Article
Biochemistry & Molecular Biology
Camillo Morano, Aida Zulueta, Anna Caretti, Gabriella Roda, Rita Paroni, Michele Dei Cas
Summary: This study explores various pre-analytical procedures, extraction methods, and derivatization steps in targeted sphingolipidomics to improve sensitivity and accuracy of sphingolipid analysis. It is recommended to analyze sphingolipids and sphingoid bases under different chromatographic conditions to avoid interferences.
Article
Biochemistry & Molecular Biology
Dragana Fabris, Ivana Karmelic, Hasan Muharemovic, Tomislav Sajko, Mia Jurilj, Slavica Potocki, Ruder Novak, Zeljka Vukelic
Summary: Aberrations in ganglioside composition strongly correlate with tumor growth and invasiveness. Anaplastic ganglioglioma shows distinct ganglioside composition compared to peritumoral and healthy brain tissues, despite having lower total content. The specific ganglioside composition in anaplastic ganglioglioma demonstrates realistic expression patterns and corresponds to high-grade malignancy brain tumors.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Multidisciplinary Sciences
Lloyd M. Smith, Jeffrey N. Agar, Julia Chamot-Rooke, Paul O. Danis, Ying Ge, Joseph A. Loo, Ljiljana Pasa-Tolic, Yury O. Tsybin, Neil L. Kelleher
Summary: Understanding the structure and properties of proteins is crucial in deciphering biological functions. The concept of defining the human proteome as a reference set of proteoforms is proposed, with a call for improved technologies in a two-pronged strategy.
Article
Chemistry, Analytical
Aurelien Millet, Nihel Khoudour, Pauline Bros, Dorothee Lebert, Guillaume Picard, Christelle Machon, Francois Goldwasser, Benoit Blanchet, Jerome Guitton
Summary: The study discussed two validated methods for quantification of Nivolumab in plasma, using LC-MS/MS and LC-MS/HRMS, both methods showed good linearity and acceptable accuracy and precision values. Comparison among the two mass spectrometry methods and a home-made ELISA method showed good agreement, with better correlation between the two mass spectrometry methods.
Article
Biochemistry & Molecular Biology
Irma Magaly Rivas Serna, Michal Sitina, Gorazd B. Stokin, Jose R. Medina-Inojosa, Francisco Lopez-Jimenez, Juan P. Gonzalez-Rivas, Manlio Vinciguerra
Summary: The study found that good cardiovascular health metrics are associated with a specific pattern of phospho- and sphingolipids. Circulatory lipid profiling may be a potential biomarker to refine cardiovascular health status in primary prevention strategies.
Article
Chemistry, Analytical
Teresa S. McMillen, Andrew Leslie, Kenneth Chisholm, Susanne Penny, Jeffrey Gallant, Alejandro Cohen, Arik Drucker, James P. Fawcett, Devanand M. Pinto
Summary: This study presents a comprehensive and quantitatively robust method for metabolomic analysis, using HILIC and RP stationary phases combined with positive and negative electrospray ionization. The method allows for complete analysis of a single sample in as little as 40 minutes and has been validated with clinical samples.
ANALYTICA CHIMICA ACTA
(2023)
Article
Biochemistry & Molecular Biology
Harley Robinson, Jeffrey Molendijk, Alok K. Shah, Tony Rahman, Gregory J. Anderson, Michelle M. Hill
Summary: This study comprehensively evaluated the accuracy of lipid quantification using Attenuated Total Reflectance (ATR)-Fourier-Transform Infrared Spectroscopy (FTIR) and established a simple workflow for lipidomics sample quantification. The impact of sample extraction method and FTIR spectral processing on lipid quantification was investigated. A Lipid Quality (LiQ) score was developed for sample quality screening. The workflow was validated by comparing with LC-MS quantification results.
Review
Chemistry, Analytical
Deying Chen, Shuang Zhao, Lanjuan Li, Liang Li
Summary: Metabolome analysis is crucial in clinical and biological applications, but controversy exists due to different analytical methods used. This review discusses the potential impacts of each pre-analytical step on metabolome analysis and warns against generalizing study findings.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Analytical
Nicole M. Anders, Carlos G. Romo, Avelina Hemingway, Manmeet S. Ahluwalia, Michelle A. Rudek
Summary: A sensitive and reliable method for quantitating terameprocol was developed using LC-MS/MS, enabling detailed pharmacokinetic studies for the treatment of high-grade glioma. The method demonstrated accurate and precise measurements, with stability of terameprocol in plasma for at least 20 months when stored at -70 degrees C.
