1
|
Zhang X, Yang F, Xiao J, Qu H, Jocelin NF, Ren L, Guo Y. Analysis and comparison of machine learning methods for species identification utilizing ATR-FTIR spectroscopy. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 308:123713. [PMID: 38056185 DOI: 10.1016/j.saa.2023.123713] [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: 07/31/2023] [Revised: 10/26/2023] [Accepted: 11/28/2023] [Indexed: 12/08/2023]
Abstract
Accurate identification of insect species holds paramount significance in diverse fields as it facilitates a comprehensive understanding of their ecological habits, distribution range, and impact on both the environment and humans. While morphological characteristics have traditionally been employed for species identification, the utilization of empty pupariums for this purpose remains relatively limited. In this study, ATR-FTIR was employed to acquire spectral information from empty pupariums of five fly species, subjecting the data to spectral pre-processing to obtain average spectra for preliminary analysis. Subsequently, PCA and OPLS-DA were utilized for clustering and classification. Notably, two wavebands (3000-2800 cm-1 and 1800-1300 cm-1) were found to be significant in distinguishing A. grahami. Further, we established three machine learning models, including SVM, KNN, and RF, to analyze spectra from different waveband groups. The biological fingerprint region (1800-1300 cm-1) demonstrated a substantial advantage in identifying empty puparium species. Remarkably, the SVM model exhibited an impressive accuracy of 100 % in identifying all five fly species. This study represents the first instance of employing infrared spectroscopy and machine learning methods for identifying insect species using empty pupariums, providing a robust research foundation for future investigations in this area.
Collapse
Affiliation(s)
- Xiangyan Zhang
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha 410013, Hunan, China
| | - Fengqin Yang
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha 410013, Hunan, China
| | - Jiao Xiao
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha 410013, Hunan, China
| | - Hongke Qu
- Key Laboratory of Carcinogenesis and Cancer Invasion of the Chinese Ministry of Education, Cancer Research Institute and School of Basic Medicine Sciences, Central South University, Changsha, Hunan, China
| | - Ngando Fernand Jocelin
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha 410013, Hunan, China
| | - Lipin Ren
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha 410013, Hunan, China.
| | - Yadong Guo
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha 410013, Hunan, China.
| |
Collapse
|
2
|
He X, Bian C, Wang H, Zhang Y, Ding X, Li H, Wang Q, Li J. Extrapolation study for determining the time since injury in a rat subcutaneous hematoma model utilizing ATR-FTIR spectroscopy. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2024; 16:1272-1280. [PMID: 38323628 DOI: 10.1039/d3ay01898a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/08/2024]
Abstract
The determination of the time of an injury has been a major problem in forensic science due to the lack of objective, reliable and portable methods. In this study, a subcutaneous hemorrhage model in rats was established over six days, and attenuated total reflection-Fourier transform infrared (ATR-FTIR) spectroscopy coupled with chemometrics was used to determine the time since injury. Initial principal component analysis (PCA) showed variance among hematoma sites. Subsequently, spectral data were acquired to establish a dependable partial least square (PLS) regression model with predictive abilities. The root mean square error of cross-validation (RMSECV) and the root mean square error of prediction (RMSEP) values produced by a genetic algorithm (GA) were 0.64 d (R2 = 0.88) and 0.57 d (R2 = 0.90), respectively. Few variables were involved in the model, and significantly better results were obtained in comparison to the conventional full-spectrum PLS model. In combination with the results of variable importance in projection (VIP) scores, all components, including proteins, nucleic acids and phospholipids, provided inferences regarding the samples at different time points; additionally, amide I and II bands represented the secondary structure of proteins and provided the largest contribution. Based on our preliminary study, the combination of swift and nondamaging ATR-FTIR spectroscopy with chemometrics could prove to be an advantageous approach for gauging the age of an injury in the forensic field.
Collapse
Affiliation(s)
- Xin He
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, 400016, China.
| | - Cunhao Bian
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, 400016, China.
| | - Hanting Wang
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, 400016, China.
| | - Yongtai Zhang
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, 400016, China.
| | - Xuan Ding
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, 400016, China.
| | - Hongwei Li
- Technical Department of Interpol Corps of the Chongqing Public Bureau, Chongqing, China
| | - Qi Wang
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, 400016, China.
| | - Jianbo Li
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, 400016, China.
| |
Collapse
|
3
|
Impaired Extracellular Proteostasis in Patients with Heart Failure. Arch Med Res 2023; 54:211-222. [PMID: 36797157 DOI: 10.1016/j.arcmed.2023.02.001] [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: 09/11/2022] [Revised: 01/11/2023] [Accepted: 02/02/2023] [Indexed: 02/16/2023]
Abstract
BACKGROUND Proteostasis impairment and the consequent increase of amyloid burden in the myocardium have been associated with heart failure (HF) development and poor prognosis. A better knowledge of the protein aggregation process in biofluids could assist the development and monitoring of tailored interventions. AIM To compare the proteostasis status and protein's secondary structures in plasma samples of patients with HF with preserved ejection fraction (HFpEF), patients with HF with reduced ejection fraction (HFrEF), and age-matched individuals. METHODS A total of 42 participants were enrolled in 3 groups: 14 patients with HFpEF, 14 patients with HFrEF, and 14 age-matched individuals. Proteostasis-related markers were analyzed by immunoblotting techniques. Fourier Transform Infrared (FTIR) Spectroscopy in Attenuated Total Reflectance (ATR) was applied to assess changes in the protein's conformational profile. RESULTS Patients with HFrEF showed an elevated concentration of oligomeric proteic species and reduced clusterin levels. ATR-FTIR spectroscopy coupled with multivariate analysis allowed the discrimination of HF patients from age-matched individuals in the protein amide I absorption region (1700-1600 cm-1), reflecting changes in protein conformation, with a sensitivity of 73 and a specificity of 81%. Further analysis of FTIR spectra showed significantly reduced random coils levels in both HF phenotypes. Also, compared to the age-matched group, the levels of structures related to fibril formation were significantly increased in patients with HFrEF, whereas the β-turns were significantly increased in patients with HFpEF. CONCLUSION Both HF phenotypes showed a compromised extracellular proteostasis and different protein conformational changes, suggesting a less efficient protein quality control system.
