Article
Instruments & Instrumentation
Thulya Chakkumpulakkal Puthan Veettil, Kamila Kochan, Karen J. Edler, Paul De Bank, Philip Heraud, Bayden R. Wood
Summary: Malaria is a significant global health concern, and vibrational spectroscopy shows promise as a rapid and cost-effective tool for early detection. Improvements are needed in the measurement procedures and sample preparation to enhance the efficiency of screening for parasitic infections.
APPLIED SPECTROSCOPY
(2022)
Article
Instruments & Instrumentation
Polina Fomina, Antoni Femenias, Michael Hlavatsch, Julian Scheuermann, Nicolas Schaefer, Stephan Freitag, Nageshvar Patel, Achim Kohler, Rudolf Krska, Johannes Koeth, Boris Mizaikoff
Summary: The analytical performance of a compact infrared attenuated total reflection spectrometer using a pyroelectric detector array has been evaluated and compared to a conventional laboratory Fourier transform infrared system for applications in food analysis. Analytical characteristics including sensitivity, repeatability, linearity of the calibration functions, signal-to-noise ratio, and spectral resolution have been derived for both approaches. Representative analytes of relevance in food industries (i.e., organic solvents, fatty acids, and mycotoxins) have been used for the assessment of the performance of the device and to discuss the potential of this technology in food and feed analysis.
APPLIED SPECTROSCOPY
(2023)
Article
Chemistry, Analytical
Chao Tan, Hui Chen, Zan Lin, Die Wu, Bin Cheng, Wen Liu
Summary: Juice counterfeiting has negative impacts on product quality and consumer trust. This study explores the use of ATR-MIR spectroscopy and interval-based PLS and full-spectrum PLS models to detect adulteration of apple juice. The results show that the changeable moving window PLS model offers the best performance and could be an alternative method for quality control of juice.
ANALYTICAL LETTERS
(2023)
Article
Instruments & Instrumentation
Linying Zhong, Mingshan Xu, Suqin Sun, Qun Zhou, Ling Dong, Jianbo Chen
Summary: Herbal powder preparations (HPPs) are commonly used in traditional medicine, and their safety and efficacy can be ensured through the use of attenuated total reflection Fourier transform infrared spectroscopy (ATR FT-IR) imaging or mapping. This method allows for the individual measurement of different ingredients in an HPP sample, increasing the specificity and sensitivity of infrared spectral identification. The ATR FT-IR mapping method has been successfully used to identify prescribed and abnormal ingredients in oral ulcer pulvis, demonstrating its feasibility and effectiveness in the identification of HPPs.
APPLIED SPECTROSCOPY
(2023)
Article
Biotechnology & Applied Microbiology
T. Nitrosetein, M. Wongwattanakul, C. Chonanant, C. Leelayuwat, N. Charoensri, P. Jearanaikoon, A. Lulitanond, B. R. Wood, P. Tippayawat, P. Heraud
Summary: This study successfully differentiated 60 clinical isolates of Enterococcus faecium and Enterococcus faecalis using ATR-FT-IR spectroscopy and chemometric modelling. The support vector machine (SVM) was found to be the best classification model with the highest correlation to PCR results.
JOURNAL OF APPLIED MICROBIOLOGY
(2021)
Article
Instruments & Instrumentation
Brian Thomas, Kevin Anderson, Imesha De Silva, Guido Verbeck, Stephen Taylor
Summary: The analysis of collagen stability is important in various fields, and traditional methods for measuring collagen decay rates have limitations. This study introduces a new protocol using ATR FT-IR spectroscopy and SHG imaging to assess bone collagen decay. The results show that ATR FT-IR can serve as a precise and simple tool for measuring bone collagen decay rates, providing a promising alternative to traditional methods.
APPLIED SPECTROSCOPY
(2023)
Article
Instruments & Instrumentation
Maya Musa, Thomas G. Kaye, Willy Bieri, Adolf Peretti
Summary: This study utilized micro-ATR technology to analyze three Burmite samples, combining UV imaging technique with infrared spectroscopy to study fluorescence information and molecular vibrational modes of amber, aiming to comprehensively characterize the Burmese amber collection.
APPLIED SPECTROSCOPY
(2021)
Article
Instruments & Instrumentation
Dale Christensen, Aazam Khoshmanesh, David Perez-Guaita, Inaki Iturbe-Ormaetxe, Scott O'Neill, Bayden R. Wood
Summary: Research has shown that attenuated total reflection Fourier transform infrared spectroscopy can successfully detect Wolbachia in Ae. aegypti eggs and differentiate between different strains, with an infection classification accuracy of 97%. Furthermore, it was found that the disruption of host lipid profile by Wolbachia is a key driver in the spectral differences between sample classes.
