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Mirizzi G, Jelke F, Pilot M, Klein K, Klamminger GG, Gérardy JJ, Theodoropoulou M, Mombaerts L, Husch A, Mittelbronn M, Hertel F, Kleine Borgmann FB. Impact of Formalin- and Cryofixation on Raman Spectra of Human Tissues and Strategies for Tumor Bank Inclusion. Molecules 2024; 29:1167. [PMID: 38474679 DOI: 10.3390/molecules29051167] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2024] [Revised: 02/25/2024] [Accepted: 03/02/2024] [Indexed: 03/14/2024] Open
Abstract
Reliable training of Raman spectra-based tumor classifiers relies on a substantial sample pool. This study explores the impact of cryofixation (CF) and formalin fixation (FF) on Raman spectra using samples from surgery sites and a tumor bank. A robotic Raman spectrometer scans samples prior to the neuropathological analysis. CF samples showed no significant spectral deviations, appearance, or disappearance of peaks, but an intensity reduction during freezing and subsequent recovery during the thawing process. In contrast, FF induces sustained spectral alterations depending on molecular composition, albeit with good signal-to-noise ratio preservation. These observations are also reflected in the varying dual-class classifier performance, initially trained on native, unfixed samples: The Matthews correlation coefficient is 81.0% for CF and 58.6% for FF meningioma and dura mater. Training on spectral differences between original FF and pure formalin spectra substantially improves FF samples' classifier performance (74.2%). CF is suitable for training global multiclass classifiers due to its consistent spectrum shape despite intensity reduction. FF introduces changes in peak relationships while preserving the signal-to-noise ratio, making it more suitable for dual-class classification, such as distinguishing between healthy and malignant tissues. Pure formalin spectrum subtraction represents a possible method for mathematical elimination of the FF influence. These findings enable retrospective analysis of processed samples, enhancing pathological work and expanding machine learning techniques.
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Affiliation(s)
- Giulia Mirizzi
- National Department of Neurosurgery, Centre Hospitalier de Luxembourg (CHL), 1210 Luxembourg, Luxembourg
- Saarland University Medical Center and Faculty of Medicine, 66421 Homburg, Germany
| | - Finn Jelke
- National Department of Neurosurgery, Centre Hospitalier de Luxembourg (CHL), 1210 Luxembourg, Luxembourg
- Saarland University Medical Center and Faculty of Medicine, 66421 Homburg, Germany
- Department of Cancer Research (DoCR), Luxembourg Institute of Health (LIH), 1445 Strassen, Luxembourg
| | - Michel Pilot
- Department of Medicine IV, LMU University Hospital, LMU Munich, 80539 Munich, Germany
| | - Karoline Klein
- Saarland University Medical Center and Faculty of Medicine, 66421 Homburg, Germany
| | - Gilbert Georg Klamminger
- Department of General and Special Pathology, Saarland University Medical Center (UKS), Saarland University (USAAR), 66424 Homburg, Germany
- National Center of Pathology (NCP), Laboratoire National de Santé (LNS), 3555 Dudelange, Luxembourg
| | - Jean-Jacques Gérardy
- National Center of Pathology (NCP), Laboratoire National de Santé (LNS), 3555 Dudelange, Luxembourg
- Luxembourg Center of Neuropathology (LCNP), 3555 Dudelange, Luxembourg
| | - Marily Theodoropoulou
- Department of Medicine IV, LMU University Hospital, LMU Munich, 80539 Munich, Germany
| | - Laurent Mombaerts
- National Department of Neurosurgery, Centre Hospitalier de Luxembourg (CHL), 1210 Luxembourg, Luxembourg
- Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg (UL), 4365 Esch-sur-Alzette, Luxembourg
| | - Andreas Husch
- Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg (UL), 4365 Esch-sur-Alzette, Luxembourg
| | - Michel Mittelbronn
- Department of Cancer Research (DoCR), Luxembourg Institute of Health (LIH), 1445 Strassen, Luxembourg
- National Center of Pathology (NCP), Laboratoire National de Santé (LNS), 3555 Dudelange, Luxembourg
- Luxembourg Center of Neuropathology (LCNP), 3555 Dudelange, Luxembourg
- Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg (UL), 4365 Esch-sur-Alzette, Luxembourg
- Department of Life Science and Medicine (DLSM), University of Luxembourg (UL), 4365 Esch-sur-Alzette, Luxembourg
| | - Frank Hertel
- National Department of Neurosurgery, Centre Hospitalier de Luxembourg (CHL), 1210 Luxembourg, Luxembourg
- Saarland University Medical Center and Faculty of Medicine, 66421 Homburg, Germany
| | - Felix Bruno Kleine Borgmann
- Saarland University Medical Center and Faculty of Medicine, 66421 Homburg, Germany
- Department of Cancer Research (DoCR), Luxembourg Institute of Health (LIH), 1445 Strassen, Luxembourg
- Hôpitaux Robert Schuman, 2540 Luxembourg, Luxembourg
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2
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Zhang K, Liu R, Wei X, Wang Z, Huang P. Use of Raman spectroscopy to study rat lung tissues for distinguishing asphyxia from sudden cardiac death. RSC Adv 2024; 14:5665-5674. [PMID: 38357034 PMCID: PMC10865087 DOI: 10.1039/d3ra07684a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2023] [Accepted: 01/24/2024] [Indexed: 02/16/2024] Open
Abstract
Determining asphyxia as the cause of death is crucial but is based on an exclusive strategy because it lacks sensitive and specific morphological characteristics in forensic practice. In some cases where the deceased has underlying heart disease, differentiation between asphyxia and sudden cardiac death (SCD) as the primary cause of death can be challenging. Herein, Raman spectroscopy was employed to detect pulmonary biochemical differences to discriminate asphyxia from SCD in rat models. Thirty-two rats were used to build asphyxia and SCD models, with lung samples collected immediately or 24 h after death. Twenty Raman spectra were collected for each lung sample, and 640 spectra were obtained for further data preprocessing and analysis. The results showed that different biochemical alterations existed in the lung tissues of the rats that died from asphyxia and SCD and could be used to distinguish between the two causes of death. Moreover, we screened and used 8 of the 11 main differential spectral features that maintained their significant differences at 24 h after death to successfully determine the cause of death, even with decomposition and autolysis. Eventually, seven prevalent machine learning classification algorithms were employed to establish classification models, among which the support vector machine exhibited the best performance, with an area under the curve value of 0.9851 in external validation. This study shows the promise of Raman spectroscopy combined with machine learning algorithms to investigate differential biochemical alterations originating from different deaths to aid determining the cause of death in forensic practice.
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Affiliation(s)
- Kai Zhang
- Shanghai Key Lab of Forensic Medicine, Key Lab of Forensic Science, Ministry of Justice, China, Academy of Forensic Science Shanghai People's Republic of China
- Department of Forensic Pathology, College of Forensic Medicine, NHC Key Laboratory of Forensic Science, Xi'an Jiaotong University Xi'an People's Republic of China
| | - Ruina Liu
- Center for Translational Medicine, The First Affiliated Hospital of Xi'an Jiaotong University Xi'an People's Republic of China
| | - Xin Wei
- Department of Forensic Pathology, College of Forensic Medicine, NHC Key Laboratory of Forensic Science, Xi'an Jiaotong University Xi'an People's Republic of China
| | - Zhenyuan Wang
- Department of Forensic Pathology, College of Forensic Medicine, NHC Key Laboratory of Forensic Science, Xi'an Jiaotong University Xi'an People's Republic of China
| | - Ping Huang
- Shanghai Key Lab of Forensic Medicine, Key Lab of Forensic Science, Ministry of Justice, China, Academy of Forensic Science Shanghai People's Republic of China
- Institute of Forensic Science, Fudan University Shanghai People's Republic of China
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3
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Thiéfin G, Bertrand D, Untereiner V, Garnotel R, Bronowicki JP, Sockalingum GD. Serum infrared spectral profile is predictive of the degree of hepatic fibrosis in chronic hepatitis C patients. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 305:123433. [PMID: 37774586 DOI: 10.1016/j.saa.2023.123433] [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: 04/25/2023] [Revised: 09/15/2023] [Accepted: 09/18/2023] [Indexed: 10/01/2023]
Abstract
Assessment of liver fibrosis is crucial to guide the therapeutic strategy in patients with chronic liver disease. We investigated the potential of serum Fourier transform infrared (FTIR) spectroscopy for assessing the degree of hepatic fibrosis in patients with chronic hepatitis C (CHC). The study was conducted on dried serum samples from 94 CHC patients at different histological stages of hepatic fibrosis: METAVIR F0 (n = 20), F1 (n = 17), F2 (n = 20), F3 (n = 20) and F4 (n = 17). Transmission FTIR spectra were acquired in the 4000-400 cm-1 range. Wavenumbers were selected by genetic algorithm (GA) according to their diagnostic performance as assessed by a partial least squares discriminant analysis (PLS-DA) model using a training and a validation set to differentiate severe stages of fibrosis from mild or moderate ones. The GA procedure was applied 50 times on randomly selected sets. Furthermore, the best set of wavenumbers was re-tested in 1000 randomly selected validation sets. Wavenumbers selected by GA corresponded to functional groups present in lipids, proteins, and carbohydrates. This model allowed to identify patients with cirrhosis (METAVIR F4), patients with advanced fibrosis (METAVIR F3 and F4), and patients with significant fibrosis (METAVIR F2, F3 and F4), with AUROC (Area Under the Receiver Operating Characteristic) of 0.88, 0.85 and 0.85, respectively. Thus, serum FTIR spectroscopy appears to have a strong potential as a new diagnostic tool for assessing the degree of fibrosis in patients with chronic liver disease.
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Affiliation(s)
- Gérard Thiéfin
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; Service d'Hépato-Gastroentérologie et de Cancérologie Digestive, Centre Hospitalier Universitaire de Reims, 51092 Reims, France
| | | | - Valérie Untereiner
- Université de Reims Champagne-Ardenne, Plateforme en Imagerie Cellulaire et Tissulaire (PICT), 51097 Reims Cedex, France
| | - Roselyne Garnotel
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France; Laboratoire de Biochimie-Pharmacologie-Toxicologie, Centre Hospitalier Universitaire de Reims, 51092, Reims, France
| | - Jean-Pierre Bronowicki
- Service d'Hépato-Gastroentérologie, CHRU de Nancy-Brabois, Vandœuvre-lès-Nancy, 54511, France
| | - Ganesh D Sockalingum
- Université de Reims Champagne-Ardenne, BioSpecT-EA7506, UFR de Pharmacie, 51097 Reims, France.
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Serien D, Narazaki A, Sugioka K. Towards understanding the mechanism of 3D printing using protein: femtosecond laser direct writing of microstructures made from homopeptides. Acta Biomater 2023; 164:139-150. [PMID: 37062438 DOI: 10.1016/j.actbio.2023.04.007] [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: 06/16/2022] [Revised: 03/17/2023] [Accepted: 04/06/2023] [Indexed: 04/18/2023]
Abstract
Femtosecond laser direct write (fs-LDW) is a promising technology for three-dimensional (3D) printing due to its high resolution, flexibility, and versatility. A protein solution can be used as a precursor to fabricate 3D proteinaceous microstructures that retain the protein's native function. The large diversity of protein molecules with different native functions allows diverse applications of this technology. However, our limited understanding of the mechanism of the printing process restricts the design and generation of 3D microstructures for biomedical applications. Therefore, we used eight commercially available homopeptides as precursors for fs-LDW of 3D structures. Our experimental results show that tyrosine, histidine, glutamic acid, and lysine contribute more to the fabrication process than do proline, threonine, phenylalanine, and alanine. In particular, we show that tyrosine is highly beneficial in the fabrication process. The beneficial effect of the charged amino acids glutamic acid and lysine suggests that the printing mechanism involves ions in addition to the previously proposed radical mechanism. Our results further suggest that the uneven electron density over larger amino acid molecules is key in aiding fs-LDW. The findings presented here will help generate more desired 3D proteinaceous microstructures by modifying protein precursors with beneficial amino acids. STATEMENT OF SIGNIFICANCE: Femtosecond laser direct write (fs-LDW) offers a three-dimensional (3D) printing capability for creating well-defined micro-and nanostructures. Applying this technology to proteins enables the manufacture of complex biomimetic 3D micro-and nanoarchitectures with retention of their original protein functions. To our knowledge, amino acid homo-polymers themselves have never been used as precursor for fs-LDW so far. Our studygainsseveral new insights into the 3D printing mechanism of pure protein for the first time. We believe that the experimental evidence presented greatly benefits the community of 3D printing of proteinin particular and the biomaterial science community in general. With the gained insight, we aspire toexpand the possibilitiesof biomaterial and biomedical applications of this technique.
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Affiliation(s)
- Daniela Serien
- National Institute of Advanced Industrial Science and Technology (AIST), Ibaraki 305-8568, Japan
| | - Aiko Narazaki
- National Institute of Advanced Industrial Science and Technology (AIST), Ibaraki 305-8568, Japan
| | - Koji Sugioka
- The Institute of Physical and Chemical Research (RIKEN), Saitama 351-01, Japan
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5
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Zhang K, Liu R, Tuo Y, Ma K, Zhang D, Wang Z, Huang P. Distinguishing Asphyxia from Sudden Cardiac Death as the Cause of Death from the Lung Tissues of Rats and Humans Using Fourier Transform Infrared Spectroscopy. ACS OMEGA 2022; 7:46859-46869. [PMID: 36570197 PMCID: PMC9773813 DOI: 10.1021/acsomega.2c05968] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/15/2022] [Accepted: 11/23/2022] [Indexed: 06/17/2023]
Abstract
The ability to determine asphyxia as a cause of death is important in forensic practice and helps us to judge whether a case is criminal. However, in some cases where the deceased has underlying heart disease, death by asphyxia cannot be determined by traditional autopsy and morphological observation under a microscope because there are no specific morphological features for either asphyxia or sudden cardiac death (SCD). Here, Fourier transform infrared (FTIR) spectroscopy was employed to distinguish asphyxia from SCD. A total of 40 lung tissues (collected at 0 h and 24 h postmortem) from 20 rats (10 died from asphyxia and 10 died from SCD) and 16 human lung tissues from 16 real cases were used for spectral data acquisition. After data preprocessing, 2675 spectra from rat lung tissues and 1526 spectra from human lung tissues were obtained for subsequent analysis. First, we found that there were biochemical differences in the rat lung tissues between the two causes of death by principal component analysis and partial least-squares discriminant analysis (PLS-DA), which were related to alterations in lipids, proteins, and nucleic acids. In addition, a PLS-DA classification model can be built to distinguish asphyxia from SCD. Second, based on the spectral data obtained from lung tissues allowed to decompose for 24 h, we could still distinguish asphyxia from SCD even when decomposition occurred in animal models. Nine important spectral features that contributed to the discrimination in the animal experiment were selected and further analyzed. Third, 7 of the 9 differential spectral features were also found to be significantly different in human lung tissues from 16 real cases. A support vector machine model was finally built by using the seven variables to distinguish asphyxia from SCD in the human samples. Compared with the linear PLS-DA model, its accuracy was significantly improved to 0.798, and the correct rate of determining the cause of death was 100%. This study shows the application potential of FTIR spectroscopy for exploring the subtle biochemical differences resulting from different death processes and determining the cause of death even after decomposition.