Collapse
|
4
|
Rozali NL, Azizan KA, Singh R, Syed Jaafar SN, Othman A, Weckwerth W, Ramli US. Fourier transform infrared (FTIR) spectroscopy approach combined with discriminant analysis and prediction model for crude palm oil authentication of different geographical and temporal origins. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.109509] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
|
5
|
Discrimination and Prediction of Lonicerae japonicae Flos and Lonicerae Flos and Their Related Prescriptions by Attenuated Total Reflectance Fourier Transform Infrared Spectroscopy Combined with Multivariate Statistical Analysis. Molecules 2022; 27:molecules27144640. [PMID: 35889512 PMCID: PMC9322902 DOI: 10.3390/molecules27144640] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Revised: 07/10/2022] [Accepted: 07/14/2022] [Indexed: 12/03/2022] Open
Abstract
LJF and LF are commonly used in Chinese patent drugs. In the Chinese Pharmacopoeia, LJF and LF once belonged to the same source. However, since 2005, the two species have been listed separately. Therefore, they are often misused, and medicinal materials are indiscriminately put in their related prescriptions in China. In this work, firstly, we established a model for discriminating LJF and LF using ATR-FTIR combined with multivariate statistical analysis. The spectra data were further preprocessed and combined with spectral filter transformations and normalization methods. These pretreated data were used to establish pattern recognition models with PLS-DA, RF, and SVM. Results demonstrated that the RF model was the optimal model, and the overall classification accuracy for LJF and LF samples reached 98.86%. Then, the established model was applied in the discrimination of their related prescriptions. Interestingly, the results show good accuracy and applicability. The RF model for discriminating the related prescriptions containing LJF or LF had an accuracy of 100%. Our results suggest that this method is a rapid and effective tool for the successful discrimination of LJF and LF and their related prescriptions.
Collapse
|
6
|
Lin H, Wang Z, Luo Y, Sun Q, Shen Y, Huang P. Post-mortem evaluation of the pathological degree of myocardial infarction by Fourier transform infrared microspectroscopy. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 268:120630. [PMID: 34815176 DOI: 10.1016/j.saa.2021.120630] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2021] [Revised: 10/18/2021] [Accepted: 11/11/2021] [Indexed: 06/13/2023]
Abstract
In clinical and forensic investigations, accurate post-mortem diagnosis of the pathological degree of myocardial infarction (MI) is critical. However, because of the observer variability, the diagnosis cannot be made objectively. Many studies have shown that Fourier transform infrared (FTIR) microspectroscopy is non-invasive, observer-independent, and label-free when analyzing biological tissues. In this study, we used FTIR microspectroscopy in combination with intelligent algorithms to identify the pathological phases in human infarcted cardiac tissues, including ischemia, necrotic, granulation, and fibrotic stages. First, a comparison of infrared spectra corresponding to infarcted tissue pathological categories revealed various spectral properties. The results of unsupervised principal component analysis (PCA) revealed a clear distinction between these four pathological stages and the normal stage. Then, to identify these five stages, an automatic artificial neural network (ANN) classifier was effectively created. Finally, two-dimensional pseudo-color images of two infarcted cardiac tissue sections visualized via the ANN classifier showed great agreement with their histological images. These findings demonstrate that FTIR microspectroscopy has the potential for the post-mortem evaluation of the pathological degree of MI.
Collapse
Affiliation(s)
- Hancheng Lin
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China
| | - Zhenyuan Wang
- Department of Forensic Pathology, Xi'an Jiaotong University, Xi'an 710061, China
| | - Yiwen Luo
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Science, Ministry of Justice, PRC, Shanghai 200063, China
| | - Qiran Sun
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Science, Ministry of Justice, PRC, Shanghai 200063, China
| | - Yiwen Shen
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China.
| | - Ping Huang
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China; Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Science, Ministry of Justice, PRC, Shanghai 200063, China. @ssfjd.cn
| |
Collapse
|
7
|
Blat A, Stepanenko T, Bulat K, Wajda A, Dybas J, Mohaissen T, Alcicek FC, Szczesny-Malysiak E, Malek K, Fedorowicz A, Marzec KM. Spectroscopic Signature of Red Blood Cells in a D-Galactose-Induced Accelerated Aging Model. Int J Mol Sci 2021; 22:2660. [PMID: 33800818 PMCID: PMC7961785 DOI: 10.3390/ijms22052660] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2021] [Revised: 02/23/2021] [Accepted: 03/02/2021] [Indexed: 11/30/2022] Open
Abstract
This work presents a semi-quantitative spectroscopic approach, including FTIR-ATR and Raman spectroscopies, for the biochemical analysis of red blood cells (RBCs) supported by the biochemical, morphological and rheological reference techniques. This multi-modal approach provided the description of the RBC alterations at the molecular level in a model of accelerated aging induced by administration of D-galactose (D-gal), in comparison to natural aging. Such an approach allowed to conclude that most age-related biochemical RBC membrane changes (a decrease in lipid unsaturation and the level of phospholipids, or an increase in acyl chain shortening) as well as alterations in the morphological parameters and RBC deformability are well reflected in the D-gal model of accelerated aging. Similarly, as in natural aging, a decrease in LDL level in blood plasma and no changes in the fraction of glucose, creatinine, total cholesterol, HDL, iron, or triglycerides were observed during the course of accelerated aging. Contrary to natural aging, the D-gal model led to an increase in cholesterol esters and the fraction of total esterified lipids in RBC membranes, and evoked significant changes in the secondary structure of the membrane proteins. Moreover, a significant decrease in the phosphorous level of blood plasma was specific for the D-gal model. On the other hand, natural aging induced stronger changes in the secondary structures of the proteins of the RBCs' interior. This work proves that research on the aging mechanism, especially in circulation-related diseases, should employ the D-gal model with caution. Nonetheless, the D-gal model enables to imitate age-related rheological alterations in RBCs, although they are partially derived from different changes observed in the RBC membrane at the molecular level.
Collapse
Affiliation(s)
- Aneta Blat
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
- Faculty of Chemistry, Jagiellonian University, 2 Gronostajowa Str., 30-387 Krakow, Poland;
| | - Tetiana Stepanenko
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
- Faculty of Chemistry, Jagiellonian University, 2 Gronostajowa Str., 30-387 Krakow, Poland;
| | - Katarzyna Bulat
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
| | - Aleksandra Wajda
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
- Faculty of Materials Science and Ceramics, AGH University of Science and Technology, Al. Mickiewicza 30, 30-059 Krakow, Poland
| | - Jakub Dybas
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
| | - Tasnim Mohaissen
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
- Faculty of Pharmacy, Jagiellonian University Medical College, 9 Medyczna St., 30-688 Krakow, Poland
| | - Fatih Celal Alcicek
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
| | - Ewa Szczesny-Malysiak
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
| | - Kamilla Malek
- Faculty of Chemistry, Jagiellonian University, 2 Gronostajowa Str., 30-387 Krakow, Poland;
| | - Andrzej Fedorowicz
- Chair of Pharmacology, Jagiellonian University Medical College, 16 Grzegorzecka Str., 31-531 Krakow, Poland;
| | - Katarzyna M. Marzec
- Jagiellonian Center for Experimental Therapeutics, Jagiellonian University, 14 Bobrzynskiego Str., 30-348 Krakow, Poland; (A.B.); (T.S.); (K.B.); (A.W.); (J.D.); (T.M.); (F.C.A.); (E.S.-M.)