APPLIED SPECTROSCOPY
(2021)
Article
Instruments & Instrumentation
Jakub Budil, Pavla Stenclova, Alexander Kromka, Petra Liskova
Summary: In this study, infrared attenuated total reflection spectroscopy coupled with optical and confocal laser scanning microscopy was used to analyze the real-time development of Pseudomonas syringae biofilm. The kinetics of representative band areas in the spectral window 4000-800 cm(-1) were analyzed to characterize different developmental stages of the biofilm.
APPLIED SPECTROSCOPY
(2023)
Article
Instruments & Instrumentation
Pjotr Meyvisch, Pieter R. Gurdebeke, Henk Vrielinck, Kenneth Neil Mertens, Gerard Versteegh, Stephen Louwye
Summary: This study introduces a new method for infrared spectroscopic analysis of individual dinoflagellate cyst walls, reducing nonchemical artifacts and evaluating the impact of sample preparation, specimen morphology and size, and data processing steps. Guidelines are proposed to facilitate the collection and qualitative interpretation of highly reproducible spectrochemical data, paving the way for a systematic exploration of dinocyst chemistry and its potential as a chemotaxonomical tool or proxy.
APPLIED SPECTROSCOPY
(2022)
Article
Chemistry, Medicinal
Eirini Siozou, Vasilios Sakkas, Nikolaos Kourkoumelis
Summary: The methodology developed using ATR FT-IR equipped with chemometric tools like PLS and PLS-DA can accurately and rapidly determine the concentration of diclofenac sodium in dispersed commercially available tablets. It offers satisfactory results in terms of accuracy and precision, while being cost-effective and easy to operate.
Article
Instruments & Instrumentation
Yongliang Liu, Hee-Jin Kim
Summary: Maturity is a critical factor affecting the processing and performance of cotton fiber. Rapid and accurate identification of fiber maturity phenotypes and genotypes is important for breeders. This study explored the use of FT-IR combined with SIMCA-PCA to discriminate between different genotypes of wild type (WT) cotton fibers.
APPLIED SPECTROSCOPY
(2023)
Article
Instruments & Instrumentation
Leigh C. Ward
Summary: Conventional methods for measuring deuterium concentration in body fluids involve isotope ratio mass spectrometry or FT-IR spectroscopy. This study explores an alternative method, ATR FT-IR, which allows for faster analysis with smaller sample volumes. The ATR FT-IR method demonstrated high precision in measuring deuterium in plasma, making it suitable for use in pediatrics where minimal blood sampling is required.
APPLIED SPECTROSCOPY
(2021)
Article
Instruments & Instrumentation
Alexander Samokhvalov, Stanley McCombs
Summary: Attenuated total reflection Fourier transform infrared (ATR FT-IR) spectroscopy has been modified for in situ time-dependent monitoring of solid-gas reactions in controlled atmosphere. A new gas flow chamber attachment has been described for creating controlled atmosphere surrounding the sample. This method and apparatus show promise for mechanistic studies and analysis of various solid-gas reactions.
APPLIED SPECTROSCOPY
(2023)
Article
Instruments & Instrumentation
Andrea Teuber, Robert Stach, Julian Haas, Boris Mizaikoff
Summary: The innovative mid-infrared spectroscopic sensor system developed based on quantum cascade lasers combines the versatility of substrate-integrated hollow waveguides with the robustness of attenuated total reflection crystals. This novel assembly enables evanescent field absorption measurements under unprecedented harsh conditions, making it ideal for field applications where robustness and optical alignment are essential.
APPLIED SPECTROSCOPY
(2022)
Article
Immunology
Duygu Demirtas, Deniz Cagdas, Tuba Turul Ozgur, Baris Kuskonmaz, Duygu Uckan Cetinkaya, Ozden Sanal, Ilhan Tezcan
Summary: This study evaluated the outcomes of hematopoietic stem cell transplantation in 44 patients with severe combined immunodeficiency. The majority of patients showed normal immune reconstitution and growth after HSCT. It may be beneficial to use bone marrow instead of peripheral stem cells due to lower incidence of acute GVHD in bone marrow transplanted patients.
IMMUNOLOGICAL INVESTIGATIONS
(2022)
Article
Biotechnology & Applied Microbiology
A. Sarikaya, G. Aydin, O. Ozyuncu, E. Sahin, D. Uckan-Cetinkaya, F. Aerts-Kaya
Summary: MSC can be isolated from tissues like bone marrow and placenta. There may be differences in differentiation and immunomodulation by MSC from different sources. Placenta-derived MSC showed higher proliferation rate compared to bone marrow MSC.
BIOTECHNIC & HISTOCHEMISTRY
(2022)
Article
Hematology
Fatma Visal Okur, Murat Karapapak, Khaled Warasnhe, Umut Ece Arslan, Baris Kuskonmaz, Duygu Cetinkaya
Summary: This study suggests that pre-conditioning serum UA is an independent risk factor for hepatic SOS after HSCT in children, and it may be used as an early predictor of SOS along with previously described clinical and laboratory parameters.