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Affiliation(s)
- Kai Zhang
- Department
of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an 710061, People’s
Republic of China
| | - Ruina Liu
- Department
of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an 710061, People’s
Republic of China
| | - Ya Tuo
- Department
of Biochemistry and Physiology, Shanghai
University of Medicine and Health Sciences, Shanghai 201318, People’s Republic of China
| | - Kaijun Ma
- Shanghai
Key Laboratory of Crime Scene Evidence, Institute of Criminal Science
and Technology, Shanghai Municipal Public
Security Bureau, Shanghai 200042, People’s Republic
of China
| | - Dongchuan Zhang
- Shanghai
Key Laboratory of Crime Scene Evidence, Institute of Criminal Science
and Technology, Shanghai Municipal Public
Security Bureau, Shanghai 200042, People’s Republic
of China
| | - Zhenyuan Wang
- Department
of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an 710061, People’s
Republic of China
| | - Ping Huang
- Shanghai
Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai 200063, People’s Republic of China
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6
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Patil N, Howe O, Cahill P, Byrne HJ. Monitoring and modelling the dynamics of the cellular glycolysis pathway: A review and future perspectives. Mol Metab 2022; 66:101635. [PMID: 36379354 PMCID: PMC9703637 DOI: 10.1016/j.molmet.2022.101635] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Revised: 10/28/2022] [Accepted: 11/06/2022] [Indexed: 11/15/2022] Open
Abstract
BACKGROUND The dynamics of the cellular glycolysis pathway underpin cellular function and dysfunction, and therefore ultimately health, disease, diagnostic and therapeutic strategies. Evolving our understanding of this fundamental process and its dynamics remains critical. SCOPE OF REVIEW This paper reviews the medical relevance of glycolytic pathway in depth and explores the current state of the art for monitoring and modelling the dynamics of the process. The future perspectives of label free, vibrational microspectroscopic techniques to overcome the limitations of the current approaches are considered. MAJOR CONCLUSIONS Vibrational microspectroscopic techniques can potentially operate in the niche area of limitations of other omics technologies for non-destructive, real-time, in vivo label-free monitoring of glycolysis dynamics at a cellular and subcellular level.
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Affiliation(s)
- Nitin Patil
- FOCAS Research Institute, Technological University Dublin, City Campus, Camden Row, Dublin 8, Ireland; School of Physics and Optometric & Clinical Sciences, Technological University Dublin, City Campus, Grangegorman, Dublin 7, Ireland.
| | - Orla Howe
- School of Biological and Health Sciences, Technological University Dublin, City Campus, Grangegorman, Dublin 7, Ireland
| | - Paul Cahill
- School of Biotechnology, Dublin City University, Glasnevin, Dublin 9, Ireland
| | - Hugh J Byrne
- FOCAS Research Institute, Technological University Dublin, City Campus, Camden Row, Dublin 8, Ireland
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7
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Erenay B, Sağlam ASY, Garipcan B, Jandt KD, Odabaş S. Bone surface mimicked PDMS membranes stimulate osteoblasts and calcification of bone matrix. BIOMATERIALS ADVANCES 2022; 142:213170. [PMID: 36341745 DOI: 10.1016/j.bioadv.2022.213170] [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: 08/04/2022] [Revised: 10/06/2022] [Accepted: 10/20/2022] [Indexed: 06/16/2023]
Abstract
Cellular microenvironments play a crucial role in cell behavior. In addition to the biochemical cues present in the microenvironments, biophysical and biomechanical properties on surfaces have an impact on cellular functionality and eventually cellular fate. Effects of surface topography on cell behavior are being studied extensively in the literature. However, these studies often try to replicate topographical features of tissue surfaces by using techniques such as chemical etching, photolithography, and electrospinning, which may result in the loss of crucial micro- and nano- features on the tissue surfaces such as bone. This study investigates the topographical effects of bone surface by transferring its surface features onto polydimethylsiloxane (PDMS) membranes using soft lithography from a bovine femur. Our results have shown that major features on bone surfaces were successfully transferred onto PDMS using soft lithography. Osteoblast proliferation and calcification of bone matrix have significantly increased along with osteoblast-specific differentiation and maturation markers such as osteocalcin (OSC), osterix (OSX), collagen type I alpha 1 chain (COL1A1), and alkaline phosphatase (ALP) on bone surface mimicked (BSM) PDMS membranes in addition to a unidirectional alignment of osteoblast cells compared to plain PDMS surfaces. This presented bone surface mimicking method can provide a versatile native-like platform for further investigation of intracellular pathways regarding osteoblast growth and differentiation.
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Affiliation(s)
- Berkay Erenay
- Biomimetics and Bioinspired Biomaterials Research Laboratory, Institute of Biomedical Engineering, Boğaziçi University, 34684, Turkey
| | - Atiye Seda Yar Sağlam
- Department of Medical Biology and Genetics, Faculty of Medicine, Gazi University, Besevler, Ankara 06500, Turkey
| | - Bora Garipcan
- Biomimetics and Bioinspired Biomaterials Research Laboratory, Institute of Biomedical Engineering, Boğaziçi University, 34684, Turkey
| | - Klaus D Jandt
- Chair of Materials Science, Otto Schott Institute of Materials Research, Friedrich Schiller University, Jena 07743, Germany.
| | - Sedat Odabaş
- Biomaterials and Tissue Engineering Laboratory (BteLAB), Faculty of Science, Department of Chemistry, Ankara University, 06560, Turkey; Interdisciplinary Research Unit for Advanced Materials (INTRAM), Ankara University, Ankara 06560, Turkey.
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8
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Application of Advanced Non-Linear Spectral Decomposition and Regression Methods for Spectroscopic Analysis of Targeted and Non-Targeted Irradiation Effects in an In-Vitro Model. Int J Mol Sci 2022; 23:ijms232112986. [DOI: 10.3390/ijms232112986] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 09/30/2022] [Accepted: 10/11/2022] [Indexed: 12/24/2022] Open
Abstract
Irradiation of the tumour site during treatment for cancer with external-beam ionising radiation results in a complex and dynamic series of effects in both the tumour itself and the normal tissue which surrounds it. The development of a spectral model of the effect of each exposure and interaction mode between these tissues would enable label free assessment of the effect of radiotherapeutic treatment in practice. In this study Fourier transform Infrared microspectroscopic imaging was employed to analyse an in-vitro model of radiotherapeutic treatment for prostate cancer, in which a normal cell line (PNT1A) was exposed to low-dose X-ray radiation from the scattered treatment beam, and also to irradiated cell culture medium (ICCM) from a cancer cell line exposed to a treatment relevant dose (2 Gy). Various exposure modes were studied and reference was made to previously acquired data on cellular survival and DNA double strand break damage. Spectral analysis with manifold methods, linear spectral fitting, non-linear classification and non-linear regression approaches were found to accurately segregate spectra on irradiation type and provide a comprehensive set of spectral markers which differentiate on irradiation mode and cell fate. The study demonstrates that high dose irradiation, low-dose scatter irradiation and radiation-induced bystander exposure (RIBE) signalling each produce differential effects on the cell which are observable through spectroscopic analysis.
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9
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Pérez-Guaita D, Quintás G, Farhane Z, Tauler R, Byrne HJ. Combining Pharmacokinetics and Vibrational Spectroscopy: MCR-ALS Hard-and-Soft Modelling of Drug Uptake In Vitro Using Tailored Kinetic Constraints. Cells 2022; 11:1555. [PMID: 35563861 PMCID: PMC9099467 DOI: 10.3390/cells11091555] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Revised: 04/27/2022] [Accepted: 04/29/2022] [Indexed: 11/18/2022] Open
Abstract
Raman microspectroscopy is a label-free technique which is very suited for the investigation of pharmacokinetics of cellular uptake, mechanisms of interaction, and efficacies of drugs in vitro. However, the complexity of the spectra makes the identification of spectral patterns associated with the drug and subsequent cellular responses difficult. Indeed, multivariate methods that relate spectral features to the inoculation time do not normally take into account the kinetics involved, and important theoretical information which could assist in the elucidation of the relevant spectral signatures is excluded. Here, we propose the integration of kinetic equations in the modelling of drug uptake and subsequent cellular responses using Multivariate Curve Resolution-Alternating Least Squares (MCR-ALS) and tailored kinetic constraints, based on a system of ordinary differential equations. Advantages of and challenges to the methodology were evaluated using simulated Raman spectral data sets and real Raman spectra acquired from A549 and Calu-1 human lung cells inoculated with doxorubicin, in vitro. The results suggest a dependency of the outcome on the system of equations used, and the importance of the temporal resolution of the data set to enable the use of complex equations. Nevertheless, the use of tailored kinetic constraints during MCR-ALS allowed a more comprehensive modelling of the system, enabling the elucidation of not only the time-dependent concentration profiles and spectral features of the drug binding and cellular responses, but also an accurate computation of the kinetic constants.
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Affiliation(s)
- David Pérez-Guaita
- FOCAS Research Institute, Technological University Dublin, City Campus, D08 CKP1 Dublin, Ireland;
- Department of Anaytical Chemistry, University of Valencia, 46100 Valencia, Spain
| | - Guillermo Quintás
- Health and Biomedicine, Leitat Technological Centre, 08028 Barcelona, Spain;
| | - Zeineb Farhane
- FOCAS Research Institute, Technological University Dublin, City Campus, D08 CKP1 Dublin, Ireland;
| | - Romá Tauler
- Institute of Environmental Assessment and Water Research (IDAEA)—Higher Council for Scientific Research (CSIC), 08043 Barcelona, Spain;
| | - Hugh J. Byrne
- FOCAS Research Institute, Technological University Dublin, City Campus, D08 CKP1 Dublin, Ireland;
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10
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Pryadko AS, Botvin VV, Mukhortova YR, Pariy I, Wagner DV, Laktionov PP, Chernonosova VS, Chelobanov BP, Chernozem RV, Surmeneva MA, Kholkin AL, Surmenev RA. Core-Shell Magnetoactive PHB/Gelatin/Magnetite Composite Electrospun Scaffolds for Biomedical Applications. Polymers (Basel) 2022; 14:polym14030529. [PMID: 35160518 PMCID: PMC8839593 DOI: 10.3390/polym14030529] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2021] [Revised: 01/21/2022] [Accepted: 01/26/2022] [Indexed: 12/21/2022] Open
Abstract
Novel hybrid magnetoactive composite scaffolds based on poly(3-hydroxybutyrate) (PHB), gelatin, and magnetite (Fe3O4) were fabricated by electrospinning. The morphology, structure, phase composition, and magnetic properties of composite scaffolds were studied. Fabrication procedures of PHB/gelatin and PHB/gelatin/Fe3O4 scaffolds resulted in the formation of both core-shell and ribbon-shaped structure of the fibers. In case of hybrid PHB/gelatin/Fe3O4 scaffolds submicron-sized Fe3O4 particles were observed in the surface layers of the fibers. The X-ray photoelectron spectroscopy results allowed the presence of gelatin on the fiber surface (N/C ratio–0.11) to be revealed. Incubation of the composite scaffolds in saline for 3 h decreased the amount of gelatin on the surface by more than ~75%. The differential scanning calorimetry results obtained for pure PHB scaffolds revealed a characteristic melting peak at 177.5 °C. The presence of gelatin in PHB/gelatin and PHB/gelatin/Fe3O4 scaffolds resulted in the decrease in melting temperature to 168–169 °C in comparison with pure PHB scaffolds due to the core-shell structure of the fibers. Hybrid scaffolds also demonstrated a decrease in crystallinity from 52.3% (PHB) to 16.9% (PHB/gelatin) and 9.2% (PHB/gelatin/Fe3O4). All the prepared scaffolds were non-toxic and saturation magnetization of the composite scaffolds with magnetite was 3.27 ± 0.22 emu/g, which makes them prospective candidates for usage in biomedical applications.
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Affiliation(s)
- Artyom S. Pryadko
- Physical Materials Science and Composite Materials Center, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia; (A.S.P.); (Y.R.M.); (I.P.); (R.V.C.); (M.A.S.)
| | - Vladimir V. Botvin
- International Research and Development Center “Piezo- and Magnetoelectric Materials”, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia;
| | - Yulia R. Mukhortova
- Physical Materials Science and Composite Materials Center, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia; (A.S.P.); (Y.R.M.); (I.P.); (R.V.C.); (M.A.S.)
- International Research and Development Center “Piezo- and Magnetoelectric Materials”, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia;
| | - Igor Pariy
- Physical Materials Science and Composite Materials Center, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia; (A.S.P.); (Y.R.M.); (I.P.); (R.V.C.); (M.A.S.)
| | - Dmitriy V. Wagner
- Faculty of Radiophysics, National Research Tomsk State University, 634050 Tomsk, Russia;
| | - Pavel P. Laktionov
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, 630090 Novosibirsk, Russia; (P.P.L.); (V.S.C.); (B.P.C.)
| | - Vera S. Chernonosova
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, 630090 Novosibirsk, Russia; (P.P.L.); (V.S.C.); (B.P.C.)
| | - Boris P. Chelobanov
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, 630090 Novosibirsk, Russia; (P.P.L.); (V.S.C.); (B.P.C.)
- Laboratory of Molecular Medicine, Novosibirsk State University, 630090 Novosibirsk, Russia
| | - Roman V. Chernozem
- Physical Materials Science and Composite Materials Center, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia; (A.S.P.); (Y.R.M.); (I.P.); (R.V.C.); (M.A.S.)
- International Research and Development Center “Piezo- and Magnetoelectric Materials”, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia;
| | - Maria A. Surmeneva
- Physical Materials Science and Composite Materials Center, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia; (A.S.P.); (Y.R.M.); (I.P.); (R.V.C.); (M.A.S.)