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
(2022)
Article
Biochemistry & Molecular Biology
Pietro Barbacini, Enrica Torretta, Beatrice Arosio, Evelyn Ferri, Daniele Capitanio, Manuela Moriggi, Cecilia Gelfi
Summary: Sphingolipids play an important role in aging and various disorders. This study analyzed the distribution of sphingolipid species and enzyme levels associated with centenarians' decelerated aging. The results showed that centenarians had a specific profile of sphingolipids and a fine-tuning mechanism, indicating a protective mechanism against physiological decline.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Enrica Torretta, Beatrice Arosio, Pietro Barbacini, Daniele Capitanio, Paolo Dionigi Rossi, Manuela Moriggi, Mario Clerici, Daniela Mari, Matteo Cesari, Cecilia Gelfi
Summary: The study identified specific changes in sphingolipids and proteins in the cerebrospinal fluid of iNPH patients, indicating that at disease onset, there is an increase in very long chain Cers and changes in certain proteins that may play a role in maintaining cell homeostasis and counteracting the overexpression of amyloidogenic and neurotoxic proteins.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemical Research Methods
Ahmed M. M. Abdel-Megied, Isaac A. A. Monreal, Limian Zhao, Alex Apffel, Hector C. C. Aguilar, Jace W. W. Jones
Summary: Emerging and re-emerging zoonotic viral diseases, particularly enveloped viruses like SARS-CoV-2, have a significant impact on public health. The lipid composition of the viral envelope and changes in host cell lipid metabolism during viral infection provide an opportunity to understand how these viruses infect cells. In this study, the lipid composition of VeroE6-TMPRSS2 cells infected with SARS-CoV-2 was characterized, with a focus on the ceramide to sphingomyelin ratio. This lipid profile can help in the development of antiviral strategies and vaccines.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2023)
Article
Microbiology
Arthur Viode, Kinga K. Smolen, Benoit Fatou, Zainab Wurie, Patrick Van Zalm, Mandy Kader Konde, Balla Moussa Keita, Richard Amento Ablam, Eleanor N. Fish, Hanno Steen
Summary: In this study, the plasma proteomes of 12 individuals infected with Ebola virus (EBV) were characterized using two different LC-MS-based proteomics platforms and an antibody-based multiplexed cytokine/chemokine assay. Clear differences were observed in the host proteome between individuals who survived and those who died, at both early and late stages of the disease. A prognostic biomarker panel of 4 proteins was derived from the analysis, which may help guide care and can be easily implemented in resource-limited regions.
Article
Biochemistry & Molecular Biology
Aurelien Millet, Nihel Khoudour, Jerome Guitton, Dorothee Lebert, Francois Goldwasser, Benoit Blanchet, Christelle Machon
Summary: A method for quantifying Pembrolizumab in human plasma was developed using stable isotope-labeled internal standards and a surrogate peptide quantified in positive mode, showing good linearity and accuracy. Comparison of results from cancer patient plasma samples analyzed by two methods showed that the LC-MS/HRMS method is suitable for clinical trials and therapeutic drug monitoring.
Article
Endocrinology & Metabolism
V. Fridman, S. Zarini, S. Sillau, K. Harrison, B. C. Bergman, E. L. Feldman, J. E. B. Reusch, B. C. Callaghan
Summary: Recent studies suggest that atypical 1-deoxysphingolipids lacking the C1 hydroxyl group may be associated with diabetic neuropathy. Specific plasma 1-deoxysphingolipids may be linked to the severity of DN, while alterations in plasma serine and alanine could relate to the elevation of 1-deoxysphingolipids in patients with type 2 diabetes.
