Article
Chemistry, Applied
Chima Robert, Sara J. Fraser-Miller, William T. Jessep, Wendy E. Bain, Talia M. Hicks, James F. Ward, Cameron R. Craigie, Mark Loeffen, Keith C. Gordon
Summary: Raman spectroscopy combined with chemometric techniques such as PLSDA and SVM proved to be an effective method for discriminating between beef, lamb, and venison meat samples, with high sensitivity and specificity levels achieved.
Article
Chemistry, Analytical
Barnaby G. Ellis, Conor A. Whitley, Safaa Al Jedani, Caroline I. Smith, Philip J. Gunning, Paul Harrison, Paul Unsworth, Peter Gardner, Richard J. Shaw, Steve D. Barrett, Asterios Triantafyllou, Janet M. Risk, Peter Weightman
Summary: A novel machine learning algorithm accurately distinguishes between oral squamous cell carcinoma nodal metastases and surrounding lymphoid tissue based on a specific Fourier transform infrared (FTIR) absorption ratio. The resulting image shows better agreement with immunohistochemistry staining images and better discrimination than FTIR images obtained at individual wavenumbers. Notably, scanning near-field optical microscopy (SNOM) images reveal variations in tissue chemical structure with high spatial resolution.
Article
Computer Science, Artificial Intelligence
Mehdi Hassan, Safdar Ali, Muhammad Saleem, Muhammad Sanaullah, Labiba Gillani Fahad, Jin Young Kim, Hani Alquhayz, Syed Fahad Tahir
Summary: A novel approach based on Raman spectroscopy and deep learning is proposed for diagnosing dengue virus infection in human blood sera. The developed model shows superior performance in capturing minute Raman spectral variations on a dataset of 2,000 samples.
PEERJ COMPUTER SCIENCE
(2022)
Article
Virology
Gabriela A. Garcia, Anton R. Lord, Lilha M. B. Santos, Tharanga N. Kariyawasam, Mariana R. David, Dinair Couto-Lima, Aline Tatila-Ferreira, Marcio G. Pavan, Maggy T. Sikulu-Lord, Rafael Maciel-de-Freitas
Summary: With the increasing transmission of dengue and Zika viruses worldwide, the establishment of an efficient arbovirus surveillance system is crucial for early warning systems and preparedness. Near Infrared Spectroscopy (NIRS) is a promising technique for detecting arbovirus infection in mosquitoes due to its cost and time effectiveness, reagent-free nature, and non-invasive characteristics. The study demonstrates that NIRS can accurately differentiate Ae. aegypti mosquitoes infected with either ZIKV or DENV, and those coinfected with ZIKV/DENV from uninfected ones. The results suggest that NIRS should be further tested in field settings to assess its potential role in monitoring natural infection in field-caught mosquitoes.
Article
Chemistry, Analytical
Sarjana Yadav, Rizwin Khanam, J. P. Singh
Summary: In this study, the detection of hemozoin, a metabolic byproduct of malaria parasites, was achieved using magnetic surface enhanced Raman spectroscopy (M-SERS). The use of neodymium magnetic substrates and SERS active silver nanoparticles allowed for ten-fold enhancement of the SERS signal compared to conventional SERS measurements. The presence of high spin trivalent iron in hemozoin structure induced the aggregation of hemozoin molecules near the 'hotspots' on the SERS substrates under the influence of a magnetic field, resulting in higher vibrational mode enhancement. The low detection limit of hemozoin for M-SERS makes it suitable for early stage malaria detection.
SENSORS AND ACTUATORS B-CHEMICAL
(2022)
Article
Instruments & Instrumentation
Khulla Naseer, Salmann Ali, Javaria Qazi
Summary: This study demonstrates the potential of ATR-FTIR spectroscopy combined with chemometric data classification algorithms for differential diagnosis of Salmonella typhi and dengue infected freeze-dried sera samples. PCA and LDA algorithms were used to achieve accurate classification and differentiation with high accuracy.