- International Research and Development Center “Piezo- and Magnetoelectric Materials”, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia;
| | - Andrei L. Kholkin
- International Research and Development Center “Piezo- and Magnetoelectric Materials”, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia;
- Department of Physics and CICECO-Aveiro Institute of Materials, University of Aveiro, 3810-193 Aveiro, Portugal
- Correspondence: (A.L.K.); (R.A.S.)
| | - Roman A. Surmenev
- Physical Materials Science and Composite Materials Center, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia; (A.S.P.); (Y.R.M.); (I.P.); (R.V.C.); (M.A.S.)
- International Research and Development Center “Piezo- and Magnetoelectric Materials”, Research School of Chemistry and Applied Biomedical Sciences, National Research Tomsk Polytechnic University, 634050 Tomsk, Russia;
- Correspondence: (A.L.K.); (R.A.S.)
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11
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Li Z, Ma J, Wang Q, Zhang K, Sun X, Cai H, Wang Z. Quantitative Characterization of Pulmonary Fat Emboli by Attenuated Total Reflectance–Fourier Transform Infrared (ATR-FTIR) Spectroscopy and Partial Least-Squares (PLS) Regression: A Preliminary Study. ANAL LETT 2021. [DOI: 10.1080/00032719.2021.1986717] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Zhouru Li
- Department of Forensic Pathology, School of Medicine, Xi'an Jiaotong University, Xi'an, China
- Department of Forensic Medicine, Xuzhou Medical University, Xuzhou, China
- Shanghai Key Lab of Forensic Medicine, Key Lab of Forensic Science, Ministry of Justice, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai, China
| | - Jingyuan Ma
- Department of Forensic Medicine, Xuzhou Medical University, Xuzhou, China
| | - Qi Wang
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, China
| | - Kai Zhang
- Department of Forensic Pathology, School of Medicine, Xi'an Jiaotong University, Xi'an, China
| | - Xiaoming Sun
- Department of Forensic Medicine, Xuzhou Medical University, Xuzhou, China
| | - Hongxing Cai
- Department of Forensic Medicine, Xuzhou Medical University, Xuzhou, China
| | - Zhenyuan Wang
- Department of Forensic Pathology, School of Medicine, Xi'an Jiaotong University, Xi'an, China
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12
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Lovergne L, Ghosh D, Schuck R, Polyzos AA, Chen AD, Martin MC, Barnard ES, Brown JB, McMurray CT. An infrared spectral biomarker accurately predicts neurodegenerative disease class in the absence of overt symptoms. Sci Rep 2021; 11:15598. [PMID: 34341363 PMCID: PMC8329289 DOI: 10.1038/s41598-021-93686-8] [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: 02/08/2021] [Accepted: 06/24/2021] [Indexed: 12/29/2022] Open
Abstract
Although some neurodegenerative diseases can be identified by behavioral characteristics relatively late in disease progression, we currently lack methods to predict who has developed disease before the onset of symptoms, when onset will occur, or the outcome of therapeutics. New biomarkers are needed. Here we describe spectral phenotyping, a new kind of biomarker that makes disease predictions based on chemical rather than biological endpoints in cells. Spectral phenotyping uses Fourier Transform Infrared (FTIR) spectromicroscopy to produce an absorbance signature as a rapid physiological indicator of disease state. FTIR spectromicroscopy has over the past been used in differential diagnoses of manifest disease. Here, we report that the unique FTIR chemical signature accurately predicts disease class in mouse with high probability in the absence of brain pathology. In human cells, the FTIR biomarker accurately predicts neurodegenerative disease class using fibroblasts as surrogate cells.
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Affiliation(s)
- Lila Lovergne
- Division of Molecular Biophysics and Integrated Bioimaging, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Dhruba Ghosh
- Department of Statistics, University of California, Berkeley, CA, 94720, USA
| | - Renaud Schuck
- Division of Molecular Biophysics and Integrated Bioimaging, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Aris A Polyzos
- Division of Molecular Biophysics and Integrated Bioimaging, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Andrew D Chen
- Department of Statistics, University of California, Berkeley, CA, 94720, USA
| | - Michael C Martin
- Advanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Edward S Barnard
- Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - James B Brown
- Department of Statistics, University of California, Berkeley, CA, 94720, USA
- Division of Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Cynthia T McMurray
- Division of Molecular Biophysics and Integrated Bioimaging, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
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13
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Bogdanova AS, Sokolova AI, Pavlova ER, Klinov DV, Bagrov DV. Investigation of cellular morphology and proliferation on patterned electrospun PLA-gelatin mats. J Biol Phys 2021; 47:205-214. [PMID: 34032971 PMCID: PMC8185091 DOI: 10.1007/s10867-021-09574-9] [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: 03/02/2021] [Accepted: 05/10/2021] [Indexed: 10/21/2022] Open
Abstract
The morphology and proliferation of eukaryotic cells depend on their microenvironment. When electrospun mats are used as tissue engineering scaffolds, the local alignment of the fibers has a pronounced influence on cells. Here we analyzed the morphology of the patterned mats produced by electrospinning of PLA-gelatin blend onto a conductive grid. We investigated the cellular morphology and proliferation of two cell lines (keratinocytes HaCaT and fibroblasts NIH 3T3) on the patterned mats. The non-patterned mats of the same chemical composition were used as control ones. The HaCaT cells predominantly grew on convex areas of the patterned mats along with increasing their nucleus area and decreasing cell area. The 3T3 cells had a lower proliferative rate when grown on the patterned mats. The results can be valuable for further development of the procedures, which allow the patterned electrospun mats development as well as for the investigation of cell-substrate interactions.
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Affiliation(s)
- Alexandra Sergeevna Bogdanova
- Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow, Russia.
- Moscow Institute of Physics and Technology, Dolgoprudny, Moscow Region, Russia.
| | - Anastasiia Ivanovna Sokolova
- Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow, Russia
- Institute for Medical Physics and Biophysics, Münster, Germany
| | - Elizaveta Robertovna Pavlova
- Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow, Russia
- Moscow Institute of Physics and Technology, Dolgoprudny, Moscow Region, Russia
| | - Dmitry Vladimirovich Klinov
- Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow, Russia
| | - Dmitry Vladimirovich Bagrov
- Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow, Russia
- Department of Bioengineering, Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia
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14
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Highly Sensitive and Cost-Effective Portable Sensor for Early Gastric Carcinoma Diagnosis. SENSORS 2021; 21:s21082639. [PMID: 33918707 PMCID: PMC8069728 DOI: 10.3390/s21082639] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Revised: 03/23/2021] [Accepted: 03/25/2021] [Indexed: 11/17/2022]
Abstract
Facile and efficient early detection of cancer is a major challenge in healthcare. Herein we developed a novel sensor made from a polycarbonate (PC) membrane with nanopores, followed by sequence-specific Oligo RNA modification for early gastric carcinoma diagnosis. In this design, the gastric cancer antigen CA72-4 is specifically conjugated to the Oligo RNA, thereby inhibiting the electrical current through the PC membrane in a concentration-dependent manner. The device can determine the concentration of cancer antigen CA72-4 in the range from 4 to 14 U/mL, possessing a sensitivity of 7.029 µAU-1mLcm-2 with a linear regression (R2) of 0.965 and a lower detection limit of 4 U/mL. This device has integrated advantages including high specificity and sensitivity and being simple, portable, and cost effective, which collectively enables a giant leap for cancer screening technologies towards clinical use. This is the first report to use RNA aptamers to detect CA72-4 for gastric carcinoma diagnosis.
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15
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Vibrational Spectroscopy for In Vitro Monitoring Stem Cell Differentiation. Molecules 2020; 25:molecules25235554. [PMID: 33256146 PMCID: PMC7729886 DOI: 10.3390/molecules25235554] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2020] [Revised: 11/21/2020] [Accepted: 11/23/2020] [Indexed: 12/12/2022] Open
Abstract
Stem cell technology has attracted considerable attention over recent decades due to its enormous potential in regenerative medicine and disease therapeutics. Studying the underlying mechanisms of stem cell differentiation and tissue generation is critical, and robust methodologies and different technologies are required. Towards establishing improved understanding and optimised triggering and control of differentiation processes, analytical techniques such as flow cytometry, immunohistochemistry, reverse transcription polymerase chain reaction, RNA in situ hybridisation analysis, and fluorescence-activated cell sorting have contributed much. However, progress in the field remains limited because such techniques provide only limited information, as they are only able to address specific, selected aspects of the process, and/or cannot visualise the process at the subcellular level. Additionally, many current analytical techniques involve the disruption of the investigation process (tissue sectioning, immunostaining) and cannot monitor the cellular differentiation process in situ, in real-time. Vibrational spectroscopy, as a label-free, non-invasive and non-destructive analytical technique, appears to be a promising candidate to potentially overcome many of these limitations as it can provide detailed biochemical fingerprint information for analysis of cells, tissues, and body fluids. The technique has been widely used in disease diagnosis and increasingly in stem cell technology. In this work, the efforts regarding the use of vibrational spectroscopy to identify mechanisms of stem cell differentiation at a single cell and tissue level are summarised. Both infrared absorption and Raman spectroscopic investigations are explored, and the relative merits, and future perspectives of the techniques are discussed.
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16
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Byrne HJ, Bonnier F, Efeoglu E, Moore C, McIntyre J. In vitro Label Free Raman Microspectroscopic Analysis to Monitor the Uptake, Fate and Impacts of Nanoparticle Based Materials. Front Bioeng Biotechnol 2020; 8:544311. [PMID: 33195114 PMCID: PMC7658377 DOI: 10.3389/fbioe.2020.544311] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2020] [Accepted: 10/12/2020] [Indexed: 01/22/2023] Open
Abstract
The continued emergence of nanoscale materials for nanoparticle-based therapy, sensing and imaging, as well as their more general adoption in a broad range of industrial applications, has placed increasing demands on the ability to assess their interactions and impacts at a cellular and subcellular level, both in terms of potentially beneficial and detrimental effects. Notably, however, many such materials have been shown to interfere with conventional in vitro cellular assays that record only a single colorimetric end-point, challenging the ability to rapidly screen cytological responses. As an alternative, Raman microspectroscopy can spatially profile the biochemical content of cells, and any changes to it as a result of exogenous agents, such as toxicants or therapeutic agents, in a label free manner. In the confocal mode, analysis can be performed at a subcellular level. The technique has been employed to confirm the cellular uptake and subcellular localization of polystyrene nanoparticles (PSNPs), graphene and molybdenum disulfide micro/nano plates (MoS2), based on their respective characteristic spectroscopic signatures. In the case of PSNPs it was further employed to identify their local subcellular environment in endosomes, lysosomes and endoplasmic reticulum, while for MoS2 particles, it was employed to monitor subcellular degradation as a function of time. For amine functionalized PSNPs, the potential of Raman microspectroscopy to quantitatively characterize the dose and time dependent toxic responses has been explored, in a number of cell lines. Comparing the responses to those of poly (amidoamine) nanoscale polymeric dendrimers, differentiation of apoptotic and necrotic pathways based on the cellular spectroscopic responses was demonstrated. Drawing in particular from the experience of the authors, this paper details the progress to date in the development of applications of Raman microspectroscopy for in vitro, label free analysis of the uptake, fate and impacts of nanoparticle based materials, in vitro, and the prospects for the development of a routine, label free high content spectroscopic analysis technique.
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Affiliation(s)
- Hugh J Byrne
- FOCAS Research Institute, Technological University Dublin, Dublin, Ireland
| | - Franck Bonnier
- UFR Sciences Pharmaceutiques, EA 6295 Nanomédicaments et Nanosondes, Université de Tours, Tours, France
| | - Esen Efeoglu
- FOCAS Research Institute, Technological University Dublin, Dublin, Ireland
| | - Caroline Moore
- FOCAS Research Institute, Technological University Dublin, Dublin, Ireland
| | - Jennifer McIntyre
- FOCAS Research Institute, Technological University Dublin, Dublin, Ireland
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17
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O'Neill Moore S, Grubb TJ, Kothapalli CR. Insights into the biophysical forces between proteins involved in elastic fiber assembly. J Mater Chem B 2020; 8:9239-9250. [PMID: 32966543 DOI: 10.1039/d0tb01591a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Elastogenesis is a complex process beginning with transcription, translation, and extracellular release of precursor proteins leading to crosslinking, deposition, and assembly of ubiquitous elastic fibers. While the biochemical pathways by which elastic fibers are assembled are known, the biophysical forces mediating the interactions between the constituent proteins are unknown. Using atomic force microscopy, we quantified the adhesive forces among the elastic fiber components, primarily between tropoelastin, elastin binding protein (EBP), fibrillin-1, fibulin-5, and lysyl oxidase-like 2 (LOXL2). The adhesive forces between tropoelastin and other tissue-derived proteins such as insoluble elastin, laminin, and type I collagens were also assessed. The adhesive forces between tropoelastin and laminin were strong (1767 ± 126 pN; p < 10-5vs. all others), followed by forces (≥200 pN) between tropoelastin and human collagen, mature elastin, or tropoelastin. The adhesive forces between tropoelastin and rat collagen, EBP, fibrillin-1, fibulin-5, and LOXL2 coated on fibrillin-1 were in the range of 100-200 pN. The forces between tropoelastin and LOXL2, LOXL2 and fibrillin-1, LOXL2 and fibulin-5, and fibrillin-1 and fibulin-5 were less than 100 pN. Introducing LOXL2 decreased the adhesive forces between the tropoelastin monomers by ∼100 pN. The retraction phase of force-deflection curves was fitted to the worm-like chain model to calculate the rigidity and flexibility of these proteins as they unfolded. The results provided insights into how each constituent's stretching under deformation contributes to structural and mechanical characteristics of these fibers and to elastic fiber assembly.
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Affiliation(s)
- Sean O'Neill Moore
- Department of Chemical and Biomedical Engineering, FH 460, Cleveland State University, 2121 Euclid Avenue, Cleveland, OH 44115, USA.
| | - Tyler Jacob Grubb
- Department of Chemical and Biomedical Engineering, FH 460, Cleveland State University, 2121 Euclid Avenue, Cleveland, OH 44115, USA.
| | - Chandrasekhar R Kothapalli
- Department of Chemical and Biomedical Engineering, FH 460, Cleveland State University, 2121 Euclid Avenue, Cleveland, OH 44115, USA.
