Article
Biochemistry & Molecular Biology
Lara Aparecida Buffoni de Campos Carneiro, Joel Wurman, Paul Dupree, Richard John Ward
Summary: Trichoderma reesei produces a beta-galactosidase that can hydrolyze xyloglucan oligosaccharides from tamarind and jatoba seed storage xyloglucans. The study found that the enzyme has a preference for galactosylated oligosaccharides and non-reducing end dexylosylated oligosaccharides. The synergistic depolymerization of xyloglucan by TrBga1 and alpha-xylosidase reveals insights into plant cell wall structure and evolutionary mechanisms of debranching enzymes.
Article
Biology
Muhammad Mujammami, Mohamed Rafiullah, Assim A. Alfadda, Khalid Akkour, Ibrahim O. Alanazi, Afshan Masood, Mohthash Musambil, Hani Alhalal, Maria Arafah, Anas M. Abdel Rahman, Hicham Benabdelkamel
Summary: This study investigated the role of diabetes in endometrial cancer using a proteomic approach and identified differentially expressed proteins that may be related to cancer metastasis.
Article
Endocrinology & Metabolism
Hicham Benabdelkamel, Mohamed Rafiullah, Afshan Masood, Abdulaziz Alsaif, Mohthash Musambil, Assim A. Alfadda
Summary: This study used proteomics approach to analyze the alterations in the thyroid tissue proteome in patients with benign diffuse goiter. The results showed significant changes in the expression of tissue proteins, particularly in signaling pathways and metabolic pathways.
FRONTIERS IN ENDOCRINOLOGY
(2022)
Article
Reproductive Biology
Giusy Rusco, Mariola Slowinska, Michele Di Iorio, Silvia Cerolini, Angela B. Maffione, Andrzej Ciereszko, Nicolaia Iaffaldano
Summary: This study compared the whole proteome of fresh and cryopreserved rabbit semen and found that cryopreservation led to changes in protein composition. These changes were associated with energy metabolism, protein quality control, reproductive processes, and cell death/survival regulation, resulting in a significant decrease in the motility, viability, and fertilizing ability of post-thawing rabbit sperm.
Article
Chemistry, Applied
Xue Yi Tan, Azizah Misran, Leona Daniela Jeffery Daim, Benjamin Yii Chung Lau
Summary: Four methods were evaluated to extract proteins from Musang King durian pulps, with acetone-phenol method producing the best results. Differential protein analyses revealed that 15 proteins were down-regulated and 3 proteins were up-regulated after a year of frozen storage. This study indicates that frozen storage affects protein expression in various functional aspects.
Article
Multidisciplinary Sciences
Sharifah Zakiah Syed Sulaiman, Wei Miao Tan, Rozanaliza Radzi, Intan Nur Fatiha Shafie, Mokrish Ajat, Rozaihan Mansor, Suhaila Mohamed, Norasfaliza Rahmad, Angela Min Hwei Ng, Seng Fong Lau
Summary: This study compared the proteomic changes in the synovial fluid of surgically and chemically induced osteoarthritis (OA) models. The surgical model showed a wider range of protein changes, while the chemical model had slower OA progression.
Article
Food Science & Technology
Xue Li, Xiaorong Deng, Xin Guo, Yabo Wei, Yunfeng Zhao, Xiaobing Guo, Xinrong Zhu, Jian Zhang, Ling Hu
Summary: The present study investigates the freshness indicator protein of Coregonus peled and the effects of oxidation on the quality of fish during 4 degrees C storage. A total of 382 differential proteins were identified, and 20 proteins related to oxidation were found to have the potential as biomarkers for protein oxidative damage. Actin was identified as an indicator for fish softening during postmortem storage. The changes in protein structure and biomarkers were influenced by oxidation. Bioinformatics analysis suggested that differentially expressed proteins participated in the metabolic pathway during 4 degrees C storage.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2022)
Article
Chemistry, Analytical
Dandan Jiang, Siqi Lv, Xue Han, Limei Duan, Jinghai Liu
Summary: Exfoliated magadiite nanosheets embedded with Fe3O4 were utilized to prepare Gd3+-immobilized magnetic magadiite nanosheets as an adsorbent for phosphopeptides enrichment. The 2D morphology of the adsorbent provided high surface area and abundant Gd3+ contents, leading to efficient phosphopeptides capture with low detection limit and stable enrichment performance. Further evaluation demonstrated the capability of the nanocomposite to enrich phosphopeptides from various biological samples.