TURKISH JOURNAL OF HEMATOLOGY
(2021)
Article
Clinical Neurology
Ercan Bal, Sahin Hanalioglu, Cagla Z. Kopru, Sevil Kose, Ahmet T. Basak, Sibel B. Pehlivan, Duygu U. Cetinkaya, Nuhan Purali, Petek Korkusuz, Gokhan Bozkurt
Summary: This study found that axonal repair in syringomyelia can be significantly improved through stem cell therapy. Stem cell treatment also promotes the organized reconstruction of tissue surrounding the syrinx cavity, accelerating the repair and regeneration of damaged axons. Therefore, stem cells may have potential therapeutic effects in the recovery of neural tissue and myelin damage in syringomyelia.
JOURNAL OF NEUROSURGICAL SCIENCES
(2022)
Article
Oncology
Siddika Songul Yalcin, Tekin Aksu, Baris Kuskonmaz, Namik Yasar Ozbek, Vicente Perez-Brocal, Melda Celik, Duygu Uckan Cetinkaya, Andres Moya, Ener Cagri Dinleyici
Summary: This study evaluated the mycobiota composition pre- and post-HSCT in children with thalassemia, revealing a decrease in diversity following transplantation. Particularly, there was a predominance of Malassezia in children with GVHD. Further research is needed to understand this phenomenon in children with GVHD.
PEDIATRIC BLOOD & CANCER
(2022)
Article
Hematology
Ozlem Satirer, Inci Cevher Zeytin, Berna Alkan, Jale Karakaya, Duygu Cetinkaya, Fatma Visal Okur
Summary: This study investigated the association between pre-transplant levels of angiogenic factors and the risk of acute graft-versus-host disease (aGvHD). The findings suggest that alterations in pre-transplant Ang2 levels may serve as an independent risk factor for aGvHD development.
TURKISH JOURNAL OF HEMATOLOGY
(2022)
Article
Cell Biology
Ilgin Cagnan, Mustafa Keles, Ayse Gokce Keskus, Melike Tombaz, Ozge Burcu Sahan, Fatima Aerts-Kaya, Duygu Uckan-Cetinkaya, Ozlen Konu, Aysen Gunel-Ozcan
Summary: Fanconi anemia (FA) is a rare genetic disorder characterized by genomic instability and bone marrow failure. This study investigated the miRNA profile of FA BM-MSCs before and after BM transplantation, with specific focus on miRNAs that may modulate BM mRNA networks in FA patients, revealing potential candidates for further research.
Article
Hematology
Michael H. Albert, Tiarlan Sirait, Dirk-Jan Eikema, Katerina Bakunina, Claudia Wehr, Felipe Suarez, Maria Laura Fox, Nizar Mahlaoui, Andrew R. Gennery, Arjan C. Lankester, Rita Beier, Maria Ester Bernardo, Venetia Bigley, Caroline A. Lindemans, Siobhan O. Burns, Ben Carpenter, Jaroslaw Dybko, Tayfun Gungor, Fabian Hauck, Su Han Lum, Dmitry Balashov, Roland Meisel, Despina Moshous, Ansgar Schulz, Carsten Speckmann, Mary A. Slatter, Brigitte Strahm, Duygu Uckan-Cetinkaya, Isabelle Meyts, Tanja C. Vallee, Robert Wynn, Benedicte Neven, Emma C. Morris
Summary: Allogeneic hematopoietic stem cell transplantation (HSCT) is the gold standard curative therapy for infants and children with inborn errors of immunity (IEI), but its adoption for adolescents and adults with IEI has been delayed due to lack of outcome data and perceived high risk of transplant-related mortality. This large retrospective, multicenter study reports on 329 IEI patients who underwent HSCT between 2000 and 2019. The study found that the overall survival (OS) and event-free survival (EFS) rates were 78% and 65% at 1 year post-HSCT, and 71% and 62% at 5 years post-HSCT, respectively. The study also identified risk factors for adverse outcomes, providing important evidence for patient selection.