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18
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Fricke D, Becker A, Heratizadeh A, Knigge S, Jütte L, Wollweber M, Werfel T, Roth BW, Glasmacher B. Mueller Matrix Analysis of Collagen and Gelatin Containing Samples Towards More Objective Skin Tissue Diagnostics. Polymers (Basel) 2020; 12:polym12061400. [PMID: 32580462 PMCID: PMC7361993 DOI: 10.3390/polym12061400] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2020] [Revised: 06/16/2020] [Accepted: 06/19/2020] [Indexed: 11/19/2022] Open
Abstract
Electrospun polycaprolactone:gelatin (PCL:GT) fibre scaffolds are widely employed in the field of tissue implants. Here, the orientation of fibres plays an important role in regard to implantation due to the impact on the mechanical properties. Likewise, the orientation of collagen fibres in skin tissue is relevant for dermatology. State-of-the-art fibre orientation measurement methods like electron microscopy are time consuming and destructive. In this work, we demonstrate polarimetry as a non-invasive approach and evaluate its potential by measuring the Mueller matrix (MM) of gelatin and collagen containing samples as simple skin tissue phantoms. We demonstrate that it is possible to determine the orientation of PCL:GT fibre scaffolds within one MM measurement. Furthermore, we determine the structural orientation in collagen film samples. Currently, the diagnosis of skin diseases is often performed by image analysis or histopathology respectively, which are either subjective or invasive. The method presented, here, provides an interesting alternative approach for such investigations. Our findings indicate that the orientation of collagen fibres within skin lesions might be detectable by MM measurements in the future, which is of interest for skin diagnostics, and will be further investigated during the next step.
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Affiliation(s)
- Dierk Fricke
- Hannover Centre for Optical Technologies (HOT), Leibniz University Hannover, 30167 Hannover, Germany; (L.J.); (M.W.); (B.W.R.)
- Correspondence:
| | - Alexander Becker
- Institute for Multiphase Processes (IMP), Leibniz University Hannover, 30167 Hannover, Germany; (A.B.); (S.K.); (B.G.)
- Implant Research and Development (NIFE), Lower Saxony Centre for Biomedical Engineering, 30625 Hannover, Germany
| | - Annice Heratizadeh
- Hannover Medical School, Department of Dermatology and Allergy, 30625 Hannover, Germany; (A.H.); (T.W.)
| | - Sara Knigge
- Institute for Multiphase Processes (IMP), Leibniz University Hannover, 30167 Hannover, Germany; (A.B.); (S.K.); (B.G.)
- Implant Research and Development (NIFE), Lower Saxony Centre for Biomedical Engineering, 30625 Hannover, Germany
| | - Lennart Jütte
- Hannover Centre for Optical Technologies (HOT), Leibniz University Hannover, 30167 Hannover, Germany; (L.J.); (M.W.); (B.W.R.)
| | - Merve Wollweber
- Hannover Centre for Optical Technologies (HOT), Leibniz University Hannover, 30167 Hannover, Germany; (L.J.); (M.W.); (B.W.R.)
- Laser Zentrum Hannover e.V., 30419 Hannover, Germany
| | - Thomas Werfel
- Hannover Medical School, Department of Dermatology and Allergy, 30625 Hannover, Germany; (A.H.); (T.W.)
| | - Bernhard Wilhelm Roth
- Hannover Centre for Optical Technologies (HOT), Leibniz University Hannover, 30167 Hannover, Germany; (L.J.); (M.W.); (B.W.R.)
- Cluster of Excellence PhoenixD, Leibniz University Hannover, 30167 Hannover, Germany
| | - Birgit Glasmacher
- Institute for Multiphase Processes (IMP), Leibniz University Hannover, 30167 Hannover, Germany; (A.B.); (S.K.); (B.G.)
- Implant Research and Development (NIFE), Lower Saxony Centre for Biomedical Engineering, 30625 Hannover, Germany
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19
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Féré M, Gobinet C, Liu LH, Beljebbar A, Untereiner V, Gheldof D, Chollat M, Klossa J, Chatelain B, Piot O. Implementation of a classification strategy of Raman data collected in different clinical conditions: application to the diagnosis of chronic lymphocytic leukemia. Anal Bioanal Chem 2019; 412:949-962. [PMID: 31853604 DOI: 10.1007/s00216-019-02321-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2019] [Revised: 10/31/2019] [Accepted: 12/03/2019] [Indexed: 02/06/2023]
Abstract
The literature is rich in proof of concept studies demonstrating the potential of Raman spectroscopy for disease diagnosis. However, few studies are conducted in a clinical context to demonstrate its applicability in current clinical practice and workflow. Indeed, this translational research remains far from the patient's bedside for several reasons. First, samples are often cultured cell lines. Second, they are prepared on non-standard substrates for clinical routine. Third, a unique supervised classification model is usually constructed using inadequate cross-validation strategy. Finally, the implemented models maximize classification accuracy without taking into account the clinician's needs. In this paper, we address these issues through a diagnosis problem in real clinical conditions, i.e., the diagnosis of chronic lymphocytic leukemia from fresh unstained blood smears spread on glass slides. From Raman data acquired in different experimental conditions, a repeated double cross-validation strategy was combined with different cross-validation approaches, a consensus label strategy and adaptive thresholds able to adapt to the clinician's needs. Combined with validation at the patient level, classification results were improved compared to traditional strategies.
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Affiliation(s)
- M Féré
- BioSpecT EA 7506, Faculty of Pharmacy, University of Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096, Reims, France
| | - C Gobinet
- BioSpecT EA 7506, Faculty of Pharmacy, University of Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096, Reims, France.
| | - L H Liu
- BioSpecT EA 7506, Faculty of Pharmacy, University of Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096, Reims, France
| | - A Beljebbar
- BioSpecT EA 7506, Faculty of Pharmacy, University of Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096, Reims, France
| | - V Untereiner
- Cellular and Tissular Imaging Platform PICT, Faculty of Pharmacy, University of Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096, Reims, France
| | - D Gheldof
- CHU UCL Namur, Namur Thrombosis and Hemostasis Center, Hematology Laboratory, Rue Dr Gaston Therasse, Catholic University of Louvain, 5530, Yvoir, Belgium
| | - M Chollat
- TRIBVN, 39 Rue Louveau, 92320, Châtillon, France
| | - J Klossa
- TRIBVN, 39 Rue Louveau, 92320, Châtillon, France
| | - B Chatelain
- CHU UCL Namur, Namur Thrombosis and Hemostasis Center, Hematology Laboratory, Rue Dr Gaston Therasse, Catholic University of Louvain, 5530, Yvoir, Belgium
| | - O Piot
- BioSpecT EA 7506, Faculty of Pharmacy, University of Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096, Reims, France.,Cellular and Tissular Imaging Platform PICT, Faculty of Pharmacy, University of Reims Champagne-Ardenne, 51 rue Cognacq-Jay, 51096, Reims, France
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20
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Nargis HF, Nawaz H, Ditta A, Mahmood T, Majeed MI, Rashid N, Muddassar M, Bhatti HN, Saleem M, Jilani K, Bonnier F, Byrne HJ. Raman spectroscopy of blood plasma samples from breast cancer patients at different stages. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 222:117210. [PMID: 31176149 DOI: 10.1016/j.saa.2019.117210] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/27/2018] [Revised: 05/02/2019] [Accepted: 05/26/2019] [Indexed: 06/09/2023]
Abstract
Raman spectroscopy was employed for the characterization of blood plasma samples from patients at different stages of breast cancer. Blood plasma samples taken from clinically diagnosed breast cancer patients were compared with healthy controls using multivariate data analysis techniques (principal components analysis - PCA) to establish Raman spectral features which can be considered spectral markers of breast cancer development. All the stages of the disease can be differentiated from normal samples. It is also found that stage 2 and 3 are biochemically similar, but can be differentiated from each other by PCA. The Raman spectral data of the stage 4 is found to be biochemically distinct, but very variable between patients. Raman spectral features associated with DNA and proteins were identified, which are exclusive to patient plasma samples. Moreover, there are several other spectral features which are strikingly different in the blood plasma samples of different stages of breast cancer. In order to further explore the potential of Raman spectroscopy as the basis of a minimally invasive screening technique for breast cancer diagnosis and staging, PCA-Factorial Discriminant Analysis (FDA) was employed to classify the Raman spectral datasets of the blood plasma samples of the breast cancer patients, according to different stages of the disease, yielding promisingly high values of sensitivity and specificity for all stages.
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Affiliation(s)
- H F Nargis
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - H Nawaz
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan.
| | - A Ditta
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - T Mahmood
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - M I Majeed
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - N Rashid
- University of Central Punjab, Faisalabad campus, Faisalabad, Pakistan
| | - M Muddassar
- Department of Biosciences, COMSATS University Islamabad, Park Road, Islamabad, Pakistan
| | - H N Bhatti
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - M Saleem
- National Institute of Lasers and Optronics (NILOP), Islamabad, Pakistan
| | - K Jilani
- Department of Biochemistry, University of Agriculture, Faisalabad, Pakistan
| | - F Bonnier
- EA 6295 Nano-médicaments and nano-sondes, Université de Tours, Tours, France
| | - H J Byrne
- FOCAS Research Institute, Technological University Dublin, Kevin Street, Dublin 8, Ireland
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21
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Chen YW, Chen CC, Ng HY, Lou CW, Chen YS, Shie MY. Additive Manufacturing of Nerve Decellularized Extracellular Matrix-Contained Polyurethane Conduits for Peripheral Nerve Regeneration. Polymers (Basel) 2019; 11:E1612. [PMID: 31590259 PMCID: PMC6835403 DOI: 10.3390/polym11101612] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2019] [Revised: 10/01/2019] [Accepted: 10/03/2019] [Indexed: 12/29/2022] Open
Abstract
The nervous system is the part of our body that plays critical roles in the coordination of actions and sensory information as well as communication between different body parts through electrical signal transmissions. Current studies have shown that patients are likely to experience a functional loss if they have to go through a nerve repair for >15 mm lesion. The ideal treatment methodology is autologous nerve transplant, but numerous problems lie in this treatment method, such as lack of harvesting sites. Therefore, researchers are attempting to fabricate alternatives for nerve regeneration, and nerve conduit is one of the potential alternatives for nerve regeneration. In this study, we fabricated polyurethane/polydopamine/extracellular matrix (PU/PDA/ECM) nerve conduits using digital light processing (DLP) technology and assessed for its physical properties, biodegradability, cytocompatibility, neural related growth factor, and proteins secretion and expression and its potential in allowing cellular adhesion and proliferation. It was reported that PU/PDA/ECM nerve conduits were more hydrophilic and allowed enhanced cellular adhesion, proliferation, expression, and secretion of neural-related proteins (collagen I and laminin) and also enhanced expression of neurogenic proteins, such as nestin and microtubule-associated protein 2 (MAP2). In addition, PU/PDA/ECM nerve conduits were reported to be non-cytotoxic, had sustained biodegradability, and had similar physical characteristics as PU conduits. Therefore, we believed that PU/PDA/ECM nerve conduits could be a potential candidate for future nerve-related research or clinical applications.
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Affiliation(s)
- Yi-Wen Chen
- Graduate Institute of Biomedical Sciences, China Medical University, Taichung 40447, Taiwan.
- D Printing Medical Research Institute, Asia University, Taichung 40447, Taiwan.
| | - Chien-Chang Chen
- D Printing Medical Research Center, China Medical University Hospital, Taichung 40447, Taiwan.
| | - Hooi Yee Ng
- D Printing Medical Research Center, China Medical University Hospital, Taichung 40447, Taiwan.
- School of Medicine, China Medical University, Taichung 40447, Taiwan.
| | - Ching-Wen Lou
- Department of Bioinformatics and Medical Engineering, Asia University, Taichung 40447, Taiwan.
| | - Yueh-Sheng Chen
- Department of Bioinformatics and Medical Engineering, Asia University, Taichung 40447, Taiwan.
- Biomaterials Translational Research Center, China Medical University Hospital, Taichung 40447, Taiwan.
- Lab of Biomaterials, School of Chinese Medicine, China Medical University, Taichung 40447, Taiwan.
| | - Ming-You Shie
- D Printing Medical Research Center, China Medical University Hospital, Taichung 40447, Taiwan.
- Department of Bioinformatics and Medical Engineering, Asia University, Taichung 40447, Taiwan.
- School of Dentistry, China Medical University, Taichung 40447, Taiwan.
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22
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Zhang K, Wang Q, Liu R, Wei X, Li Z, Fan S, Wang Z. Evaluating the effects of causes of death on postmortem interval estimation by ATR-FTIR spectroscopy. Int J Legal Med 2019; 134:565-574. [PMID: 30911838 DOI: 10.1007/s00414-019-02042-z] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2018] [Accepted: 03/08/2019] [Indexed: 12/25/2022]
Abstract
Estimating postmortem interval (PMI) is one of the most challenging tasks in forensic practice due to the effects of many factors. Here, attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy combined with chemometrics was utilized to evaluate the effects of causes of death when estimating PMI and to establish a partial least square (PLS) regression model, which can precisely predict PMI under different causes of death. First, the sensitivities to causes of death (brainstem injury, mechanical asphyxia, and hemorrhage shock) of seven kinds of organs were evaluated based on their degrees of cohesion and separation. Then, the liver was selected as the most sensitive organ to establish a PMI estimation model to compare the predicted deviations from different causes of death. It turns out that the cause of death has no significant effect on estimating PMI. Next, a PLS regression model was built with kidney tissues, which have the lowest sensitivity, and this model showed a satisfactory predictive ability and wide applicability. This study demonstrates the feasibility of using ATR-FTIR spectroscopy in conjunction with chemometrics as a powerful alternative for detecting changes in biochemistry and estimating PMI. A new perspective was also provided for evaluating the effect of causes of death when predicting PMI.
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Affiliation(s)
- Kai Zhang
- Department of Forensic Pathology, College of Forensic Medicine, Xi'an Jiaotong University, Xi'an, 710061, People's Republic of China
| | - Qi Wang
- Department of Forensic Medicine, Chongqing Medical University, Chongqing, 400016, People's Republic of China
| | - Ruina Liu
- Department of Forensic Pathology, College of Forensic Medicine, Xi'an Jiaotong University, Xi'an, 710061, People's Republic of China
| | - Xin Wei
- Department of Forensic Pathology, College of Forensic Medicine, Xi'an Jiaotong University, Xi'an, 710061, People's Republic of China
| | - Zhouru Li
- Department of Forensic Medicine, Xuzhou Medical University, Xuzhou, 221004, People's Republic of China
| | - Shuanliang Fan
- Department of Forensic Pathology, College of Forensic Medicine, Xi'an Jiaotong University, Xi'an, 710061, People's Republic of China.
| | - Zhenyuan Wang
- Department of Forensic Pathology, College of Forensic Medicine, Xi'an Jiaotong University, Xi'an, 710061, People's Republic of China.