Article
Plant Sciences
Swetha Sudha Nagamalla, Malini Devi Alaparthi, Sunitha Mellacheruvu, Ravindar Gundeti, Jana Priya Sony Earrawandla, Someswar Rao Sagurthi
Summary: The study investigated the impact of drought stress on two cotton varieties, revealing that Bt cotton showed stronger drought tolerance compared to non-Bt cotton at the protein expression and physiological levels. This finding may aid in breeding new drought-tolerant and high-yielding cotton hybrid varieties.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Serena Correnti, Mariaimmacolata Preiano, Pierpaolo Murfone, Annalisa Fregola, Massimo Bitonti, Rocco Savino, Rosa Terracciano
Summary: This study applied the combination of dispersive solid phase extraction (d-SPE) and MALDI-TOF-MS to study human seminal plasma, aiming to reveal diagnostic characteristics for male infertility. The analysis found that specific peptides in seminal plasma could effectively distinguish fertile and non-fertile male donors.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Chemistry, Analytical
Guangyao Wu, Hongchao Geng, Rongfang Xu, Min Deng, Changcheng Yang, Chengfeng Xun, Ying Wang, Qingyun Cai, Ping Chen
Summary: In this study, a CaTiO3/Al3+/Pr3+/Sm3+ nanocomposite was developed for efficient separation of exosomes and applied to serum samples from Alzheimer's disease patients. Through 2-DE separation and MALDI TOF/TOF mass spectrometry analysis, proteins related to the pathogenesis of AD were identified in the exosomes.
Article
Environmental Sciences
Ng. Kunjarani Chanu, Madan Kumar Mandal, Akanksha Srivastava, Neha Chaurasia
Summary: The study investigated the effects of pyrethroid insecticide alpha-cypermethrin on cyanobacteria Anabaena sp. NC-K1, revealing upregulation of various proteins involved in stress responses, photosynthesis, translation, and DNA repair. This proteomic modulation allowed Anabaena sp. NC-K1 to maintain cellular metabolism and homeostasis against pesticide stress.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Biochemical Research Methods
Amber N. Rogers, Maya K. Mastronardo, Tsion G. Mekonnen, Ana Maria Soto
Summary: RNA research is an active field that often requires large amounts of purified RNA. One common purification method involves using electroelution to recover RNA from gel pieces. In this study, two electroeluters with different chamber designs were compared and both were found to effectively recover comparable amounts of purified RNA.
ANALYTICAL BIOCHEMISTRY
(2021)
Article
Microbiology
Lisa Pastrone, Antonio Curtoni, Giulia Criscione, Francesca Scaiola, Paolo Bottino, Luisa Guarrasi, Marco Iannaccone, Markus Timke, Cristina Costa, Rossana Cavallo
Summary: Nontuberculous mycobacteria (NTM) identification plays a crucial role in determining relevance of the isolate and selecting appropriate antimicrobial therapy. Traditional methods such as Line Probe Assays (LPA) for NTM identification are expensive and time-consuming. This study evaluated the performance of the MBT Mycobacteria kit and MycoEx preparation protocol for NTM identification using MALDI-TOF MS, and found that both methods provided accurate results compared to LPA. However, MBT showed higher reproducibility and a higher number of highly probable identifications compared to MycoEx.
Article
Virology
Matthew M. Hernandez, Mariawy Riollano-Cruz, Mary C. Boyle, Radhika Banu, Paras Shrestha, Brandon Gray, Liyong Cao, Feng Chen, Huanzhi Shi, Daniel E. Paniz-Perez, Paul A. Paniz-Perez, Aryan L. Rishi, Jacob Dubinsky, Dylan Dubinsky, Owen Dubinsky, Sophie Baine, Lily Baine, Suzanne Arinsburg, Ian Baine, Juan David Ramirez, Carlos Cordon-Cardo, Emilia Mia Sordillo, Alberto E. Paniz-Mondolfi
Summary: Saliva is a promising specimen for detecting SARS-CoV-2, but children's dietary choices may interfere with the detection. This study found that waiting for 20 minutes after eating is sufficient for accurate testing, and fasting is not required.