| |
Collapse
|
8
|
Chatchawal P, Wongwattanakul M, Tippayawat P, Jearanaikoon N, Jumniansong A, Boonmars T, Jearanaikoon P, Wood BR. Monitoring the Progression of Liver Fluke-Induced Cholangiocarcinoma in a Hamster Model Using Synchrotron FTIR Microspectroscopy and Focal Plane Array Infrared Imaging. Anal Chem 2020; 92:15361-15369. [PMID: 33170647 DOI: 10.1021/acs.analchem.0c02656] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Cholangiocarcinoma (CCA) is a bile duct cancer that originates in the bile duct epithelium. Northeastern Thailand has the highest incidence of CCA, and there is a direct correlation with liver fluke (Opisthorchis viverrini) infection. The high mortality rate of CCA is a consequence of delayed diagnosis. Fourier transform infrared (FTIR) spectroscopy is a powerful technique that detects the absorbance of molecular vibrations and is perfectly suited for the interrogation of biological samples. In this study, we applied synchrotron radiation-FTIR (SR-FTIR) microspectroscopy and focal plane array (FPA-FTIR) microspectroscopy to characterize periductal fibrosis and bile duct cells progressing to CCA induced by inoculating O. viverrini metacercariae into hamsters. SR-FTIR and FPA-FTIR measurements were performed in liver sections harvested from 1-, 2-, 3-, and 6-month post-infected hamsters compared to uninfected liver tissues. Principal component analysis (PCA) of the tissue samples showed a clear discrimination among uninfected and early-stage (1 and 2 months) and cancerous-stage (3 and 6 months) tissues. The discrimination is based on intensity changes in the phosphodiester band (1081 cm-1), amino acid residue (∼1396 cm-1), and C═O stretching carboxylic esters (1745 cm-1). Infected tissues also show definitive bands at ∼1280, 1234, and 1201 cm-1 characteristic of the collagen triplet and indicative of fibrosis. Hierarchical cluster analysis (HCA) was performed on the FPA data and showed a classification into specific cell types. Hepatocyte, fibrotic lesion, and bile duct (cancer) were classified and HCA mapping showed similar cellular distribution pattern compared to Sirius red staining. This study was also extended to less invasive sample analysis using attenuated total reflectance-FTIR (ATR-FTIR) spectroscopy. Sera from O. viverrini-infected and uninfected hamsters were analyzed using multivariate analysis, including principal component analysis (PCA), and partial least squares-discriminant analysis (PLS-DA). PCA was able to classify spectra of normal, early-stage CCA, and CCA, while the PLS-DA gave 100% accuracy for the validation. The model was established from 17 samples (11 normal, 6 cancer) in the calibration set and 9 samples in the validation set (4 normal, 2 cancer, 3 precancerous). These results indicate that FTIR-based technology is a potential tool to detect the progression of CCA, especially in the early stages of the disease.
Collapse
Affiliation(s)
- Patutong Chatchawal
- Biomedical Sciences, Graduate School, Khon Kaen University, Khon Kaen 40002, Thailand.,Center for Research and Development of Medical Diagnosis Laboratories, Faculty of Associated Medical Sciences, Khon Kaen University, Khon Kaen 40002, Thailand.,Cholangiocarcinoma Research Institute, Khon Kaen University, Khon Kaen40002, Thailand
| | - Molin Wongwattanakul
- Center for Research and Development of Medical Diagnosis Laboratories, Faculty of Associated Medical Sciences, Khon Kaen University, Khon Kaen 40002, Thailand.,Cholangiocarcinoma Research Institute, Khon Kaen University, Khon Kaen40002, Thailand
| | - Patcharaporn Tippayawat
- Center for Research and Development of Medical Diagnosis Laboratories, Faculty of Associated Medical Sciences, Khon Kaen University, Khon Kaen 40002, Thailand
| | | | - Amonrat Jumniansong
- Center for Research and Development of Medical Diagnosis Laboratories, Faculty of Associated Medical Sciences, Khon Kaen University, Khon Kaen 40002, Thailand
| | - Thidarat Boonmars
- Cholangiocarcinoma Research Institute, Khon Kaen University, Khon Kaen40002, Thailand.,Department of Parasitology, Faculty of Medicine, Khon Kaen University, Khon Kaen 40002, Thailand
| | - Patcharee Jearanaikoon
- Center for Research and Development of Medical Diagnosis Laboratories, Faculty of Associated Medical Sciences, Khon Kaen University, Khon Kaen 40002, Thailand.,Cholangiocarcinoma Research Institute, Khon Kaen University, Khon Kaen40002, Thailand
| | - Bayden R Wood
- Center for Biospectroscopy, School of Chemistry, Faculty of Science, Monash University, Victoria 3800, Australia
| |
Collapse
|
9
|
Medipally DKR, Cullen D, Untereiner V, Bryant J, Sockalingum GD, Nguyen TNQ, Noone E, Bradshaw S, Finn M, Dunne M, Shannon AM, Armstrong J, Meade AD, Lyng FM. Effect of hemolysis on Fourier transform infrared and Raman spectra of blood plasma. JOURNAL OF BIOPHOTONICS 2020; 13:e201960173. [PMID: 32162465 DOI: 10.1002/jbio.201960173] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2019] [Revised: 02/19/2020] [Accepted: 03/09/2020] [Indexed: 06/10/2023]
Abstract
Hemolysis is a very common phenomenon and is referred as the release of intracellular components from red blood cells to the extracellular fluid. Hemolyzed samples are often rejected in clinics due to the interference of hemoglobin and intracellular components in laboratory measurements. Plasma and serum based vibrational spectroscopy studies are extensively applied to generate spectral biomarkers for various diseases. However, no studies have reported the effect of hemolysis in blood based vibrational spectroscopy studies. This study was undertaken to evaluate the effect of hemolysis on infrared and Raman spectra of blood plasma. In this study, prostate cancer plasma samples (n = 30) were divided into three groups (nonhemolyzed, mildly hemolyzed, and moderately hemolyzed) based on the degree of hemolysis and FTIR and Raman spectra were recorded using high throughput (HT)-FTIR and HT-Raman spectroscopy. Discrimination was observed between the infrared and Raman spectra of nonhemolyzed and hemolyzed plasma samples using principal component analysis. A classical least square fitting analysis showed differences in the weighting of pure components in nonhemolyzed and hemolyzed plasma samples. Therefore, it is worth to consider the changes in spectral features due to hemolysis when comparing the results within and between experiments.