INFRARED PHYSICS & TECHNOLOGY
(2021)
Article
Spectroscopy
Chima Robert, Julia Tsiampali, Sara J. Fraser-Miller, Silke Neumann, Donata Maciaczyk, Sarah L. Young, Jaroslaw Maciaczyk, Keith C. Gordon
Summary: Raman spectroscopy combined with chemometrics was used to distinguish the phenotype of T-cells and monocytes incubated with media conditioned by glioblastoma stem-cells, showing different molecular backgrounds. Different clusters were formed based on EMT activator ZEB1 or CD73 inhibition, and discriminatory analysis using LDA and SVM yielded sensitivities and specificities of over 70% and 67% respectively. Flow cytometric analysis revealed the influence of TCMs on cytokine profile of T-cells and monocytes, indicating the potential of Raman spectroscopy in tracking immune cell phenotypes.
SPECTROCHIMICA ACTA PART A-MOLECULAR AND BIOMOLECULAR SPECTROSCOPY
(2021)
Article
Chemistry, Analytical
Chi Shu, Wei Zheng, Kan Lin, Chwee Ming Lim, Zhiwei Huang
Summary: This study demonstrates the ability of rapid fiberoptic Raman endoscopy to stage and diagnose nasopharyngeal cancer in real-time. By analyzing Raman spectra of tissue sites, a staging model is established with high accuracy. The findings show that fiberoptic Raman endoscopy is a robust tool for clinical staging of nasopharyngeal cancer.
Article
Food Science & Technology
A. Unuvar, I. H. Boyaci, H. Koksel
Summary: Spectroscopic methods, including SFS, NIR, and ATR-FTIR, combined with chemometric analysis, were effective in distinguishing between durum and common wheat samples. SFS showed the highest discrimination rate of 100%, while Raman spectroscopy was found to be less sensitive in discriminating between the two types of wheat samples.
JOURNAL OF CEREAL SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Youssef El Khoury, Marie Gebelin, Jerome de Seze, Christine Patte-Mensah, Gilles Marcou, Alexandre Varnek, Ayikoe-Guy Mensah-Nyagan, Petra Hellwig, Nicolas Collongues
Summary: Neuromyelitis optica spectrum disorder (NMOSD) and multiple sclerosis (MS) are autoimmune inflammatory and demyelinating diseases of the central nervous system. Differentiating between NMOSD and MS is crucial for the timely and appropriate treatment. In this study, infrared spectroscopy combined with machine learning successfully distinguished NMOSD and MS patients with 100% sensitivity and specificity. The method shows promise as a cost-effective and rapid diagnostic tool to help save valuable treatment time for patients.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Chemistry, Physical
Wenguang Zhang, Ting Lv, Chunsan Deng, Hui Gao, Sanlue Hu, Fayu Chen, Jingwei Liu, Xuhao Fan, Yuncheng Liu, Binzhang Jiao, Leimin Deng, Wei Xiong
Summary: This study presents a transfer-free method for rapid synthesis of TiS3 nanoribbons and investigates the synthetic mechanism and crystal properties of TiS3 using Raman spectroscopy and ultrafast nonlinear optical spectroscopy. The findings lay a foundation for understanding and applying TMTCs in functional devices.
CHEMISTRY OF MATERIALS
(2022)
Article
Chemistry, Physical
Yannick Bleu, Florent Bourquard, Jean-Yves Michalon, Yaya Lefkir, Stephanie Reynaud, Anne-Sophie Loir, Vincent Barnier, Florence Garrelie, Christophe Donnet
Summary: This study demonstrates the transformation of amorphous carbon into free transfer graphene through pulsed laser deposition, with a focus on the dewetting process of the nickel catalyst film. By varying the thickness and temperature of pure nickel film, graphene synthesis on SiO2 substrate is achieved directly by controlling the parameters of nickel catalyst.
APPLIED SURFACE SCIENCE
(2021)
Article
Oncology
Xiangxiang Zheng, Guohua Wu, Guodong Lv, Longfei Yin, Xiaoyi Lv
Summary: This study successfully used Raman and FTIR spectroscopy techniques to distinguish serum samples of patients with hepatic echinococcosis from a healthy control group, providing a potential method for early and accurate diagnosis of the disease.
PHOTODIAGNOSIS AND PHOTODYNAMIC THERAPY
(2022)
Article
Virology
Yingshuo Ma, Man Li, Lyu Xie, Na Gao, Dongying Fan, Kaihao Feng, Yao Yao, Yong Zhou, Ziyang Sheng, Hongning Zhou, Hui Chen, Jing An
Summary: This study investigated the dynamic changes of DENV-specific antibodies and the risk of antibody-dependent enhancement (ADE) caused by secondary infection with different serotypes of dengue virus (DENV) in dengue fever patients. The results showed a gradual decrease in DENV-specific antibodies and neutralizing antibody titers after DENV infection, which may increase the risk of ADE. The risk of ADE was positively associated with the extension of convalescent phase, with higher odds ratio in DENV-4 infection. However, with the recovery period lengthened, the risk of secondary infection with DENV-1 and DENV-2 was reduced.