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23
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Byrne HJ, Bonnier F, Farhane Z. Two-dimensional correlation analysis of Raman microspectroscopy of subcellular interactions of drugs in vitro. JOURNAL OF BIOPHOTONICS 2019; 12:e201800328. [PMID: 30414254 DOI: 10.1002/jbio.201800328] [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: 08/29/2018] [Revised: 11/06/2018] [Accepted: 11/06/2018] [Indexed: 05/24/2023]
Abstract
Two-dimensional (2D) correlation analysis is explored to data mine the time evolution of the characteristic Raman microspectroscopic signatures of the subcellular responses of the nucleoli of human lung cancer cells to the uptake of doxorubicin. A simulated dataset of experimental control spectra, perturbed with systematically time-dependent spectral changes, constituted by a short-term response which represents the initial binding of the drug in the nucleolus, followed by a longer term response of the organelle metabolism, is used to validate the analysis protocol. Applying 2D correlation analysis, the in phase, synchronous correlation coefficients are seen to contain contributions of both response profiles, whereas they can be independently extracted from the out of phase, asynchronous correlation coefficients. The methodology is applied to experimental data of the uptake of doxorubicin in human lung cell lines to differentiate the signatures of chemical binding and subsequent cellular response.
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Affiliation(s)
- Hugh J Byrne
- FOCAS Research Institute, Dublin Institute of Technology, Dublin, Ireland
| | - Franck Bonnier
- Université François-Rabelais de Tours, Faculty of Pharmacy, EA 6295 Nanomédicaments et Nanosondes, Tours, France
| | - Zeineb Farhane
- FOCAS Research Institute, Dublin Institute of Technology, Dublin, Ireland
- School of Physics and Clinical & Optometric Sciences, Dublin Institute of Technology, Dublin, Ireland
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24
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Bozdag G, Igci N, Calis P, Ayhan B, Ozel Demiralp D, Mumusoglu S, Yarali H. Examination of cervical swabs of patients with endometriosis using Fourier transform infrared spectroscopy. Arch Gynecol Obstet 2019; 299:1501-1508. [PMID: 30810882 DOI: 10.1007/s00404-019-05105-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2018] [Accepted: 02/22/2019] [Indexed: 11/26/2022]
Abstract
PURPOSE There is no established non-invasive method to diagnose patients with endometriosis. As a nondestructive type of radiation, infrared light might be used for discrimination by causing vibration of the covalent bonds of the molecules when absorbed by the tissues. The aim of the study was to test whether cervical swab can be used to diagnose women with endometriosis using Fourier transform infrared spectroscopy (FTIR). METHODS In this prospective case-control study, women between 18-45 years old and undergoing laparoscopy due to various reasons were recruited (n = 20). According to the findings during laparoscopy, patients were stratified as stage I-II or stage III-IV endometriosis groups. Women lacking any visible lesions of endometriosis were recruited as controls. A cervical swab was taken from all patients just before the surgical procedure and pulled into a tube containing saline solution. FTIR spectra were obtained and the fingerprint region (1750-850 cm-1) was used for analyses. RESULTS Finally, three samples in stage I-II, five samples in stage III-IV and five samples in the control group were analyzed. Hierarchical cluster analysis and principal component analysis were performed as the chemometric method. A total of ten observable peaks were detected in the absorbance spectra of samples. The peaks at 1450 and 1405 cm-1 originating from lipids and proteins significantly increased in the stage III-IV endometriosis group when compared with controls. In addition, nucleic acid/carbohydrate ratio was significantly lower in the stage I-II group indicating that the alteration of the carbohydrate level might be important. CONCLUSIONS Examination of cervical swab with FTIR spectroscopy might be a proper candidate for a non-invasive diagnostic approach of endometriosis.
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Affiliation(s)
- Gurkan Bozdag
- Department of Obstetrics and Gynecology, Faculty of Medicine, Hacettepe University, Sihhiye, 06100, Ankara, Turkey.
| | - Nasit Igci
- Department of Molecular Biology and Genetics, Faculty of Sciences and Arts, Nevsehir Haci Bektas Veli University, Nevsehir, Turkey
- Biotechnology Institute, Ankara University, Ankara, Turkey
| | - Pinar Calis
- Department of Obstetrics and Gynecology, Faculty of Medicine, Hacettepe University, Sihhiye, 06100, Ankara, Turkey
| | - Beycan Ayhan
- Biotechnology Institute, Ankara University, Ankara, Turkey
| | - Duygu Ozel Demiralp
- Biotechnology Institute, Ankara University, Ankara, Turkey
- Department of Biomedical Engineering, Faculty of Engineering, Ankara University, Ankara, Turkey
| | - Sezcan Mumusoglu
- Department of Obstetrics and Gynecology, Faculty of Medicine, Hacettepe University, Sihhiye, 06100, Ankara, Turkey
| | - Hakan Yarali
- Department of Obstetrics and Gynecology, Faculty of Medicine, Hacettepe University, Sihhiye, 06100, Ankara, Turkey
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Hsu SH, Yu A, Yeh CA, Sun WS, Lin SZ, Fu RH, Hsieh HH, Wu PY, Hung HS. Biocompatible Nanogold Carrier Coated with Hyaluronic Acid for Efficient Delivery of Plasmid or siRNA to Mesenchymal Stem Cells. ACS APPLIED BIO MATERIALS 2019; 2:1017-1030. [PMID: 35021392 DOI: 10.1021/acsabm.8b00540] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Shan-hui Hsu
- Institute of Polymer Science and Engineering, National Taiwan University, Taipei 10617, Taiwan, R.O.C
| | - Alex Yu
- Department of Acute and Critical Care, Chang-Hua Hospital, Ministry of Health and Welfare, Changhua 51341, Taiwan, R.O.C
- School of Medicine, China Medical University Hospital, Taichung 40447, Taiwan, R.O.C
| | - Chun-An Yeh
- Graduate Institute of Biomedical Science, China Medical University, Taichung 40402, Taiwan, R.O.C
| | - Wei-Shen Sun
- Graduate Institute of Biomedical Science, China Medical University, Taichung 40402, Taiwan, R.O.C
| | - Shinn-Zong Lin
- Center for Neuropsychiatry, China Medical University Hospital, Taichung 40447, Taiwan, R.O.C
| | - Ru-Huei Fu
- Graduate Institute of Biomedical Science, China Medical University, Taichung 40402, Taiwan, R.O.C
- Translational Medicine Research, China Medical University Hospital, Taichung 40447, Taiwan, R.O.C
| | - Hsien-Hsu Hsieh
- Blood Bank, Taichung Veterans General Hospital, Taichung 40705, Taiwan, R.O.C
| | - Po-Yuan Wu
- Department of Dermatology, China Medical University Hospital, Taichung 40447, Taiwan, R.O.C
| | - Huey-Shan Hung
- Graduate Institute of Biomedical Science, China Medical University, Taichung 40402, Taiwan, R.O.C
- Translational Medicine Research, China Medical University Hospital, Taichung 40447, Taiwan, R.O.C
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26
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Aboualizadeh E, Ranji M, Sorenson CM, Sepehr R, Sheibani N, Hirschmugl CJ. Retinal oxidative stress at the onset of diabetes determined by synchrotron FTIR widefield imaging: towards diabetes pathogenesis. Analyst 2018; 142:1061-1072. [PMID: 28210739 DOI: 10.1039/c6an02603f] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Diabetic retinopathy is a microvascular complication of diabetes that can lead to blindness. In the present study, we aimed to determine the nature of diabetes-induced, highly localized biochemical changes in the neuroretina at the onset of diabetes. High-resolution synchrotron Fourier transform infrared (s-FTIR) wide field microscopy coupled with multivariate analysis (PCA-LDA) was employed to identify biomarkers of diabetic retinopathy with spatial resolution at the cellular level. We compared the retinal tissue prepared from 6-week-old Ins2Akita/+ heterozygous (Akita/+, N = 6; a model of diabetes) male mice with the wild-type (control, N = 6) mice. Male Akita/+ mice become diabetic at 4-weeks of age. Significant differences (P < 0.001) in the presence of biomarkers associated with diabetes and segregation of spectra were achieved. Differentiating IR bands attributed to nucleic acids (964, 1051, 1087, 1226 and 1710 cm-1), proteins (1662 and 1608 cm-1) and fatty acids (2854, 2923, 2956 and 3012 cm-1) were observed between the Akita/+ and the WT samples. A comparison between distinctive layers of the retina, namely the photoreceptor retinal layer (PRL), outer plexiform layer (OPL), inner nucleus layer (INL) and inner plexiform layer (IPL) suggested that the photoreceptor layer is the most susceptible layer to oxidative stress in short-term diabetes. Spatially-resolved chemical images indicated heterogeneities and oxidative-stress induced alterations in the diabetic retina tissue morphology compared with the WT retina. In this study, the spectral biomarkers and the spatial biochemical alterations in the diabetic retina and in specific layers were identified for the first time. We believe that the conclusions drawn from these studies will help to bridge the gap in our understanding of the molecular and cellular mechanisms that contribute to the pathobiology of diabetic retinopathy.
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Affiliation(s)
| | - Mahsa Ranji
- Biophotonics Laboratory, University of Wisconsin-Milwaukee, Milwaukee, USA
| | | | - Reyhaneh Sepehr
- Biophotonics Laboratory, University of Wisconsin-Milwaukee, Milwaukee, USA
| | - Nader Sheibani
- Department of Ophthalmology and Visual Sciences, University of Wisconsin-Madison, Madison, USA
| | - Carol J Hirschmugl
- Department of Physics, University of Wisconsin-Milwaukee, Milwaukee, USA.
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27
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Pilch E, Musiał W. Selected Physicochemical Properties of Lyophilized Hydrogel with Liposomal Fraction of Calcium Dobesilate. MATERIALS (BASEL, SWITZERLAND) 2018; 11:E2143. [PMID: 30384418 PMCID: PMC6266848 DOI: 10.3390/ma11112143] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/25/2018] [Revised: 10/14/2018] [Accepted: 10/29/2018] [Indexed: 12/31/2022]
Abstract
Lyophilization is the process of drying and improving the stability of various pharmaceutical preparations. In this work we evaluated the properties of 11 hydrophilic gels calcium dobesilate with liposomes based on soybean lecithin, subjected to the freeze-drying procedure. Liposomes were produced by using method thin lipid film. Lyophilization was carried out under conditions of temperature equal (-30 °C) and pressure 0.37 mbar. We evaluated the preparations with dynamic light scattering (DLS) method, optical microscopy and Fourier-transform infrared spectroscopy (FTIR). In this work we presented the average results for the particle diameter in the sample and PDI (polydispersity index) value for the samples that produced the results. When testing using the DLS method on a Malvern Zetaseizer, results for 7 samples were not obtained. Two of next four samples were characterized by an increased size of the liposome particle resulting from a lower concentration of ethanol compared to the rest of them. Three samples under the microscope did not show any differences. It was possible only to see single crystals probably of undissolved calcium dobesilate. Some clusters were observed in the 4 samples, and when they appeared they were very small. The aggregates and irregular liposomes present in the rest of the samples may have been formed due to the destabilizing activity of ethanol towards lipid membranes. In the FTIR spectrum for MC, the peak was observed at the wavenumber of ca. 2900 cm-1 and of about 1050 cm-1. In case of pure calcium dobesilate we observed low pick at the wavenumber of about 3400 cm-1. The spectrum has a low peak at the wavenumber of 1450 cm-1 and intense peaks ranging from approx. 1000 cm-1 to approx. 1200 cm-1. Decay of the lecithin peak in formulations with liposomes at 1725 cm-1 wavelength may indicate the occurrence of the hydrolysis reaction in the system. Probably there was a hydrolysis of the ester bond connecting the rest of the phosphoric acid and the choline with the glycerol residue.
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Affiliation(s)
- Ewa Pilch
- Department of Physical Chemistry, Pharmaceutical Faculty, Wroclaw Medical University, Borowska 211, 50-556 Wroclaw, Poland.
| | - Witold Musiał
- Department of Physical Chemistry, Pharmaceutical Faculty, Wroclaw Medical University, Borowska 211, 50-556 Wroclaw, Poland.
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28
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Kim EC, Lee DY, Lee MH, Lee HJ, Kim KH, Leesungbok R, Ahn SJ, Park SJ, Yoon JH, Jee YJ, Lee SC, Lee SW. The Effect of Fibronectin-Immobilized Microgrooved Titanium Substrata on Cell Proliferation and Expression of Genes and Proteins in Human Gingival Fibroblasts. Tissue Eng Regen Med 2018; 15:615-627. [PMID: 30603583 DOI: 10.1007/s13770-018-0153-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2018] [Revised: 07/27/2018] [Accepted: 07/30/2018] [Indexed: 11/24/2022] Open
Abstract
Background We aimed to determine the effect of fibronectin (FN)-immobilized microgrooved titanium (Ti) on human gingival fibroblast proliferation, gene expression and protein expression. Methods Photolithography was used to fabricate the microgrooved Ti, and amine funtionalization (silanization) was used for FN immobilization on titanium surfaces. Cell proliferation, gene expression and protein expression were analyzed, followed by multiple regression analysis for determining the influential factors on cell proliferation. Results FN-immobilized microgrooved Ti significantly enhanced the fibroblast proliferation in various timelines of culture, among which a burst of fivefold increase is induced at 96 h of culture compared to that on the control smooth Ti. We suggest a presence of the synergistic promotion effect of microgrooves and FN immobilization on fibroblast proliferation. Through a series of analyses on the expression of various genes and proteins involved in cell adhesion and proliferation, cyclin-dependent kinase 6, cyclin D1, integrin α5, oncogene c-Src, osteonectin, paxillin and talin-2 were determined as influential factors on promoting fibroblast proliferation induced by FN-immobilized microgrooved Ti. Conclusion FN-immobilized microgrooved Ti can act as an effective surface for enhancing fibroblast proliferation, and can be used for promoting soft tissue response on the connective tissue attachment zone of biomaterial surfaces.