Collapse
Affiliation(s)
- Dinesh K R Medipally
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, Dublin, Ireland
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, Dublin, Ireland
| | - Daniel Cullen
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, Dublin, Ireland
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, Dublin, Ireland
| | - Valérie Untereiner
- BioSpecT EA 7506, Université de Reims Champagne-Ardenne, UFR Pharmacie, Reims, France
- Plateforme en Imagerie Cellulaire et Tissulaire (PICT), Université de Reims Champagne-Ardenne, Reims, France
| | - Jane Bryant
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, Dublin, Ireland
| | - Ganesh D Sockalingum
- BioSpecT EA 7506, Université de Reims Champagne-Ardenne, UFR Pharmacie, Reims, France
| | - Thi N Q Nguyen
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, Dublin, Ireland
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, Dublin, Ireland
| | - Emma Noone
- Clinical Trials Unit, St Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - Shirley Bradshaw
- Clinical Trials Unit, St Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - Marie Finn
- Clinical Trials Unit, St Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - Mary Dunne
- Clinical Trials Unit, St Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | | | - John Armstrong
- Cancer Trials Ireland, Dublin, Ireland
- Department of Radiation Oncology, St Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - Aidan D Meade
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, Dublin, Ireland
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, Dublin, Ireland
| | - Fiona M Lyng
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, Dublin, Ireland
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, Dublin, Ireland
| |
Collapse
|
10
|
Blat A, Wiercigroch E, Smeda M, Wislocka A, Chlopicki S, Malek K. Fourier transform infrared spectroscopic signature of blood plasma in the progression of breast cancer with simultaneous metastasis to lungs. JOURNAL OF BIOPHOTONICS 2019; 12:e201900067. [PMID: 31265171 DOI: 10.1002/jbio.201900067] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Revised: 06/28/2019] [Accepted: 07/01/2019] [Indexed: 06/09/2023]
Abstract
Despite advanced diagnostic techniques used for detecting cancer, this disease still remains a leading cause of death in the developed world. What is more, the greatest danger for patients is not related with growing of tumor but rather with metastasis of cancer cells to the distant organs. In this study, Fourier transform infrared (FTIR) spectroscopy was used to track chemical changes in blood plasma to find spectral markers of metastatic breast cancer during the disease progression. Plasma samples were taken 1-5 weeks after orthotropic inoculation of 4T1 metastatic breast cancer cells to mice. The earliest changes detected by FTIR spectroscopy in plasma were correlated with unsaturation of phospholipids and secondary structures of proteins that appeared 2 and 3 weeks, respectively, after 4T1 cells inoculation (micrometastatic phase). Significant alternations in the content and structure of lipids and carbohydrates were identified in plasma at the later stages (macrometastatic phase). When large primary tumors in breast and macrometastases in lung were developed, all bands in FTIR spectra significantly differed from those at earlier phases of the cancer progression. In conclusion, we showed that each phase of the breast cancer progression and its pulmonary metastasis can be characterized by a specific panel of spectral markers.
Collapse
Affiliation(s)
- Aneta Blat
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Krakow, Poland
| | - Ewelina Wiercigroch
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Krakow, Poland
| | - Marta Smeda
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Krakow, Poland
| | - Adrianna Wislocka
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Krakow, Poland
| | - Stefan Chlopicki
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Krakow, Poland
- Chair of Pharmacology, Jagiellonian University Medical College, Grzegorzecka 16, 31-531 Krakow, Poland
| | - Kamilla Malek
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Krakow, Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Krakow, Poland
| |
Collapse
|
11
|
Wang L, Lin H, Luo Y, Sun Q, Li Z, Chen Y, Huang P, Wang Z, Sun J, Tuo Y. Post-mortem interval estimation in rat liver tissues using attenuated total reflection Fourier transform infrared spectroscopy combined with chemometrics. AUST J FORENSIC SCI 2019. [DOI: 10.1080/00450618.2018.1429016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- Lei Wang
- Department of Biochemistry and Physiology, Shanghai University of Medicine and Health Sciences, Shanghai, China
- Department of Forensic Pathology, Shanxi Medical University, Taiyuan, China
| | - Hancheng Lin
- Department of Forensic Pathology, Xi’an Jiaotong University, Xi’an, China
| | - Yiwen Luo
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Science, Ministry of Justice, PRC, Shanghai, China
| | - Qiran Sun
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Science, Ministry of Justice, PRC, Shanghai, China
| | - Zhengdong Li
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Science, Ministry of Justice, PRC, Shanghai, China
| | - Yijiu Chen
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Science, Ministry of Justice, PRC, Shanghai, China
| | - Ping Huang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Science, Ministry of Justice, PRC, Shanghai, China
| | - Zhenyuan Wang
- Department of Forensic Pathology, Xi’an Jiaotong University, Xi’an, China
| | - Junhong Sun
- Department of Forensic Pathology, Shanxi Medical University, Taiyuan, China
| | - Ya Tuo
- Department of Biochemistry and Physiology, Shanghai University of Medicine and Health Sciences, Shanghai, China
| |
Collapse
|
12
|
Medipally DKR, Nguyen TNQ, Bryant J, Untereiner V, Sockalingum GD, Cullen D, Noone E, Bradshaw S, Finn M, Dunne M, Shannon AM, Armstrong J, Lyng FM, Meade AD. Monitoring Radiotherapeutic Response in Prostate Cancer Patients Using High Throughput FTIR Spectroscopy of Liquid Biopsies. Cancers (Basel) 2019; 11:E925. [PMID: 31269684 PMCID: PMC6679106 DOI: 10.3390/cancers11070925] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Revised: 06/26/2019] [Accepted: 06/28/2019] [Indexed: 02/08/2023] Open
Abstract
Radiation therapy (RT) is used to treat approximately 50% of all cancer patients. However, RT causes a wide range of adverse late effects that can affect a patient's quality of life. There are currently no predictive assays in clinical use to identify patients at risk of normal tissue radiation toxicity. This study aimed to investigate the potential of Fourier transform infrared (FTIR) spectroscopy for monitoring radiotherapeutic response. Blood plasma was acquired from 53 prostate cancer patients at five different time points: prior to treatment, after hormone treatment, at the end of radiotherapy, two months post radiotherapy and eight months post radiotherapy. FTIR spectra were recorded from plasma samples at all time points and the data was analysed using MATLAB software. Discrimination was observed between spectra recorded at baseline versus follow up time points, as well as between spectra from patients showing minimal and severe acute and late toxicity using principal component analysis. A partial least squares discriminant analysis model achieved sensitivity and specificity rates ranging from 80% to 99%. This technology may have potential to monitor radiotherapeutic response in prostate cancer patients using non-invasive blood plasma samples and could lead to individualised patient radiotherapy.
Collapse
Affiliation(s)
- Dinesh K R Medipally
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, D08 NF82 Dublin, Ireland
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, D08 NF82 Dublin, Ireland
| | - Thi Nguyet Que Nguyen
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, D08 NF82 Dublin, Ireland
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, D08 NF82 Dublin, Ireland
| | - Jane Bryant
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, D08 NF82 Dublin, Ireland
| | - Valérie Untereiner
- BioSpecT EA 7506, Université de Reims Champagne-Ardenne, UFR Pharmacie, 51097 Reims, France
- Plateforme en Imagerie Cellulaire et Tissulaire (PICT), Université de Reims Champagne-Ardenne, 51097 Reims, France
| | - Ganesh D Sockalingum
- BioSpecT EA 7506, Université de Reims Champagne-Ardenne, UFR Pharmacie, 51097 Reims, France
| | - Daniel Cullen
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, D08 NF82 Dublin, Ireland
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, D08 NF82 Dublin, Ireland
| | - Emma Noone
- Clinical Trials Unit, St Luke's Radiation Oncology Network, St Luke's Hospital, D06 HH36 Dublin, Ireland
| | - Shirley Bradshaw
- Clinical Trials Unit, St Luke's Radiation Oncology Network, St Luke's Hospital, D06 HH36 Dublin, Ireland
| | - Marie Finn
- Clinical Trials Unit, St Luke's Radiation Oncology Network, St Luke's Hospital, D06 HH36 Dublin, Ireland
| | - Mary Dunne
- Clinical Trials Unit, St Luke's Radiation Oncology Network, St Luke's Hospital, D06 HH36 Dublin, Ireland
| | | | - John Armstrong
- Cancer Trials Ireland, D11 KXN4 Dublin, Ireland
- Department of Radiation Oncology, St Luke's Radiation Oncology Network, St Luke's Hospital, D06 HH36 Dublin, Ireland
| | - Fiona M Lyng
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, D08 NF82 Dublin, Ireland.