JOURNAL OF DIABETES AND ITS COMPLICATIONS
(2021)
Article
Biochemical Research Methods
Saranya Krishnan, Shina Sasi, Preshobha Kodakkattumannil, Salima Al Senaani, Geetha Lekshmi, Martin Kottackal, Khaled M. A. Amiri
Summary: This study aimed to develop an efficient DNA extraction protocol suitable for diverse plant species and tissues. A reliable and consistent protocol was described for the extraction of high-quality DNA from difficult-to-extract plant species. The optimized protocol was successful in extracting high-quality DNA from various plant species and tissues, making it useful for genomic studies of recalcitrant plants.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Eisaku Hokazono, Saori Fukumoto, Takeshi Uchiumi, Susumu Osawa
Summary: This study proposes a method for detecting nucleic acid amplification using pyrophosphate, which requires only two reagents and an automated analyzer. The technique has high sensitivity and reproducibility, and can detect pyrophosphate within 10 minutes. Therefore, this method has the potential to be a new, rapid, and simple detection technique for amplified nucleic acids.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Drew S. Sowersby, L. Kevin Lewis
Summary: SURE electrophoresis is a new method for concentrating samples in gels, which allows efficient detection of highly dilute DNA samples. This approach generates single bands with enhanced signal intensities and minimal band broadening.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Hongyi Liang, Guoliang Yin, Guangxi Shi, Zhiyong Liu, Xiaofei Liu, Jingwei Li
Summary: The mechanism of Echinacoside (ECH) in treating breast cancer (BC) was explored through network pharmacology and experimental validation. It was found that ECH plays an important role in anti-BC by regulating the PI3K/AKT/HIF-1 alpha/VEGF signaling pathway, and it exhibits multi-target and multi-pathway effects.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Daniel S. Kantner, Emily Megill, Anna Bostwick, Vicky Yang, Carmen Bekeova, Alexandria Van Scoyk, Erin L. Seifert, Michael W. Deininger, Nathaniel W. Snyder
Summary: This study compared the results of different methods for measuring the amount of acetyl-Coenzyme A. The colorimetric ELISA kit did not produce interpretable results, while the fluorometric enzymatic kit showed comparable results to the LC-MS-based methods depending on the matrix and extraction conditions. LC-MS/MS and LC-HRMS methods produced well-aligned results, especially when using stable isotope-labeled internal standards.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Jingyan Xu, Hanying Tan, Xionghui Ma, Linjing Su, Zhi Zhang, Yuhao Xiong
Summary: This study investigates the co-catalytic capabilities of MoO3 nanosheets in enhancing the enzyme-like catalytic activity of a two-dimensional ultrathin Fe(III)-modified covalent triazine framework (Fe-CTF) under neutral pH conditions. The Fe-CTF/MoO3 co-catalytic system exhibits enzyme-mimicking activity and enables the development of a colorimetric method for glucose detection. Furthermore, a straightforward one-pot colorimetric method is established for screening XOD inhibitors.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Lichao Zhang, Kang Xiao, Xueting Wang, Liang Kong
Summary: A novel fusion technology was designed to identify FAD-binding sites, achieving the best results on two independent test datasets and outperforming existing methods significantly. The high performance and certainty of the method were demonstrated through statistical tests and cross-entropy loss analysis.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Abdulkadir Kilic, Mehmet Aslan, Abdulkadir Levent
Summary: This study developed a simple, rapid, sensitive, and selective voltammetric technique for the electrochemical characterization and detection of the highly risky drug Edoxaban. The optimized voltammetric method showed good analytical working range and was successfully applied to urine and tablet samples.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Su Hyun Kim, Nara Shin, Jong-Min Jeon, Jeong-Jun Yoon, Jeong Chan Joo, Hee Taek Kim, Shashi Kant Bhatia, Yung-Hun Yang
Summary: To address environmental issues caused by traditional plastics, bioplastics have gained attention as alternatives. Although bioplastics have better degradability, their degradation still takes longer than anticipated. This study proposes a novel screening method to identify bioplastic degraders faster, saving time and providing more quantitative data.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Irem Okman Kocoglu, Pinar Esra Erden, Esma Kilic
Summary: In this study, an electrochemical biosensor based on carbon nanofibers and ionic liquid modification was constructed for tyramine detection. The biosensor showed linear response, low detection limit, high sensitivity, and exhibited good reproducibility, stability, and anti-interference ability.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Liana U. Akhmetzianova, Timur M. Davletkulov, Assol R. Sakhabutdinova, Alexey Chemeris, Irek M. Gubaydullin, Ravil R. Garafutdinov
Summary: A new program called LAMPrimers iQ has been developed for high-quality LAMP primer design, and its advantages in providing higher specificity and reliable detection of viral RNA were validated using SARS-CoV-2 coronavirus RNA as a model target.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Tommaso Pileri, Alberto Sinibaldi, Agostino Occhicone, Norbert Danz, Elena Giordani, Matteo Allegretti, Frank Sonntag, Peter Munzert, Patrizio Giacomini, Francesco Michelotti
Summary: This study developed a biosensing device based on one-dimensional photonic crystal to detect HER2 in breast cancer. The device combines label-free and fluorescence operation modes, allowing for real-time and accurate detection in less than 20 minutes. It offers a promising technique for combined label-free and fluorescence detection in disease diagnosis and therapeutic monitoring.
ANALYTICAL BIOCHEMISTRY
(2024)