Article
Chemistry, Multidisciplinary
Han Cui, Andrew Glidle, Jonathan M. Cooper
Summary: Spatially offset Raman spectroscopy, when integrated with a fiber-coupled spatial heterodyne spectrometer, generates a wavenumber-dependent spatial phase shift to collect Raman spectra from deep within opaque or scattering materials. By processing the spectral image using a single Fourier transform, an order of magnitude improvement in Raman sensitivity is achieved, allowing rapid interfacial analysis of complex constructs based on established biomaterials models.
Article
Cell Biology
Sandip Patel, Yu Yuan, Gihan S. Gunaratne, Taufiq Rahman, Jonathan S. Marchant
Summary: Two-pore channels (TPCs) are ancient members of the voltage-gated ion channel superfamily that are primarily found on acidic organelles. TPCs can be activated by ligands and have calcium and sodium permeability, with the ability to switch their ion selectivity in response to specific agonists.
Review
Biochemistry & Molecular Biology
Jonathan S. Marchant, Gihan S. Gunaratne, Xinjiang Cai, James T. Slama, Sandip Patel
Summary: Nicotinic acid adenine dinucleotide phosphate (NAADP) is a second messenger that releases Ca2+ from endosomes and lysosomes by activating two-pore channels (TPCs). Two different NAADP-binding proteins (NAADP-BPs), JPT2 and LSM12, have recently been identified, bridging the gap between NAADP generation and NAADP activation of TPCs. The discovery of these NAADP-BPs will facilitate future studies on the molecular mechanism of NAADP action.
TRENDS IN BIOCHEMICAL SCIENCES
(2022)
Article
Instruments & Instrumentation
Dimple Saikia, Priyanka Jadhav, Arti R. Hole, Chilakapati Murali Krishna, Surya P. Singh
Summary: This study demonstrates the application of Raman spectroscopy in monitoring the growth kinetics of three different pathogenic bacteria. The spectral features revealed temporal changes in the peptide and nucleic acid content of cells during different growth stages, and successful discrimination between growth phases was achieved using principal component analysis.
APPLIED SPECTROSCOPY
(2022)
Editorial Material
Cell Biology
Taufiq Rahman, Sandip Patel
Summary: TRPML1 is an endolysosomally-expressed cation channel, activated by PI(3,5)P-2 and synthetic agonists like rapamycin. New high resolution cryo-EM structures of TRPML1 bound to both PI(3,5)P-2 and temsirolimus reveal molecular insights into how the channel integrates two agonists at distal sites but cooperatively.
Article
Multidisciplinary Sciences
Yu Yuan, Dawid Jaslan, Taufiq Rahman, Stephen R. Bolsover, Vikas Arige, Larry E. Wagner, Carla Abrahamian, Rachel Tang, Marco Keller, Jonas Hartmann, Anna S. Rosato, Eva-Maria Weiden, Franz Bracher, David Yule, Christian Grimm, Sandip Patel
Summary: This study reveals that TPC2 can selectively increase its permeability to calcium ions when co-activated by the endogenous ligands NAADP and PI(3,5)P-2. This finding indicates that the flux of different ions through the same channel can be independently controlled and identifies TPC2 as a potential coincidence detector that optimizes lysosomal calcium signaling.
NATURE COMMUNICATIONS
(2022)
Review
Cell Biology
Sandip Patel, Yu Yuan, Cheng-Chang Chen, Dawid Jaslan, Gihan Gunaratne, Christian Grimm, Taufiq Rahman, Jonathan S. Marchant
Summary: This review discusses the electrophysiology of two-pore channels TPC1 and TPC2, including their gating by Ca2+-mobilizing messenger NAADP and/or the lipid PI(3,5)P-2, regulation by H+, Ca2+, and Mg2+, and impact of single-nucleotide polymorphisms. The article also explores the effect of various substances on channel activity, as well as the rerouting of channels to the cell surface for easier recording.