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, D08 NF82 Dublin, Ireland.
| | - Aidan D Meade
- Radiation and Environmental Science Centre, Focas Research Institute, Technological University Dublin, D08 NF82 Dublin, Ireland.
- School of Physics & Clinical & Optometric Sciences, Technological University Dublin, D08 NF82 Dublin, Ireland.
| |
Collapse
|
13
|
El-Naggar NEA, Hamouda RA, Rabei NH, Mousa IE, Abdel-Hamid MS. Phycoremediation of lithium ions from aqueous solutions using free and immobilized freshwater green alga Oocystis solitaria: mathematical modeling for bioprocess optimization. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2019; 26:19335-19351. [PMID: 31073833 DOI: 10.1007/s11356-019-05214-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2019] [Accepted: 04/16/2019] [Indexed: 06/09/2023]
Abstract
Lithium is registered as a serious pollutant that causes environmental damage to an irrigation water supply. Freshwater green alga (Oocystis solitaria) was studied for its potential to remove lithium ions from aqueous solutions. The Plackett-Burman design was applied for initial screening of six factors for their significances for the removal of lithium from aqueous solutions using Oocystis solitaria cells. Among the variables screened, pH, lithium concentration, and temperature were the most significant factors affecting lithium removal. Hence, the levels of these significant variables were further investigated for their interaction effects on lithium removal using the Box-Behnken statistical design. The optimum conditions for maximum lithium removal from aqueous solutions by Oocystis solitaria were the initial lithium concentration of 200 mg/L, contact time of 60 min, temperature of 30 °C, pH 5, and biomass of Oocystis solitaria cells of 1 g/L with agitation condition. Under the optimized conditions, the percentage of maximum lithium removal was 99.95% which is larger than the percentage of lithium removal recorded before applying the Plackett-Burman design (40.07%) by 2.49 times. The different properties of Oocystis solitaria, as an adsorbent, were explored with SEM and via FTIR analysis. The spectrum of FTIR analysis for samples of Oocystis solitaria cells before lithium biosorption showed different absorption peaks at 3394 cm-1, 2068 cm-1, 1638 cm-1, 1398 cm-1, 1071 cm-1, and 649 cm-1 which has been shifted to 3446 cm-1, 2924 cm-1, 1638 cm-1, 1384 cm-1, 1032 cm-1, and 613 cm-1, respectively, after lithium biosorption by the alga. The treatment of aqueous solution containing lithium with Oocystis solitaria cells immobilized in alginate beads removed 98.71% of lithium at an initial concentration of 200 mg/L after 5 h. Therefore, Oocystis solitaria may be considered as an alternative for sorption and removal of lithium ions from wastewaters.
Collapse
Affiliation(s)
- Noura El-Ahmady El-Naggar
- Department of Bioprocess Development, Genetic Engineering and Biotechnology Research Institute, City of Scientific Research and Technological Applications, New Borg El-Arab City, Alexandria, 21934, Egypt.
| | - Ragaa A Hamouda
- Department of Biology, Faculty of Sciences and Arts - Khulais, University of Jeddah, Jeddah, Saudi Arabia
- Department of Microbial Biotechnology, Genetic Engineering and Biotechnology Research Institute, University of Sadat City, Menoufyia Governorate, 22857, Egypt
| | - Nashwa H Rabei
- Department of Microbial Biotechnology, Genetic Engineering and Biotechnology Research Institute, University of Sadat City, Menoufyia Governorate, 22857, Egypt
| | - Ibrahim E Mousa
- Department of Environmental Biotechnology, Genetic Engineering and Biotechnology Research Institute, University of Sadat City, Menoufyia Governorate, 22857, Egypt
| | - Marwa Salah Abdel-Hamid
- Department of Microbial Biotechnology, Genetic Engineering and Biotechnology Research Institute, University of Sadat City, Menoufyia Governorate, 22857, Egypt
| |
Collapse
|
14
|
Zhang Z, Lin H, Li Z, Luo Y, Wang L, Chen L, Huang P. Identification of fatal hypothermia via attenuated total reflection Fourier transform infrared spectroscopy of rabbit vitreous humour. AUST J FORENSIC SCI 2019. [DOI: 10.1080/00450618.2019.1629021] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- Zhong Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Ministry of Justice, Shanghai, China
- Department of Forensic Medicine, Inner Mongolia Medical University, Hohhot, China
| | - Hancheng Lin
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Ministry of Justice, Shanghai, China
| | - Zhengdong Li
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Ministry of Justice, Shanghai, China
| | - Yiwen Luo
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Ministry of Justice, Shanghai, China
| | - Lei Wang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Ministry of Justice, Shanghai, China
| | - Liqin Chen
- Department of Forensic Medicine, Inner Mongolia Medical University, Hohhot, China
| | - Ping Huang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Ministry of Justice, Shanghai, China
| |
Collapse
|
15
|
Postmortem diagnosis of fatal hypothermia/hyperthermia by spectrochemical analysis of plasma. Forensic Sci Med Pathol 2019; 15:332-341. [PMID: 31054024 DOI: 10.1007/s12024-019-00111-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/19/2019] [Indexed: 01/25/2023]
Abstract
Postmortem diagnosis of extreme-weather-related deaths is a challenging forensic task. Here, we present a state-of-the-art study that employed attenuated total reflection (ATR) Fourier transform infrared (FTIR) spectroscopy in combination with Chemometrics for postmortem diagnosis of fatal hypothermia/hyperthermia by biochemical investigation of plasma in rats. The results of principal component analysis (PCA) and spectral analysis revealed that plasma samples from the fatal hypothermia, fatal hyperthermia, and control groups, are substantially different from each other based on the spectral variations associated with the lipid, carbohydrate and nucleic acid components. Two partial least squares-discriminant analysis (PLS-DA) classification models (hypothermia-nonhypothermia and hyperthermia-nonhyperthermia binary models) with a 100% accuracy rate were constructed. Subsequently, internal cross-validation was performed to assess the robustness of these two models, which resulted in 98.1 and 100% accuracy. Ultimately, classification predictions of 42 unknown plasma samples were performed by these two models, and both models achieved 100% accuracy. Additionally, our results demonstrated that hemolysis and postmortem hypothermic/hyperthermic effects did not weaken the prediction ability of these two classification models. In summary, this work demonstrates ATR-FTIR spectroscopy's great potential for postmortem diagnosis of fatal hypothermia/hyperthermia.