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Affiliation(s)
- Eun-Cheol Kim
- 1Department of Oral and Maxillofacial Pathology and Institute of Oral Biology, School of Dentistry, Kyung Hee University, 26 Kyungheedae-ro, Dongdaemun-gu, Seoul, 02447 Republic of Korea
| | - Do Yun Lee
- Doctorplant Dental Clinic, 885 Gyeongin-ro, Yeongdeungpo-gu, Seoul, 07303 Republic of Korea
| | - Myung-Hyun Lee
- 3Energy and Environmental Division, Korea Institute of Ceramic Engineering and Technology, 101 Soho-ro, Jinju-si, Gyeongsangnam-do, 52851 Republic of Korea
| | - Hong Jae Lee
- 4Department of Maxillofacial Biomedical Engineering and Institute of Oral Biology, School of Dentistry, Kyung Hee University, 26 Kyungheedae-ro, Dongdaemun-gu, Seoul, 02447 Republic of Korea
| | - Kyung-Hee Kim
- 5Core Research Laboratory, Clinical Research Institute, Kyung Hee University Hospital at Gangdong, 892 Dongnam-ro, Gangdong-gu, Seoul, 05278 Republic of Korea
| | - Richard Leesungbok
- 6Department of Biomaterials and Prosthodontics, Kyung Hee University Hospital at Gangdong, Institute of Oral Biology, School of Dentistry, Kyung Hee University, 892 Dongnam-ro, Gangdong-gu, Seoul, 05278 Republic of Korea
| | - Su-Jin Ahn
- 6Department of Biomaterials and Prosthodontics, Kyung Hee University Hospital at Gangdong, Institute of Oral Biology, School of Dentistry, Kyung Hee University, 892 Dongnam-ro, Gangdong-gu, Seoul, 05278 Republic of Korea
| | - Su-Jung Park
- 7Department of Prosthodontics, Dankook University Sejong Dental Hospital, 87 Doum 8-ro, Sejong, 30107 Republic of Korea
| | - Joon-Ho Yoon
- 8Department of Dentistry, National Health Insurance Medical Center Ilsan Hospital, 100 Ilsan-ro, Ilsandong-gu, Goyang-si, Gyeonggi-do, 10444 Republic of Korea
| | - Yu-Jin Jee
- 9Department of Oral and Maxillofacial Surgery, Kyung Hee University Hospital at Gangdong, Institute of Oral Biology, School of Dentistry, Kyung Hee University, 892 Dongnam-ro, Gangdong-gu, Seoul, 05278 Republic of Korea
| | - Sang Cheon Lee
- 4Department of Maxillofacial Biomedical Engineering and Institute of Oral Biology, School of Dentistry, Kyung Hee University, 26 Kyungheedae-ro, Dongdaemun-gu, Seoul, 02447 Republic of Korea
| | - Suk Won Lee
- 6Department of Biomaterials and Prosthodontics, Kyung Hee University Hospital at Gangdong, Institute of Oral Biology, School of Dentistry, Kyung Hee University, 892 Dongnam-ro, Gangdong-gu, Seoul, 05278 Republic of Korea
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29
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Li Y, Cope HA, Rahman SM, Li G, Nielsen PH, Elfick A, Gu AZ. Toward Better Understanding of EBPR Systems via Linking Raman-Based Phenotypic Profiling with Phylogenetic Diversity. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2018; 52:8596-8606. [PMID: 29943965 DOI: 10.1021/acs.est.8b01388] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
This study reports a proof-of concept study to demonstrate the novel approach of phenotyping microbial communities in enhanced biological phosphorus removal (EBPR) systems using single cell Raman microspectroscopy and link it with phylogentic structures. We use hierarchical clustering analysis (HCA) of single-cell Raman spectral fingerprints and intracellular polymer signatures to separate and classify the functionally relevant populations in EBPR systems, namely polyphosphate accumulating organisms (PAOs) and glycogen accumulating organisms (GAOs), as well as other microbial populations. We then investigated the link between Raman-based community phenotyping and 16S rRNA gene-based phylogenetic characterization of four lab-scale EBPR systems with varying solid retention time (SRT) to gain insights into possible genotype-function relationships. Combined and simultaneous phylogenetic and phenotypic evaluation of EBPR ecosystems revealed SRT-dependent phylogenetic and phenotypic characteristics of the PAOs and GAOs, and their association with EBPR performance. The phenotypic diversity and plasticity of PAO populations, which otherwise could not be obtained with phylogenetic analysis alone, showed complex but potentially crucial association with EBPR process stability.
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Affiliation(s)
- Yueyun Li
- Civil and Environmental Engineering Department , Northeastern University , Boston , Massachusetts 02115 , United States
| | - Helen A Cope
- School of Engineering, Institute for Bioengineering , The University of Edinburgh , Edinburgh , U.K
| | - Sheikh M Rahman
- Civil and Environmental Engineering Department , Northeastern University , Boston , Massachusetts 02115 , United States
| | - Guangyu Li
- Civil and Environmental Engineering Department , Northeastern University , Boston , Massachusetts 02115 , United States
| | - Per Halkjær Nielsen
- Center for Microbial Communities, Department of Chemistry and Bioscience , Aalborg University , Aalborg , Denmark
| | - Alistair Elfick
- School of Engineering, Institute for Bioengineering , The University of Edinburgh , Edinburgh , U.K
| | - April Z Gu
- Civil and Environmental Engineering Department , Northeastern University , Boston , Massachusetts 02115 , United States
- School of Civil and Environmental Engineering , Cornell University , Ithaca , New York 14853 , United States
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30
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Mahmood T, Nawaz H, Ditta A, Majeed MI, Hanif MA, Rashid N, Bhatti HN, Nargis HF, Saleem M, Bonnier F, Byrne HJ. Raman spectral analysis for rapid screening of dengue infection. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 200:136-142. [PMID: 29677500 DOI: 10.1016/j.saa.2018.04.018] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2018] [Revised: 04/02/2018] [Accepted: 04/09/2018] [Indexed: 05/22/2023]
Abstract
Infection with the dengue virus is currently clinically detected according to different biomarkers in human blood plasma, commonly measured by enzyme linked immunosorbent assays, including non-structural proteins (Ns1), immunoglobulin M (IgM) and immunoglobulin G (IgG). However, there is little or no mutual correlation between the biomarkers, as demonstrated in this study by a comparison of their levels in samples from 17 patients. As an alternative, the label free, rapid screening technique, Raman spectroscopy has been used for the characterisation/diagnosis of healthy and dengue infected human blood plasma samples. In dengue positive samples, changes in specific Raman spectral bands associated with lipidic and amino acid/protein content are observed and assigned based on literature and these features can be considered as markers associated with dengue development. Based on the spectroscopic analysis of the current, albeit limited, cohort of samples, Principal Components Analysis (PCA) coupled Factorial Discriminant Analysis, yielded values of 97.95% sensitivity and 95.40% specificity for identification of dengue infection. Furthermore, in a comparison of the normal samples to the patient samples which scored low for only one of the biomarker tests, but high or medium for either or both of the other two, PCA-FDA demonstrated a sensitivity of 97.38% and specificity of 86.18%, thus providing an unambiguous screening technology.
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Affiliation(s)
- T Mahmood
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - H Nawaz
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan.
| | - A Ditta
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - M I Majeed
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - M A Hanif
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - N Rashid
- University of Central Punjab, Faisalabad campus, Faisalabad, Pakistan
| | - H N Bhatti
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - H F Nargis
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - M Saleem
- National Institute of Lasers and Optronics (NILOP), Islamabad, Pakistan
| | - F Bonnier
- EA 6295 Nano-médicaments and nano-sondes, Université François-Rabelais de Tours, Tours, France
| | - H J Byrne
- FOCAS Research Institute, Dublin Institute of Technology, Kevin Street, Dublin 8, Ireland
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31
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Chi Ting Au-Yeung G, Sarig U, Sarig H, Bogireddi H, Bronshtein T, Baruch L, Spizzichino A, Bortman J, Freddy BYC, Machluf M, Venkatraman SS. Restoring the biophysical properties of decellularized patches through recellularization. Biomater Sci 2018; 5:1183-1194. [PMID: 28513656 DOI: 10.1039/c7bm00208d] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Various extracellular matrix (ECM) scaffolds, isolated through decellularization, were suggested as ideal biomimetic materials for 'Functional tissue engineering' (FTE). The decellularization process comprises a compromise between damaging and preserving the ultrastructure and composition of ECM-previously shown to affect cell survival, proliferation, migration, organization, differentiation and maturation. Inversely, the effects of cells on the ECM constructs' biophysical properties, under physiological-like conditions, remain still largely unknown. We hypothesized that by re-cellularizing porcine cardiac ECM (pcECM, as a model scaffold) some of the original biophysical properties of the myocardial tissue can be restored, which are related to the scaffold's surface and the bulk modifications consequent to cellularization. We performed a systematic biophysical assessment of pcECM scaffolds seeded with human mesenchymal stem cells (MSCs), a common multipotent cell source in cardiac regenerative medicine. We report a new type of FTE study in which cell interactions with a composite-scaffold were evaluated from the perspective of their contribution to the biophysical properties of the construct surface (FTIR, WETSEM™) and bulk (DSC, TGA, and mechanical testing). The results obtained were compared with acellular pcECM and native ventricular tissue serving as negative and positive controls, respectively. MSC recellularization resulted in an inter-fiber plasticization effect, increased protein density, masking of acylated glycosaminoglycans (GAGs) and active pcECM remodelling which further stabilized the reseeded construct and increased its denaturation resistance. The systematic approach presented herein, therefore, identifies cells as "biological plasticizers" and yields important methodologies, understanding, and data serving both as a reference as well as possible 'design criteria' for future studies in FTE.
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Affiliation(s)
- Gigi Chi Ting Au-Yeung
- NTU-Technion Biomedical labs, School of Materials and Science Engineering, Nanyang Technological University, Singapore.
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Meade AD, Maguire A, Bryant J, Cullen D, Medipally D, White L, McClean B, Shields L, Armstrong J, Dunne M, Noone E, Bradshaw S, Finn M, Shannon AM, Howe O, Lyng FM. Prediction of DNA damage and G2 chromosomal radio-sensitivity ex vivo in peripheral blood mononuclear cells with label-free Raman micro-spectroscopy. Int J Radiat Biol 2018. [DOI: 10.1080/09553002.2018.1451006] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- Aidan D. Meade
- School of Physics, Dublin Institute of Technology, Dublin, Ireland
- DIT Centre for Radiation and Environmental Science, Focas Research Institute, Dublin Institute of Technology, Dublin, Ireland
| | - Adrian Maguire
- School of Physics, Dublin Institute of Technology, Dublin, Ireland
- DIT Centre for Radiation and Environmental Science, Focas Research Institute, Dublin Institute of Technology, Dublin, Ireland
| | - Jane Bryant
- DIT Centre for Radiation and Environmental Science, Focas Research Institute, Dublin Institute of Technology, Dublin, Ireland
| | - Daniel Cullen
- DIT Centre for Radiation and Environmental Science, Focas Research Institute, Dublin Institute of Technology, Dublin, Ireland
- School of Biological Sciences, Dublin Institute of Technology, Dublin, Ireland
| | - Dinesh Medipally
- DIT Centre for Radiation and Environmental Science, Focas Research Institute, Dublin Institute of Technology, Dublin, Ireland
- School of Biological Sciences, Dublin Institute of Technology, Dublin, Ireland
| | - Lisa White
- DIT Centre for Radiation and Environmental Science, Focas Research Institute, Dublin Institute of Technology, Dublin, Ireland
- School of Biological Sciences, Dublin Institute of Technology, Dublin, Ireland
| | - Brendan McClean
- Department of Medical Physics, Saint Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - Laura Shields
- Department of Medical Physics, Saint Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - John Armstrong
- Department of Radiation Oncology, Saint Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
- Cancer Trials Ireland, Dublin, Ireland
| | - Mary Dunne
- Department of Radiation Oncology, Saint Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - Emma Noone
- Department of Radiation Oncology, Saint Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - Shirley Bradshaw
- Department of Radiation Oncology, Saint Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | - Marie Finn
- Department of Radiation Oncology, Saint Luke's Radiation Oncology Network, St Luke's Hospital, Dublin, Ireland
| | | | - Orla Howe
- DIT Centre for Radiation and Environmental Science, Focas Research Institute, Dublin Institute of Technology, Dublin, Ireland
- School of Biological Sciences, Dublin Institute of Technology, Dublin, Ireland
| | - Fiona M. Lyng
- School of Physics, Dublin Institute of Technology, Dublin, Ireland
- DIT Centre for Radiation and Environmental Science, Focas Research Institute, Dublin Institute of Technology, Dublin, Ireland
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Temporal diabetes-induced biochemical changes in distinctive layers of mouse retina. Sci Rep 2018; 8:1096. [PMID: 29348593 PMCID: PMC5773523 DOI: 10.1038/s41598-018-19425-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2017] [Accepted: 11/20/2017] [Indexed: 02/08/2023] Open
Abstract
To discover the mechanisms underlying the progression of diabetic retinopathy (DR), a more comprehensive understanding of the biomolecular processes in individual retinal cells subjected to hyperglycemia is required. Despite extensive studies, the changes in the biochemistry of retinal layers during the development of DR are not well known. In this study, we aimed to determine a more detailed understanding of the natural history of DR in Akita/+ (type 1 diabetes model) male mice with different duration of diabetes. Employing label-free spatially resolved Fourier transform infrared (FT-IR) chemical imaging engaged with multivariate analysis enabled us to identify temporal-dependent reproducible biomarkers of the individual retinal layers from mice with 6 weeks,12 weeks, 6 months, and 10 months of age. We report, for the first time, the nature of the biochemical alterations over time in the biochemistry of distinctive retinal layers namely photoreceptor retinal layer (PRL), inner nuclear layer (INL), and plexiform layers (OPL, IPL). Moreover, we present the molecular factors associated with the changes in the protein structure and cellular lipids of retinal layers induced by different duration of diabetes. Our paradigm provides a new conceptual framework for a better understanding of the temporal cellular changes underlying the progression of DR.
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Baker MJ, Byrne HJ, Chalmers J, Gardner P, Goodacre R, Henderson A, Kazarian SG, Martin FL, Moger J, Stone N, Sulé-Suso J. Clinical applications of infrared and Raman spectroscopy: state of play and future challenges. Analyst 2018; 143:1735-1757. [DOI: 10.1039/c7an01871a] [Citation(s) in RCA: 128] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
This review examines the state-of-the-art of clinical applications of infrared absorption and Raman spectroscopy, outstanding challenges, and progress towards translation.