Letter
Biophysics
Baris Kuskonmaz, Deniz Ayvaz, Fatma Visal Okur, Burca Aydin, Ilhan Tezcan, Duygu Uckan Cetinkaya
BONE MARROW TRANSPLANTATION
(2022)
Article
Biophysics
M. Akif Yesilipek, Vedat Uygun, Alphan Kupesiz, Gulsun Karasu, Gulyuz Ozturk, Mehmet Ertem, Ilgen Sasmaz, Hayriye Daloglu, Elif Guler, Volkan Hazar, Tunc Fisgin, Gulay Sezgin, Savas Kansoy, Baris Kuskonmaz, Burcu Akinci, Namik Ozbek, Elif Unal Ince, Seda Ozturkmen, Funda Tayfun Kupesiz, Koray Yalcin, Sema Anak, Ceyhun Bozkurt, Musa Karakukcu, Serhan Kupeli, Davut Albayrak, Haldun Oniz, Serap Aksoylar, Fatma Visal Okur, Canan Albayrak, Fatma Demir Yenigurbuz, Ikbal Ok Bozkaya, Talia Ileri, Orhan Gursel, Barbaros Sahin Karagun, Gulen Tuysuz Kintrup, Suna Celen, Murat Elli, Basak Adakli Aksoy, Ebru Yilmaz, Atila Tanyeli, Sule Turan Akyol, Zuhal Onder Sivi, Gulcihan Ozek, Duygu Uckan, Ibrahim Kartal, Didem Atay, Arzu Akyay, Ozlem Arman Bilir, Hasan Fatih Cakmakl, Emin Kurekci, Baris Malbora, Sinan Akbayram, Haci Ahmet Demir, Suar Caki Kilic, Adalet Meral Gunes, Emine Zengin, Salih Ozmen, Ali Bulent Antmen
Summary: The study analyzed national data on hematopoietic stem cell transplantation for thalassemia major patients in Turkey, finding that transplanting before the age of 7 with a matched donor can improve outcomes, and that different time points and donor types have varying impacts on transplant results.
BONE MARROW TRANSPLANTATION
(2022)
Article
Genetics & Heredity
Basak Torun, Ahmet Bilgin, Diclehan Orhan, Rahsan Gocmen, Sebnem Sara Kilic, Baris Kuskonmaz, Duygu Cetinkaya, Ilhan Tezcan, Deniz Cagdas
Summary: PNP deficiency caused by mutations in the PNP gene can result in immunodeficiency and various clinical symptoms. Hematopoietic stem cell transplantation is the only available treatment and can improve neurological symptoms and developmental delay.
EUROPEAN JOURNAL OF MEDICAL GENETICS
(2022)
Article
Biochemical Research Methods
Birsen Elibol, Mete Severcan, Ewa Jakubowska-Dogru, Ilknur Dursun, Feride Severcan
Summary: The structural effects of vitamin A deficiency on the molecular profiles of biomolecules in the male rat hippocampus during prolonged ethanol intake/withdrawal were investigated using FT-IR spectroscopy and chemometrics. The study found that ethanol consumption/withdrawal caused significant changes in the conformation of proteins, while having minimal structural effects on lipids. In the presence of vitamin A deficiency, ethanol induced structural changes in lipids, particularly in the early ethanol withdrawal stage. Moreover, an increase in lipid and protein content, an increase in the saturated/unsaturated lipid ratio, a decrease in nucleic acids content, and a decrease in membrane fluidity were observed. These changes were less severe in the presence of vitamin A.
JOURNAL OF BIOPHOTONICS
(2022)
Article
Pediatrics
Anar Gurbanov, Bora Gulhan, Baris Kuskonmaz, Fatma Visal Okur, Fatih Ozaltin, Ali Duzova, Duygu Uckan Cetinkaya, Rezan Topaloglu
Summary: This study aimed to determine the incidence of kidney complications in pediatric allogeneic hematopoietic stem cell transplantation patients. The results showed a higher incidence of acute kidney injury, with primary malignant disease and viral infection being associated with an increased risk. Additionally, 24-hour ambulatory blood pressure monitoring played an important role in monitoring hypertension in these patients.
PEDIATRIC NEPHROLOGY
(2023)
Article
Cell & Tissue Engineering
Inci Cevher Zeytin, Berna Alkan, Cansu Ozdemir, Duygu Uckan Cetinkaya, Fatma Visal Okur
Summary: This study investigates the alterations in the HSC and MSC components of the osteopetrotic niche, as well as their interactions, to mimic stem cell dynamics/trafficking in the bone marrow niche after HSC transplantation. The findings suggest significant changes in both the MSC and HPC compartments of the osteopetrotic niche and highlight the impact of functionally impaired osteoclasts on defective niche formation.
STEM CELLS TRANSLATIONAL MEDICINE
(2022)
Article
Immunology
Aysegul Akarsu, Sevil Halacli, Cagman Tan, Baris Kuskonmaz, Alphan Kupesiz, Duygu Cetinkaya, Ozden Sanal, Ilhan Tezcan, Deniz Cagdas
Summary: Patients with CSR defects and HIGM phenotype exhibit diverse clinical manifestations and laboratory features. CD40L deficiency patients show low IgM levels, neutropenia, and eosinophilia prominently.
SCANDINAVIAN JOURNAL OF IMMUNOLOGY
(2022)