Collapse
|
16
|
Sharaha U, Rodriguez-Diaz E, Sagi O, Riesenberg K, Lapidot I, Segal Y, Bigio IJ, Huleihel M, Salman A. Detection of Extended-Spectrum β-Lactamase-Producing Escherichia coli Using Infrared Microscopy and Machine-Learning Algorithms. Anal Chem 2019; 91:2525-2530. [DOI: 10.1021/acs.analchem.8b05497] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
| | | | - Orli Sagi
- Director of Microbiology Laboratory, Soroka University Medical Center, Beer-Sheva 84105, Israel
| | | | - Itshak Lapidot
- Department of Electrical and Electronics Engineering, ACLP-Afeka Center for Language Processing, Afeka Tel-Aviv Academic College of Engineering, Tel-Aviv 69107, Israel
| | | | | | | | - Ahmad Salman
- Department of Physics, SCE - Shamoon College of Engineering, Beer-Sheva 84100, Israel
| |
Collapse
|
17
|
Tian W, Wang D, Fan H, Yang L, Ma G. A Plasma Biochemical Analysis of Acute Lead Poisoning in a Rat Model by Chemometrics-Based Fourier Transform Infrared Spectroscopy: An Exploratory Study. Front Chem 2018; 6:261. [PMID: 30003079 PMCID: PMC6031737 DOI: 10.3389/fchem.2018.00261] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2018] [Accepted: 06/11/2018] [Indexed: 12/11/2022] Open
Abstract
In this work, we explored to use chemometrics-based Fourier transform infrared (FTIR) spectroscopy to investigate the plasma biochemical changes due to acute lead poisoning (ALP) in a rat model. We first collected the FTIR spectra of the plasma samples from the rats with and without suffering from ALP. We then performed the chemometric analysis of these FTIR spectra using principal component analysis (PCA) and partial least squares discriminant analysis (PLS-DA). We found that the chemometrics-based FTIR spectroscopy can discriminate the rats with and without ALP. Further analysis on the PLS-DA regression coefficient revealed that the spectral changes, in particular, corresponding to the biochemical changes of proteins in the plasma may be used as potential spectral biomarkers for the diagnostics of lead poisoning. Our work demonstrates the potential of chemometrics-based FTIR spectroscopy as a promising tool for the biochemical analysis of plasma that could consequently enable an objective, convenient and non-destructive diagnostics of lead poisoning. To the best of our knowledge, this work is the first application of chemometrics-based FTIR spectroscopy in the diagnostics of lead poisoning.
Collapse
Affiliation(s)
- Wenli Tian
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, Key Laboratory of Analytical Science and Technology of Hebei Province, College of Chemistry and Environmental Science, Hebei University, Baoding, China
| | - Dan Wang
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, Key Laboratory of Analytical Science and Technology of Hebei Province, College of Chemistry and Environmental Science, Hebei University, Baoding, China
| | - Haoran Fan
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, Key Laboratory of Analytical Science and Technology of Hebei Province, College of Chemistry and Environmental Science, Hebei University, Baoding, China
| | - Lujuan Yang
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, Key Laboratory of Analytical Science and Technology of Hebei Province, College of Chemistry and Environmental Science, Hebei University, Baoding, China
| | - Gang Ma
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, Key Laboratory of Analytical Science and Technology of Hebei Province, College of Chemistry and Environmental Science, Hebei University, Baoding, China
| |
Collapse
|
18
|
Lee BJ, Zhou Y, Lee JS, Shin BK, Seo JA, Lee D, Kim YS, Choi HK. Discrimination and prediction of the origin of Chinese and Korean soybeans using Fourier transform infrared spectrometry (FT-IR) with multivariate statistical analysis. PLoS One 2018; 13:e0196315. [PMID: 29689113 PMCID: PMC5916519 DOI: 10.1371/journal.pone.0196315] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2017] [Accepted: 04/10/2018] [Indexed: 12/18/2022] Open
Abstract
The ability to determine the origin of soybeans is an important issue following the inclusion of this information in the labeling of agricultural food products becoming mandatory in South Korea in 2017. This study was carried out to construct a prediction model for discriminating Chinese and Korean soybeans using Fourier-transform infrared (FT-IR) spectroscopy and multivariate statistical analysis. The optimal prediction models for discriminating soybean samples were obtained by selecting appropriate scaling methods, normalization methods, variable influence on projection (VIP) cutoff values, and wave-number regions. The factors for constructing the optimal partial-least-squares regression (PLSR) prediction model were using second derivatives, vector normalization, unit variance scaling, and the 4000-400 cm-1 region (excluding water vapor and carbon dioxide). The PLSR model for discriminating Chinese and Korean soybean samples had the best predictability when a VIP cutoff value was not applied. When Chinese soybean samples were identified, a PLSR model that has the lowest root-mean-square error of the prediction value was obtained using a VIP cutoff value of 1.5. The optimal PLSR prediction model for discriminating Korean soybean samples was also obtained using a VIP cutoff value of 1.5. This is the first study that has combined FT-IR spectroscopy with normalization methods, VIP cutoff values, and selected wave-number regions for discriminating Chinese and Korean soybeans.
Collapse
Affiliation(s)
- Byeong-Ju Lee
- College of Pharmacy, Chung-Ang University, Seoul, Republic of Korea
| | - Yaoyao Zhou
- College of Pharmacy, Chung-Ang University, Seoul, Republic of Korea
| | - Jae Soung Lee
- College of Pharmacy, Chung-Ang University, Seoul, Republic of Korea
| | - Byeung Kon Shin
- National Agricultural Products Quality Management Service, Gimcheon, Republic of Korea
| | - Jeong-Ah Seo
- School of Systems Biomedical Science, Soongsil University, Seoul, Republic of Korea
| | - Doyup Lee
- Department of Bio and Fermentation Convergence Technology, Kookmin University, Seoul, Republic of Korea
| | - Young-Suk Kim
- Department of Food Science and Engineering, Ewha Womans University, Seoul, Republic of Korea
| | - Hyung-Kyoon Choi
- College of Pharmacy, Chung-Ang University, Seoul, Republic of Korea
| |
Collapse
|
19
|
Lin H, Luo Y, Sun Q, Zhang J, Tuo Y, Zhang Z, Wang L, Deng K, Chen Y, Huang P, Wang Z. Identification of Pulmonary Edema in Forensic Autopsy Cases of Sudden Cardiac Death Using Fourier Transform Infrared Microspectroscopy: A Pilot Study. Anal Chem 2018; 90:2708-2715. [PMID: 29364657 DOI: 10.1021/acs.analchem.7b04642] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Many studies have proven the usefulness of biofluid-based infrared spectroscopy in the clinical domain for diagnosis and monitoring the progression of diseases. Here we present a state-of-the-art study in the forensic field that employed Fourier transform infrared microspectroscopy for postmortem diagnosis of sudden cardiac death (SCD) by in situ biochemical investigation of alveolar edema fluid in lung tissue sections. The results of amide-related spectral absorbance analysis demonstrated that the pulmonary edema fluid of the SCD group was richer in protein components than that of the neurologic catastrophe (NC) and lethal multiple injuries (LMI) groups. The complementary results of unsupervised principle component analysis (PCA) and genetic algorithm-guided partial least-squares discriminant analysis (GA-PLS-DA) further indicated different global spectral band patterns of pulmonary edema fluids between these three groups. Ultimately, a random forest (RF) classification model for postmortem diagnosis of SCD was built and achieved good sensitivity and specificity scores of 97.3% and 95.5%, respectively. Classification predictions of unknown pulmonary edema fluid collected from 16 cases were also performed by the model, resulting in 100% correct discrimination. This pilot study demonstrates that FTIR microspectroscopy in combination with chemometrics has the potential to be an effective aid for postmortem diagnosis of SCD.