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Affiliation(s)
- Matthew J. Baker
- WestCHEM
- Technology and Innovation Centre
- Department of Pure and Applied Chemistry
- University of Strathclyde
- Glasgow G1 1RD
| | - Hugh J. Byrne
- FOCAS Research Institute
- Dublin Institute of Technology
- Dublin 8
- Ireland
| | | | - Peter Gardner
- Manchester Institute of Biotechnology (MIB)
- University of Manchester
- Manchester
- UK
| | - Royston Goodacre
- Manchester Institute of Biotechnology (MIB)
- University of Manchester
- Manchester
- UK
| | - Alex Henderson
- Manchester Institute of Biotechnology (MIB)
- University of Manchester
- Manchester
- UK
| | - Sergei G. Kazarian
- Department of Chemical Engineering
- Imperial College London
- South Kensington Campus
- London
- UK
| | - Francis L. Martin
- School of Pharmacy and Biomedical Sciences
- University of Central Lancashire
- Preston PR1 2HE
- UK
| | - Julian Moger
- Biomedical Physics
- School of Physics and Astronomy
- University of Exeter
- Exeter EX4 4QL
- UK
| | - Nick Stone
- Biomedical Physics
- School of Physics and Astronomy
- University of Exeter
- Exeter EX4 4QL
- UK
| | - Josep Sulé-Suso
- Institute for Science and Technology in Medicine
- Keele University
- Guy Hilton Research Centre
- Stoke on Trent ST4 7QB
- UK
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Study of SH-SY5Y Cancer Cell Response to Treatment with Polyphenol Extracts Using FT-IR Spectroscopy. BIOSENSORS-BASEL 2017; 7:bios7040057. [PMID: 29189759 PMCID: PMC5746780 DOI: 10.3390/bios7040057] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Revised: 11/28/2017] [Accepted: 11/28/2017] [Indexed: 12/17/2022]
Abstract
Plant polyphenols are important components of human diet and a number of them are considered to possess chemo-preventive and therapeutic properties against cancer. They are recognized as naturally occurring antioxidants, but also as pro-oxidant, pro-apoptotic, or chromosomal aberrations inducers, depending on their concentration and/or the stage of cell-cycle of the cells with which they interact. For these reasons, particular interest is devoted to knowing the total effects of polyphenols on the cell cycle and metabolism. Fourier-Transform Infrared (FT-IR) spectroscopy thanks to its ability in analyzing cells at a molecular level can be particularly useful in investigating the biochemical changes induced in protein, nucleic acid, lipid, and carbohydrate content of cells by means of polyphenols administration. Spectroscopic analysis was performed on in vitro human SH-SY5Y neuroblastoma cells that were exposed to different doses of a cherry derived polyphenol extract. The infrared spectra that were obtained from unexposed and exposed cells show significant differences that can be helpful in order to understand the cells-polyphenols interaction.
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Lee BJ, Kim HY, Lim SR, Huang L, Choi HK. Discrimination and prediction of cultivation age and parts of Panax ginseng by Fourier-transform infrared spectroscopy combined with multivariate statistical analysis. PLoS One 2017; 12:e0186664. [PMID: 29049369 PMCID: PMC5648215 DOI: 10.1371/journal.pone.0186664] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2017] [Accepted: 10/05/2017] [Indexed: 01/13/2023] Open
Abstract
Panax ginseng C.A. Meyer is a herb used for medicinal purposes, and its discrimination according to cultivation age has been an important and practical issue. This study employed Fourier-transform infrared (FT-IR) spectroscopy with multivariate statistical analysis to obtain a prediction model for discriminating cultivation ages (5 and 6 years) and three different parts (rhizome, tap root, and lateral root) of P. ginseng. The optimal partial-least-squares regression (PLSR) models for discriminating ginseng samples were determined by selecting normalization methods, number of partial-least-squares (PLS) components, and variable influence on projection (VIP) cutoff values. The best prediction model for discriminating 5- and 6-year-old ginseng was developed using tap root, vector normalization applied after the second differentiation, one PLS component, and a VIP cutoff of 1.0 (based on the lowest root-mean-square error of prediction value). In addition, for discriminating among the three parts of P. ginseng, optimized PLSR models were established using data sets obtained from vector normalization, two PLS components, and VIP cutoff values of 1.5 (for 5-year-old ginseng) and 1.3 (for 6-year-old ginseng). To our knowledge, this is the first study to provide a novel strategy for rapidly discriminating the cultivation ages and parts of P. ginseng using FT-IR by selected normalization methods, number of PLS components, and VIP cutoff values.
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Affiliation(s)
- Byeong-Ju Lee
- Bio-Integration Research Center for Nutra-Pharmaceutical Epigenetics, College of Pharmacy, Chung-Ang University, Seoul, Republic of Korea
| | - Hye-Youn Kim
- Bio-Integration Research Center for Nutra-Pharmaceutical Epigenetics, College of Pharmacy, Chung-Ang University, Seoul, Republic of Korea
| | - Sa Rang Lim
- Bio-Integration Research Center for Nutra-Pharmaceutical Epigenetics, College of Pharmacy, Chung-Ang University, Seoul, Republic of Korea
| | - Linfang Huang
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Peking Union Medical College, Beijing, China
| | - Hyung-Kyoon Choi
- Bio-Integration Research Center for Nutra-Pharmaceutical Epigenetics, College of Pharmacy, Chung-Ang University, Seoul, Republic of Korea
- * E-mail:
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37
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Elastic and inelastic light scattering spectroscopy and its possible use for label-free brain tumor typing. Anal Bioanal Chem 2017; 409:6613-6623. [PMID: 28918486 DOI: 10.1007/s00216-017-0614-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2017] [Revised: 07/21/2017] [Accepted: 08/30/2017] [Indexed: 10/18/2022]
Abstract
This paper presents an approach for label-free brain tumor tissue typing. For this application, our dual modality microspectroscopy system combines inelastic Raman scattering spectroscopy and Mie elastic light scattering spectroscopy. The system enables marker-free biomedical diagnostics and records both the chemical and morphologic changes of tissues on a cellular and subcellular level. The system setup is described and the suitability for measuring morphologic features is investigated. Graphical Abstract Bimodal approach for label-free brain tumor typing. Elastic and inelastic light scattering spectra are collected laterally resolved in one measurement setup. The spectra are investigated by multivariate data analysis for assigning the tissues to specific WHO grades according to their malignancy.
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Zafari J, Jouni FJ, Ahmadvand A, Abdolmaleki P, Soodi M, Zendehdel R. Investigation of gene expressions in differentiated cell derived bone marrow stem cells during bone morphogenetic protein-4 treatments with Fourier transform infrared spectroscopy. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2017; 173:695-703. [PMID: 27780130 DOI: 10.1016/j.saa.2016.10.015] [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: 06/27/2015] [Revised: 09/17/2016] [Accepted: 10/16/2016] [Indexed: 06/06/2023]
Abstract
A model was set up to predict the differentiation patterns based on the data extracted from FTIR spectroscopy. For this reason, bone marrow stem cells (BMSCs) were differentiated to primordial germ cells (PGCs). Changes in cellular macromolecules in the time of 0, 24, 48, 72, and 96h of differentiation, as different steps of the differentiation procedure were investigated by using FTIR spectroscopy. Also, the expression of pluripotency (Oct-4, Nanog and c-Myc) and specific genes (Mvh, Stella and Fragilis) were investigated by real-time PCR. However, the expression of genes in five steps of differentiation was predicted by FTIR spectroscopy. FTIR spectra showed changes in the template of band intensities at different differentiation steps. There are increasing changes in the stepwise differentiation procedure for the ratio area of CH2, which is symmetric to CH2 asymmetric stretching. An ensemble of expert methods, including regression tree (RT), boosting algorithm (BA), and generalized regression neural network (GRNN), was the best method to predict the gene expression by FTIR spectroscopy. In conclusion, the model was able to distinguish the pattern of different steps from cell differentiation by using some useful features extracted from FTIR spectra.
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Affiliation(s)
- Jaber Zafari
- Department of Toxicology and Pharmacology, Faculty of Pharmacy, Ahvaz Jundishapur University of Medical Sciences, Ahvaz, Iran.
| | - Fatemeh Javani Jouni
- Department of Microbiology, Islamic Azad University, Tehran North Branch, Tehran, Iran.
| | - Ali Ahmadvand
- Computer Science and Informatics Department, EMORY University School of Medicine, Atlanta, GA, USA.
| | - Parviz Abdolmaleki
- Department of Microbiology, Islamic Azad University, Tehran North Branch, Tehran, Iran.
| | - Malihe Soodi
- Department of Toxicology, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran.
| | - Rezvan Zendehdel
- Environmental and Occupational Hazards control Research Center, Shahid Beheshti University of Medical Sciences, Tehran, Iran; Department of Occupational Hygiene, School of Public Health, Shahid Beheshti University, Tehran, Iran..
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39
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Smith SJ, Emery R, Pitsillides A, Clarkin CE, Mahajan S. Detection of early osteogenic commitment in primary cells using Raman spectroscopy. Analyst 2017; 142:1962-1973. [DOI: 10.1039/c6an02469f] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Raman spectroscopy as a simple and sensitive method to measure early osteogenic responses in primary cultures of bone cells is presented.
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Affiliation(s)
| | - Roger Emery
- Division of Surgery
- Reproductive Biology and Anaesthetics
- Imperial College London
- UK
| | | | | | - Sumeet Mahajan
- Department of Chemistry and the Institute for Life Sciences
- University of Southampton
- UK
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40
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Jurowski K, Kochan K, Walczak J, Barańska M, Piekoszewski W, Buszewski B. Comprehensive review of trends and analytical strategies applied for biological samples preparation and storage in modern medical lipidomics: State of the art. Trends Analyt Chem 2017. [DOI: 10.1016/j.trac.2016.10.014] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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Hands JR, Clemens G, Stables R, Ashton K, Brodbelt A, Davis C, Dawson TP, Jenkinson MD, Lea RW, Walker C, Baker MJ. Brain tumour differentiation: rapid stratified serum diagnostics via attenuated total reflection Fourier-transform infrared spectroscopy. J Neurooncol 2016; 127:463-72. [PMID: 26874961 PMCID: PMC4835510 DOI: 10.1007/s11060-016-2060-x] [Citation(s) in RCA: 93] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2015] [Accepted: 01/22/2016] [Indexed: 01/07/2023]
Abstract
The ability to diagnose cancer rapidly with high sensitivity and specificity is essential to exploit advances in new treatments to lead significant reductions in mortality and morbidity. Current cancer diagnostic tests observing tissue architecture and specific protein expression for specific cancers suffer from inter-observer variability, poor detection rates and occur when the patient is symptomatic. A new method for the detection of cancer using 1 μl of human serum, attenuated total reflection-Fourier transform infrared spectroscopy and pattern recognition algorithms is reported using a 433 patient dataset (3897 spectra). To the best of our knowledge, we present the largest study on serum mid-infrared spectroscopy for cancer research. We achieve optimum sensitivities and specificities using a Radial Basis Function Support Vector Machine of between 80.0 and 100 % for all strata and identify the major spectral features, hence biochemical components, responsible for the discrimination within each stratum. We assess feature fed-SVM analysis for our cancer versus non-cancer model and achieve 91.5 and 83.0 % sensitivity and specificity respectively. We demonstrate the use of infrared light to provide a spectral signature from human serum to detect, for the first time, cancer versus non-cancer, metastatic cancer versus organ confined, brain cancer severity and the organ of origin of metastatic disease from the same sample enabling stratified diagnostics depending upon the clinical question asked.
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Affiliation(s)
- James R Hands
- WestCHEM, Department of Pure and Applied Chemistry, Technology and Innovation Centre, University of Strathclyde, 99 George Street, Glasgow, G11RD, UK
| | - Graeme Clemens
- WestCHEM, Department of Pure and Applied Chemistry, Technology and Innovation Centre, University of Strathclyde, 99 George Street, Glasgow, G11RD, UK
- Centre for Materials Science, Division of Chemistry, University of Central Lancashire, Preston, PR12HE, UK
| | - Ryan Stables
- Digital Media Technology Laboratory, Millennium Point, City Centre Campus Birmingham City University, West Midlands, B47XG, UK
| | - Katherine Ashton
- Neuropathology, Lancashire Teaching Hospitals NHS Trust, Royal Preston Hospital, Sharoe Green Lane North, Preston, PR29HT, UK
| | - Andrew Brodbelt
- The Walton Centre for Neurology and Neurosurgery, The Walton Centre NHS Trust, Lower Lane, Liverpool, L97LJ, UK
| | - Charles Davis
- Neuropathology, Lancashire Teaching Hospitals NHS Trust, Royal Preston Hospital, Sharoe Green Lane North, Preston, PR29HT, UK
| | - Timothy P Dawson
- Neuropathology, Lancashire Teaching Hospitals NHS Trust, Royal Preston Hospital, Sharoe Green Lane North, Preston, PR29HT, UK
| | - Michael D Jenkinson
- The Walton Centre for Neurology and Neurosurgery, The Walton Centre NHS Trust, Lower Lane, Liverpool, L97LJ, UK
| | - Robert W Lea
- School of Pharmacy and Biomedical Sciences, Maudland Building, University of Central Lancashire, Preston, PR12HE, UK
| | - Carol Walker
- The Walton Centre for Neurology and Neurosurgery, The Walton Centre NHS Trust, Lower Lane, Liverpool, L97LJ, UK
| | - Matthew J Baker
- WestCHEM, Department of Pure and Applied Chemistry, Technology and Innovation Centre, University of Strathclyde, 99 George Street, Glasgow, G11RD, UK.
