Blas
- Laboratorio de Protección Vegetal, Centro de Estudios Botánicos y Agroforestales, Instituto Venezolano de Investigaciones Científicas, Calle 74, entre AV 14A y 15, Maracaibo, C.P. 4001, Bolivarian Republic of Venezuela.
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50
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Li X, Li QB, Zhang GJ, Xu YZ, Sun XJ, Shi JS, Zhang YF, Wu JG. Identification of colitis and cancer in colon biopsies by Fourier Transform Infrared spectroscopy and chemometrics. ScientificWorldJournal 2012; 2012:936149. [PMID: 22645472 PMCID: PMC3356748 DOI: 10.1100/2012/936149] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2011] [Accepted: 12/25/2011] [Indexed: 12/27/2022] Open
Abstract
Cancer is a disease that does great harms to the health of human beings. FT-IR spectroscopy could identify variability at the molecular level in biological specimens. It is a rapid and noninvasive method, which could be used intraoperatively to modify surgical procedures. The aim of this paper is to identify and separate cancer from colitis in endoscopic colon biopsies through the use of FT-IR spectroscopy. A total of 88 endoscopic colon samples, including 41 cases of colitis and 47 cases of colon cancer, were obtained. Specimens were placed on an ATR accessory linked to FT-IR spectrometer with a MCT detector for greater stability and sensitivity. Later, specimens were sent for the histological examination as the reference in the spectral analysis. 41 colitis and 47 cancer specimens were compared. Spectra preprocessed with smoothing and normalization were used for discrimination analysis. PCA was processed to simplify the spectrum data set. Naive Bayes classifier model was constructed for diagnostic classification. Leave-one-out cross-validation method was utilized to assess the discrimination results. The sensitivity of FT-IR detection for cancer achieves 97.6%. The results showed that colon cancer could be distinguished from colitis with high accuracy using FT-IR spectroscopy and chemometrics.
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Affiliation(s)
- Xiang Li
- College of Instrument Science and Opto-Electronics Engineering, Beihang University, Beijing 100083, China
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