Collapse
Affiliation(s)
- Hancheng Lin
- Department of Forensic Pathology, Xi'an Jiaotong University , Xi'an, 710061, China.,Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Yiwen Luo
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Qiran Sun
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Ji Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Ya Tuo
- Department of Biochemistry and Physiology, Shanghai University of Medicine and Health Sciences , Shanghai, 201318, China
| | - Zhong Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Lei Wang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Kaifei Deng
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Yijiu Chen
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Ping Huang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science , Shanghai, 200063, China
| | - Zhenyuan Wang
- Department of Forensic Pathology, Xi'an Jiaotong University , Xi'an, 710061, China
| |
Collapse
|
20
|
Staniszewska-Slezak E, Wiercigroch E, Fedorowicz A, Buczek E, Mateuszuk L, Baranska M, Chlopicki S, Malek K. A possible Fourier transform infrared-based plasma fingerprint of angiotensin-converting enzyme inhibitor-induced reversal of endothelial dysfunction in diabetic mice. JOURNAL OF BIOPHOTONICS 2018; 11:e201700044. [PMID: 28700133 DOI: 10.1002/jbio.201700044] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2017] [Revised: 05/10/2017] [Accepted: 06/06/2017] [Indexed: 06/07/2023]
Abstract
Angiotensin-converting enzyme inhibitors (ACE-I) display vasoprotective activity and represent the cornerstone in the treatment of cardiovascular diseases. In this study, we tested whether Fourier transform infrared (FTIR)-based analysis of blood plasma is sensitive to detect vasoprotective effects of treatment with perindopril including reversal of endothelial dysfunction in diabetes. For this purpose, plasma samples were collected from untreated db/db mice, db/db mice treated with 2 or 10 mg/kg perindopril and db+ mice. The effect of perindopril on endothelial function was examined in ex vivo aortic rings; 10 mg/kg but not 2 mg/kg of perindopril reversed endothelial dysfunction. In plasma of db/db mice, the balance between conformations of plasma proteins was noted, and treatment with perindopril at a high dose but not at a low dose reversed this effect. This was revealed by amide II/amide I ratio attributed to increased β-sheet formation. Spectral markers at 3010, 1520/1238 cm-1 , representative for unsaturation degree of lipids and phosphorylation of tyrosine, respectively, were also affected by perindopril treatment. In conclusion, although metabolic abnormalities associated with type 2 diabetes mellitus such as hypertriglyceridemia and hyperglycemia strongly affected spectral FTIR profile of diabetic plasma, we identified FTIR features that seem to be associated with the vasoprotective activity of ACE-I.
Collapse
Affiliation(s)
- Emilia Staniszewska-Slezak
- Faculty of Chemistry, Jagiellonian University, Krakow, Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Krakow, Poland
| | - Ewelina Wiercigroch
- Faculty of Chemistry, Jagiellonian University, Krakow, Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Krakow, Poland
| | - Andrzej Fedorowicz
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Krakow, Poland
- Chair of Pharmacology, Jagiellonian University, Krakow, Poland
| | - Elżbieta Buczek
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Krakow, Poland
| | - Lukasz Mateuszuk
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Krakow, Poland
| | - Malgorzata Baranska
- Faculty of Chemistry, Jagiellonian University, Krakow, Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Krakow, Poland
| | - Stefan Chlopicki
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Krakow, Poland
- Chair of Pharmacology, Jagiellonian University, Krakow, Poland
| | - Kamilla Malek
- Faculty of Chemistry, Jagiellonian University, Krakow, Poland
| |
Collapse
|
21
|
Szafraniec E, Wiercigroch E, Czamara K, Majzner K, Staniszewska-Slezak E, Marzec KM, Malek K, Kaczor A, Baranska M. Diversity among endothelial cell lines revealed by Raman and Fourier-transform infrared spectroscopic imaging. Analyst 2018; 143:4323-4334. [DOI: 10.1039/c8an00239h] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
A methodology of examination and characterization of popular human endothelial cells lines.
Collapse
Affiliation(s)
| | | | - Krzysztof Czamara
- Faculty of Chemistry
- Jagiellonian University
- 30-387 Krakow
- Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET)
| | - Katarzyna Majzner
- Faculty of Chemistry
- Jagiellonian University
- 30-387 Krakow
- Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET)
| | - Emilia Staniszewska-Slezak
- Faculty of Chemistry
- Jagiellonian University
- 30-387 Krakow
- Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET)
| | - Katarzyna M. Marzec
- Jagiellonian Centre for Experimental Therapeutics (JCET)
- Jagiellonian University
- 30-348 Krakow
- Poland
| | - Kamilla Malek
- Faculty of Chemistry
- Jagiellonian University
- 30-387 Krakow
- Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET)
| | - Agnieszka Kaczor
- Faculty of Chemistry
- Jagiellonian University
- 30-387 Krakow
- Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET)
| | - Malgorzata Baranska
- Faculty of Chemistry
- Jagiellonian University
- 30-387 Krakow
- Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET)
| |
Collapse
|
22
|
De Bruyne S, Speeckaert MM, Delanghe JR. Applications of mid-infrared spectroscopy in the clinical laboratory setting. Crit Rev Clin Lab Sci 2017; 55:1-20. [PMID: 29239240 DOI: 10.1080/10408363.2017.1414142] [Citation(s) in RCA: 67] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
Fourier transform mid-infrared (MIR-FTIR) spectroscopy is a nondestructive, label-free, highly sensitive and specific technique that provides complete information on the chemical composition of biological samples. The technique both can offer fundamental structural information and serve as a quantitative analysis tool. Therefore, it has many potential applications in different fields of clinical laboratory science. Although considerable technological progress has been made to promote biomedical applications of this powerful analytical technique, most clinical laboratory analyses are based on spectroscopic measurements in the visible or ultraviolet (UV) spectrum and the potential role of FTIR spectroscopy still remains unexplored. In this review, we present some general principles of FTIR spectroscopy as a useful method to study molecules in specimens by MIR radiation together with a short overview of methods to interpret spectral data. We aim at illustrating the wide range of potential applications of the proposed technique in the clinical laboratory setting with a focus on its advantages and limitations and discussing the future directions. The reviewed applications of MIR spectroscopy include (1) quantification of clinical parameters in body fluids, (2) diagnosis and monitoring of cancer and other diseases by analysis of body fluids, cells, and tissues, (3) classification of clinically relevant microorganisms, and (4) analysis of kidney stones, nails, and faecal fat.