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Meade AD, Howe O, Unterreiner V, Sockalingum GD, Byrne HJ, Lyng FM. Vibrational spectroscopy in sensing radiobiological effects: analyses of targeted and non-targeted effects in human keratinocytes. Faraday Discuss 2016; 187:213-34. [DOI: 10.1039/c5fd00208g] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Modern models of radiobiological effects include mechanisms of damage initiation, sensing and repair, for those cells that directly absorb ionizing radiation as well as those that experience molecular signals from directly irradiated cells. In the former case, the effects are termed targeted effects while, in the latter, non-targeted effects. It has emerged that phenomena occur at low doses below 1 Gy in directly irradiated cells that are associated with cell-cycle-dependent mechanisms of DNA damage sensing and repair. Likewise in non-targeted bystander-irradiated cells the effect saturates at 0.5 Gy. Both effects at these doses challenge the limits of detection of vibrational spectroscopy. In this paper, a study of the sensing of both targeted and non-targeted effects in HaCaT human keratinocytes irradiated with gamma ray photons is conducted with vibrational spectroscopy. In the case of directly irradiated cells, it is shown that the HaCaT cell line does exhibit both hyperradiosensitivity and increased radioresistance at low doses, a transition between the two effects occurring at a dose of 200 mGy, and that cell survival and other physiological effects as a function of dose follow the induced repair model. Both Raman and FTIR signatures are shown to follow a similar model, suggesting that the spectra include signatures of DNA damage sensing and repair. In bystander-irradiated cells, pro- and anti-apoptotic signalling and mechanisms of ROS damage were inhibited in the mitogen-activated protein kinase (MAPK) transduction pathway. It is shown that Raman spectral profiles of bystander-irradiated cells are correlated with markers of bystander signalling and molecular transduction. This work demonstrates for the first time that both targeted and non-targeted effects of ionizing radiation damage are detected by vibrational spectroscopy in vitro.
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Affiliation(s)
- Aidan D. Meade
- School of Physics
- Dublin Institute of Technology
- Dublin 8
- Ireland
- DIT Centre for Radiation and Environmental Science
| | - Orla Howe
- DIT Centre for Radiation and Environmental Science
- Focas Research Institute
- Dublin Institute of Technology
- Dublin 8
- Ireland
| | - Valérie Unterreiner
- Plateforme en Imagerie Cellulaire et Tissulaire (PICT)
- Université de Reims Champagne-Ardenne
- 51095 Reims Cedex
- France
| | - Ganesh D. Sockalingum
- Université de Reims Champagne-Ardenne
- MéDIAN-Biophotonique et Technologies pour la Santé
- UFR de Pharmacie
- 51095 Reims Cedex
- France
| | - Hugh J. Byrne
- Focas Research Institute
- Dublin Institute of Technology
- Dublin 8
- Ireland
| | - Fiona M. Lyng
- School of Physics
- Dublin Institute of Technology
- Dublin 8
- Ireland
- DIT Centre for Radiation and Environmental Science
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Louvet L, Bazin D, Büchel J, Steppan S, Passlick-Deetjen J, Massy ZA. Characterisation of calcium phosphate crystals on calcified human aortic vascular smooth muscle cells and potential role of magnesium. PLoS One 2015; 10:e0115342. [PMID: 25607936 PMCID: PMC4301909 DOI: 10.1371/journal.pone.0115342] [Citation(s) in RCA: 58] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2014] [Accepted: 11/22/2014] [Indexed: 02/02/2023] Open
Abstract
Background Cardiovascular disease including vascular calcification (VC) remains the leading cause of death in patients suffering from chronic kidney disease (CKD). The process of VC seems likely to be a tightly regulated process where vascular smooth muscle cells are playing a key role rather than just a mere passive precipitation of calcium phosphate. Characterisation of the chemical and crystalline structure of VC was mainly led in patients or animal models with CKD. Likewise, Mg2+ was found to be protective in living cells although a potential role for Mg2+ could not be excluded on crystal formation and precipitation. In this study, the crystal formation and the role of Mg2+ were investigated in an in vitro model of primary human aortic vascular smooth muscle cells (HAVSMC) with physical techniques. Methodology/Principal Findings In HAVSMC incubated with increased Ca x Pi medium, only calcium phosphate apatite crystals (CPA) were detected by Micro-Fourier Transform InfraRed spectroscopy (µFTIR) and Field Effect Scanning Electron Microscope (FE — SEM) and Energy Dispersive X-ray spectrometry (EDX) at the cell layer level. Supplementation with Mg2+ did not alter the crystal composition or structure. The crystal deposition was preferentially positioned near or directly on cells as pictured by FE — SEM observations and EDX measurements. Large µFTIR maps revealed spots of CPA crystals that were associated to the cellular layout. This qualitative analysis suggests a potential beneficial effect of Mg2+ at 5 mM in noticeably reducing the number and intensities of CPA µFTIR spots. Conclusions/Significance For the first time in a model of HAVSMC, induced calcification led to the formation of the sole CPA crystals. Our data seems to exclude a physicochemical role of Mg2+ in altering the CPA crystal growth, composition or structure. Furthermore, Mg2+ beneficial role in attenuating VC should be linked to an active cellular role.
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Affiliation(s)
- Loïc Louvet
- INSERM U-1088, Amiens, France
- University of Picardie Jules Verne, Amiens, France
| | - Dominique Bazin
- Université Pierre et Marie Curie, Collège de France, Paris, France
| | - Janine Büchel
- Fresenius Medical Care Deutschland GmbH, Bad Homburg, Germany
| | - Sonja Steppan
- Fresenius Medical Care Deutschland GmbH, Bad Homburg, Germany
| | - Jutta Passlick-Deetjen
- Fresenius Medical Care Deutschland GmbH, Bad Homburg, Germany
- Department of Nephrology, University of Dusseldorf, Dusseldorf, Germany
| | - Ziad A. Massy
- INSERM U-1088, Amiens, France
- University of Picardie Jules Verne, Amiens, France
- Paris Ile de France Ouest (UVSQ) University, Paris, France
- * E-mail:
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44
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Secondary ion mass spectrometry and Raman spectroscopy for tissue engineering applications. Curr Opin Biotechnol 2014; 31:108-16. [PMID: 25462628 DOI: 10.1016/j.copbio.2014.10.011] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2014] [Revised: 10/17/2014] [Accepted: 10/22/2014] [Indexed: 12/28/2022]
Abstract
Identifying the matrix properties that permit directing stem cell fate is crucial for expanding desired cell lineages ex vivo for disease treatment. Such efforts require knowledge of matrix surface chemistry and the cell responses they elicit. Recent progress in analyzing biomaterial composition and identifying cell phenotype with two label-free chemical imaging techniques, TOF-SIMS and Raman spectroscopy are presented. TOF-SIMS is becoming indispensable for the surface characterization of biomaterial scaffolds. Developments in TOF-SIMS data analysis enable correlating surface chemistry with biological response. Advances in the interpretation of Raman spectra permit identifying the fate decisions of individual, living cells with location specificity. Here we highlight this progress and discuss further improvements that would facilitate efforts to develop artificial scaffolds for tissue regeneration.
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Hands JR, Dorling KM, Abel P, Ashton KM, Brodbelt A, Davis C, Dawson T, Jenkinson MD, Lea RW, Walker C, Baker MJ. Attenuated total reflection fourier transform infrared (ATR-FTIR) spectral discrimination of brain tumour severity from serum samples. JOURNAL OF BIOPHOTONICS 2014; 7:189-199. [PMID: 24395599 DOI: 10.1002/jbio.201300149] [Citation(s) in RCA: 87] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2013] [Revised: 11/06/2013] [Accepted: 11/28/2013] [Indexed: 06/03/2023]
Abstract
Gliomas are the most frequent primary brain tumours in adults with over 9,000 people diagnosed each year in the UK. A rapid, reagent-free and cost-effective diagnostic regime using serum spectroscopy would allow for rapid diagnostic results and for swift treatment planning and monitoring within the clinical environment. We report the use of ATR-FTIR spectral data combined with a RBF-SVM for the diagnosis of gliomas (high-grade and low-grade) from non-cancer with sensitivities and specificities on average of 93.75 and 96.53% respectively. The proposed diagnostic regime has the ability to reduce mortality and morbidity rates.
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Affiliation(s)
- James R Hands
- Centre for Materials Science, Division of Chemistry, JB Firth Building, University of Central Lancashire, Preston, PR1 2HE, UK
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Lim L, Nichols B, Migden MR, Rajaram N, Reichenberg JS, Markey MK, Ross MI, Tunnell JW. Clinical study of noninvasive in vivo melanoma and nonmelanoma skin cancers using multimodal spectral diagnosis. JOURNAL OF BIOMEDICAL OPTICS 2014; 19:117003. [PMID: 25375350 PMCID: PMC4222134 DOI: 10.1117/1.jbo.19.11.117003] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/21/2014] [Revised: 09/21/2014] [Accepted: 10/02/2014] [Indexed: 05/22/2023]
Abstract
The goal of this study was to determine the diagnostic capability of a multimodal spectral diagnosis (SD) for in vivo noninvasive disease diagnosis of melanoma and nonmelanoma skin cancers. We acquired reflectance, fluorescence, and Raman spectra from 137 lesions in 76 patients using custom-built optical fiber-based clinical systems. Biopsies of lesions were classified using standard histopathology as malignant melanoma (MM), nonmelanoma pigmented lesion (PL), basal cell carcinoma (BCC), actinic keratosis (AK), and squamous cell carcinoma (SCC). Spectral data were analyzed using principal component analysis. Using multiple diagnostically relevant principal components, we built leave-one-out logistic regression classifiers. Classification results were compared with histopathology of the lesion. Sensitivity/specificity for classifying MM versus PL (12 versus 17 lesions) was 100%/100%, for SCC and BCC versus AK (57 versus 14 lesions) was 95%/71%, and for AK and SCC and BCC versus normal skin (71 versus 71 lesions) was 90%/85%. The best classification for nonmelanoma skin cancers required multiple modalities; however, the best melanoma classification occurred with Raman spectroscopy alone. The high diagnostic accuracy for classifying both melanoma and nonmelanoma skin cancer lesions demonstrates the potential for SD as a clinical diagnostic device.
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Affiliation(s)
- Liang Lim
- University of Texas at Austin, Department of Biomedical Engineering, 107 W. Dean Keeton Street C0800, Austin, Texas 78712, United States
| | - Brandon Nichols
- University of Texas at Austin, Department of Biomedical Engineering, 107 W. Dean Keeton Street C0800, Austin, Texas 78712, United States
| | - Michael R. Migden
- University of Texas MD Anderson Cancer Center, Department of Dermatology, 6655 Travis Street Suite 650, Houston, Texas 77030, United States
| | - Narasimhan Rajaram
- University of Texas at Austin, Department of Biomedical Engineering, 107 W. Dean Keeton Street C0800, Austin, Texas 78712, United States
| | - Jason S. Reichenberg
- University of Texas Southwestern-Austin, Department of Dermatology, 601 E 15th Street, Austin, Texas 78701, United States
| | - Mia K. Markey
- University of Texas at Austin, Department of Biomedical Engineering, 107 W. Dean Keeton Street C0800, Austin, Texas 78712, United States
| | - Merrick I. Ross
- University of Texas MD Anderson Cancer Center, Surgical Oncology, 1400 Pressler Unit #1484, Houston, Texas 77030, United States
| | - James W. Tunnell
- University of Texas at Austin, Department of Biomedical Engineering, 107 W. Dean Keeton Street C0800, Austin, Texas 78712, United States
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Clemens G, Flower KR, Henderson AP, Whiting A, Przyborski SA, Jimenez-Hernandez M, Ball F, Bassan P, Cinque G, Gardner P. The action of all-trans-retinoic acid (ATRA) and synthetic retinoid analogues (EC19 and EC23) on human pluripotent stem cells differentiation investigated using single cell infrared microspectroscopy. MOLECULAR BIOSYSTEMS 2013; 9:677-92. [PMID: 23364809 DOI: 10.1039/c3mb25505k] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
All trans-retinoic acid (ATRA) is widely used to direct the differentiation of cultured stem cells. When exposed to the pluripotent human embryonal carcinoma (EC) stem cell line, TERA2.cl.SP12, ATRA induces ectoderm differentiation and the formation of neuronal cell types. We have previously generated synthetic analogues of retinoic acid (EC23 and EC19) which also induce the differentiation of EC cells. Even though EC23 and EC19 have similar chemical structures, they have differing biochemical effects in terms of EC cell differentiation. EC23 induces neuronal differentiation in a manner similar to ATRA, whereas EC19 directs the cells to form epithelial-like derivatives. Previous MALDI-TOF MS analysis examined the response of TERA2.cl.SP12 cells after exposure to ATRA, EC23 and EC19 and further demonstrated the similarly in the effect of ATRA and EC23 activity whilst responses to EC19 were very different. In this study, we show that Fourier Transform Infrared Micro-Spectroscopy (FT-IRMS) coupled with appropriate scatter correction and multivariate analysis can be used as an effective tool to further investigate the differentiation of human pluripotent stem cells and monitor the alternative affects different retinoid compounds have on the induction of differentiation. FT-IRMS detected differences between cell populations as early as 3 days of compound treatment. Populations of cells treated with different retinoid compounds could easily be distinguished from one another during the early stages of cell differentiation. These data demonstrate that FT-IRMS technology can be used as a sensitive screening technique to monitor the status of the stem cell phenotype and progression of differentiation along alternative pathways in response to different compounds.
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Affiliation(s)
- Graeme Clemens
- Manchester Institute of Biotechnology, Manchester University, 131 Princess Street, Manchester, M1 7DN, UK
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Hands JR, Abel P, Ashton K, Dawson T, Davis C, Lea RW, McIntosh AJS, Baker MJ. Investigating the rapid diagnosis of gliomas from serum samples using infrared spectroscopy and cytokine and angiogenesis factors. Anal Bioanal Chem 2013; 405:7347-55. [DOI: 10.1007/s00216-013-7163-z] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2013] [Revised: 06/17/2013] [Accepted: 06/19/2013] [Indexed: 10/26/2022]
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D'Souza S, Kumar J, Jha SK, Kubal B. Immobilization of the urease on eggshell membrane and its application in biosensor. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2013; 33:850-4. [DOI: 10.1016/j.msec.2012.11.010] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2012] [Revised: 10/24/2012] [Accepted: 11/08/2012] [Indexed: 10/27/2022]
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Abstract
Resilin is critical in the flight and jumping systems of insects as a polymeric rubber-like protein with outstanding elasticity. However, insight into the underlying molecular mechanisms responsible for resilin elasticity remains undefined. Here we report the structure and function of resilin from Drosophila CG15920. A reversible beta-turn transition was identified in the peptide encoded by exon III and for full length resilin during energy input and release, features that correlate to the rapid deformation of resilin during functions in vivo. Micellar structures and nano-porous patterns formed after beta-turn structures were present via changes in either the thermal or mechanical inputs. A model is proposed to explain the super elasticity and energy conversion mechanisms of resilin, providing important insight into structure-function relationships for this protein. Further, this model offers a view of elastomeric proteins in general where beta-turn related structures serve as fundamental units of the structure and elasticity.
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