Article
Spectroscopy
Priyanka A. Jadhav, Kshama Pansare, Arti Hole, Arvind Ingle, Rukmini Govekar, C. Murali Krishna
Summary: About two thirds of oral cancer cases are diagnosed at advanced stages, highlighting the importance of early screening. This study used an animal model to investigate early biochemical changes during DMBA-induced oral carcinogenesis, and found that Raman spectroscopy can be an effective tool for early diagnosis. The findings suggest that serum RS can detect increasing protein and loss of lipid content as oral carcinogenesis progresses.
JOURNAL OF RAMAN SPECTROSCOPY
(2023)
Article
Chemistry, Analytical
Dimple Saikia, Priyanka Jadhav, Arti R. Hole, Chilakapati Murali Krishna, Surya P. Singh
Summary: This study applied Raman spectroscopy to investigate the differences between colistin sensitive and resistant bacterial strains, and successfully generated colistin resistant clones. A unique spectral profile associated with specific drug concentration was obtained, allowing for successful differentiation between resistant and sensitive cells. These findings support the prospective utility of Raman spectroscopy in identifying antimicrobial resistance.
Article
Cell Biology
Dawid Jaslan, Irene Flavia Ferro, Veronika Kudrina, Yu Yuan, Sandip Patel, Christian Grimm
Summary: NAADP and PI(3,5)P2 are compounds that activate the endolysosomal two-pore channels TPC2 in mammalian cells. PI(3,5)P2 mainly elicits Na+-selective currents, while NAADP increases the Ca2+ permeability of the channel. Recent studies have revealed the effects of simultaneously applying these compounds.
Editorial Material
Biochemistry & Molecular Biology
Sandip Patel, Martin D. Bootman, Ana Rossi, Taufiq Rahman, Jonathan S. Marchant
Article
Chemistry, Multidisciplinary
Sukanya Rauniyar, Kshama Pansare, Asmita Sharda, Saurav Raj Singh, Panchali Saha, Murali Krishna Chilakapati, Sanjay Gupta
Summary: Investigating the effect of sub-culturing in parental and radioresistant MCF-7 cells, this study found that radioresistant cells showed high-intensity nucleic acid and cytochrome bands, potentially serving as a radiation-induced spectral marker. Raman spectroscopy data revealed dynamic biochemical alterations in revived radioresistant G(2)/M synchronized cells at early cell passages, stabilizing at a later stage. The importance of cell passaging and cell cycle phases in potentially altering biochemical parameters in radioresistant cells post-cryopreservation was highlighted.
Article
Otorhinolaryngology
Panchali Saha, Sharada Sawant, Atul Deshmukh, Arti Hole, C. Murali Krishna
Summary: This study evaluates the potential of serum Raman spectroscopy (SRS) in identifying recurrence-prone oral cancer subjects. DNA and protein alterations were observed in serum after surgery for all groups. Stratification of post-surgery, recurrence, and non-recurrence subjects was achieved with high accuracy (84%) using SRS, while no stratification was observed before surgery.
HEAD AND NECK-JOURNAL FOR THE SCIENCES AND SPECIALTIES OF THE HEAD AND NECK
(2023)
Article
Medicine, Research & Experimental
Andres Fuentes-Flores, Cristian Geronimo-Olvera, Karina Girardi, David Necunir-Ibarra, Sandip Kumar Patel, Joanna Bons, Megan C. Wright, Daniel Geschwind, Ahmet Hoke, Jose A. Gomez-Sanchez, Birgit Schilling, Daniela L. Rebolledo, Judith Campisi, Felipe A. Court
Summary: Reparative Schwann cells transition into a senescent phenotype in aging and chronic denervation, leading to inhibition of axonal regeneration. Elimination of senescent cells improves nerve regeneration and functional recovery.
EMBO MOLECULAR MEDICINE
(2023)
Article
Biochemistry & Molecular Biology
Gihan S. Gunaratne, Eugen Brailoiu, Sushil Kumar, Yu Yuan, James T. Slama, Timothy F. Walseth, Sandip Patel, Jonathan S. Marchant
Summary: The NAADP-binding proteins JPT2 and LSM12 regulate Ca2+ release and endolysosomal trafficking through TPCs.
Meeting Abstract
Geriatrics & Gerontology
Birgit Schilling, Sandip Patel, Jacob Rose, Judith Campisi, Joanna Bons, Christina King, Charles Schurman
INNOVATION IN AGING
(2022)