Collapse
Affiliation(s)
- Sander De Bruyne
- a Department of Clinical Chemistry , Ghent University Hospital , Ghent , Belgium
| | | | - Joris R Delanghe
- a Department of Clinical Chemistry , Ghent University Hospital , Ghent , Belgium
| |
Collapse
|
23
|
Lin H, Luo Y, Wang L, Deng K, Sun Q, Fang R, Wei X, Zha S, Wang Z, Huang P. Identification of pulmonary edema in forensic autopsy cases of fatal anaphylactic shock using Fourier transform infrared microspectroscopy. Int J Legal Med 2017; 132:477-486. [DOI: 10.1007/s00414-017-1721-4] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2017] [Accepted: 10/20/2017] [Indexed: 12/14/2022]
|
24
|
Wang Q, He H, Li B, Lin H, Zhang Y, Zhang J, Wang Z. UV-Vis and ATR-FTIR spectroscopic investigations of postmortem interval based on the changes in rabbit plasma. PLoS One 2017; 12:e0182161. [PMID: 28753641 PMCID: PMC5533326 DOI: 10.1371/journal.pone.0182161] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2017] [Accepted: 07/13/2017] [Indexed: 11/23/2022] Open
Abstract
Estimating PMI is of great importance in forensic investigations. Although many methods are used to estimate the PMI, a few investigations focus on the postmortem redistribution. In this study, ultraviolet-visible (UV-Vis) measurement combined with visual inspection indicated a regular diffusion of hemoglobin into plasma after death showing the redistribution of postmortem components in blood. Thereafter, attenuated total reflection-Fourier transform infrared (ATR-FTIR) spectroscopy was used to confirm the variations caused by this phenomenon. First, full-spectrum partial least-squares (PLS) and genetic algorithm combined with PLS (GA-PLS) models were constructed to predict the PMI. The performance of GA-PLS model was better than that of full-spectrum PLS model based on its root mean square error (RMSE) of cross-validation of 3.46 h (R2 = 0.95) and the RMSE of prediction of 3.46 h (R2 = 0.94). The investigation on the similarity of spectra between blood plasma and formed elements also supported the role of redistribution of components in spectral changes in postmortem plasma. These results demonstrated that ATR-FTIR spectroscopy coupled with the advanced mathematical methods could serve as a convenient and reliable tool to study the redistribution of postmortem components and estimate the PMI.
Collapse
Affiliation(s)
- Qi Wang
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Haijun He
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Bing Li
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Hancheng Lin
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Yinming Zhang
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Ji Zhang
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Zhenyuan Wang
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| |
Collapse
|
25
|
Bonnier F, Blasco H, Wasselet C, Brachet G, Respaud R, Carvalho LFCS, Bertrand D, Baker MJ, Byrne HJ, Chourpa I. Ultra-filtration of human serum for improved quantitative analysis of low molecular weight biomarkers using ATR-IR spectroscopy. Analyst 2017; 142:1285-1298. [DOI: 10.1039/c6an01888b] [Citation(s) in RCA: 47] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Monitoring of changes in the concentrations of the low molecular weight constituents enhanced by abundant proteins depletion.
Collapse
Affiliation(s)
- Franck Bonnier
- Université François-Rabelais de Tours
- Faculté de Pharmacie
- EA 6295 Nanomédicaments et Nanosondes
- 37200 Tours
- France
| | - Hélène Blasco
- CHRU de Tours
- Laboratoire de Biochimie et de Biologie Moléculaire
- Tours
- France
- INSERM
| | - Clément Wasselet
- Université François-Rabelais de Tours
- Faculté de Pharmacie
- EA 6295 Nanomédicaments et Nanosondes
- 37200 Tours
- France
| | - Guillaume Brachet
- Université François Rabelais de Tours
- UMR CNRS 7292 Génétique
- Immunothérapie
- Chimie et Cancer
- Faculté de Médecine
| | - Renaud Respaud
- Université François-Rabelais de Tours
- UMR 1100
- CHRU de Tours
- Service de Pharmacie
- F-37032 Tours
| | - Luis Felipe C. S. Carvalho
- Universidade do Vale do Paraiba
- Laboratory of Biomedical Vibrational Spectroscopy
- Sao José dos Campos
- Brazil
| | | | - Matthew J. Baker
- WestCHEM
- Technology and Innovation Centre
- Department of Pure and Applied Chemistry
- University of Strathclyde
- Glasgow G1 1XL
| | - Hugh J. Byrne
- FOCAS Research Institute
- Dublin Institute of Technology (DIT)
- Dublin 8
- Ireland
| | - Igor Chourpa
- Université François-Rabelais de Tours
- Faculté de Pharmacie
- EA 6295 Nanomédicaments et Nanosondes
- 37200 Tours
- France
| |
Collapse
|
26
|
Staniszewska-Slezak E, Mateuszuk L, Chlopicki S, Baranska M, Malek K. Alterations in plasma biochemical composition in NO deficiency induced by L-NAME in mice analysed by Fourier Transform Infrared Spectroscopy. JOURNAL OF BIOPHOTONICS 2016; 9:1098-1108. [PMID: 27440215 DOI: 10.1002/jbio.201600141] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/08/2016] [Revised: 06/22/2016] [Accepted: 06/23/2016] [Indexed: 06/06/2023]
Abstract
Mouse model of nitric oxide deficiency, induced by prolonged treatment with NG -nitro-L-arginine methyl ester (L-NAME) was used for infrared spectroscopy (FTIR) analysis of plasma. L-NAME leads to increased peripheral resistance and systemic hypertension. Classification of spectral response was by principal component analysis (PCA) and linear discriminant analysis (LDA). PCA allowed to separate each animal group showing that FTIR spectra are sensitive to development of NO-deficiency on contrary to blood pressure values indicating hypertension. Globally, the most pronounced spectral alternations were observed in the second and third week of L-NAME treatment indicating that infrared signature of blood plasma can serve as indicator of early and late stages of the disease. The PLS-DA method provided >95% classification accuracy. Spectral features characteristic for L-NAME treatment were mainly associated with an elevated level of proteins accompanied by a decrease of a tyrosine content and changes in lipids/phospholipid concentration. In our work we discuss these changes for which statistically significant differences (p < 0.05 - 0.005) were observed between spectra collected for each time-point of the L-NAME treatment versus control subjects. We demonstrated for the first time that NO-deficiency and hypertension resulted in changes in biochemical profile of plasma that was detected by FTIR spectroscopy.
Collapse
Affiliation(s)
- Emilia Staniszewska-Slezak
- Faculty of Chemistry, Jagiellonian University, Ingardena 3, 30-060, Krakow, Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348, Krakow, Poland
| | - Lukasz Mateuszuk
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348, Krakow, Poland
| | - Stefan Chlopicki
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348, Krakow, Poland
- Department of Experimental Pharmacology (Chair of Pharmacology), Jagiellonian University, Grzegorzecka 16, Krakow, 31-531, Poland
| | - Malgorzata Baranska
- Faculty of Chemistry, Jagiellonian University, Ingardena 3, 30-060, Krakow, Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348, Krakow, Poland
| | - Kamilla Malek
- Faculty of Chemistry, Jagiellonian University, Ingardena 3, 30-060, Krakow, Poland.
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348, Krakow, Poland.
| |
Collapse
|