JOURNAL OF MEDICAL VIROLOGY
(2022)
Article
Genetics & Heredity
Zoran Gucev, Velibor Tasic, Ivona Bogevska, Nevenka Laban, Alek Saveski, Momir Polenakovic, Dijana Plaseska-Karanfilska, Katalin Komlosi, Jennifer Winter, Susann Schweiger, Gen Nishimura, Juergen Spranger, Oliver Bartsch
EUROPEAN JOURNAL OF MEDICAL GENETICS
(2020)
Article
Genetics & Heredity
Sotirija Duvlis, Drage Dabeski, Aleksandar Cvetkovski, Kristina Mladenovska, Dijana Plaseska-Karanfilska
INTERNATIONAL JOURNAL OF IMMUNOGENETICS
(2020)
Article
Andrology
Alenka Hodzic, Ales Maver, Dijana Plaseska-Karanfilska, Momcilo Ristanovic, Predrag Noveski, Branko Zorn, Marija Terzic, Tanja Kunej, Borut Peterlin
Summary: The study identified five candidate genes potentially associated with male infertility through de novo mutations. Significant differential expression of these genes was observed in testis samples, providing limited functional support for their involvement in male infertility. The study had limitations such as a small sample size.
Article
Medicine, General & Internal
Agnieszka Latosinska, Katarina Davalieva, Manousos Makridakis, William Mullen, Joost P. Schanstra, Antonia Vlahou, Harald Mischak, Maria Frantzi
Article
Biochemical Research Methods
Katarina Davalieva, Sanja Kiprijanovska, Aleksandar Dimovski, Gorazd Rosoklija, Andrew J. Dwork
Summary: This study compared two different sample preparation methods for shotgun proteomic analysis of FFPE tissues and found that RapiGest identified more proteins, exhibited higher technical reproducibility, and showed greater similarity to fresh tissues compared to FASP. Therefore, RapiGest is recommended for biomarker and quantification studies due to its better performance in protein identification and preservation in FFPE tissues.
JOURNAL OF PROTEOMICS
(2021)
Article
Biochemistry & Molecular Biology
Blanka Stiburkova, Jana Bohata, Katerina Pavelcova, Velibor Tasic, Dijana Plaseska-Karanfilska, Sung-Kweon Cho, Ludmila Potocnakova, Jana Saligova
Summary: Renal hypouricemia (RHUC) is a rare inherited disease caused by dysfunctional variants in URAT1 and GLUT9 genes. Patients with RHUC exhibit low serum uric acid concentration, high uric acid excretion, and symptoms such as urolithiasis. A study identified common dysfunctional URAT1 allelic variants in the Roma population, suggesting that the disease is underdiagnosed.
Review
Biochemical Research Methods
Michal Alexovic, Joshua Raoul Lindner, Peter Bober, Remi Longuespee, Jan Sabo, Katarina Davalieva
Summary: In this review, recent applications of proteomic analysis of PBMCs are described and promising protein biomarker candidates are emphasized.
Article
Biochemical Research Methods
Katarina Davalieva, Aleksandar Rusevski, Milan Velkov, Predrag Noveski, Katerina Kubelka-Sabit, Vanja Filipovski, Toso Plaseski, Aleksandar Dimovski, Dijana Plaseska-Karanfilska
Summary: This study identified pathways and potential diagnostic proteins associated with azoospermia through comparative proteomics analysis of testicular tissue. Comparison with transcriptomics datasets validated the ability of these proteins to differentiate obstructive and non-obstructive azoospermia subtypes on both protein and mRNA levels.
JOURNAL OF PROTEOMICS
(2022)
Review
Biochemical Research Methods
Aleksandar Rusevski, Dijana Plaseska-Karanfilska, Katarina Davalieva
Summary: Azoospermia, the most severe form of male infertility, is no longer considered as sterility. The current diagnostic procedure based on testicular biopsy has drawbacks, prompting the development of non-invasive diagnostic procedures based on biomarkers. Proteomics studies have laid the foundation for biomarker testing in azoospermia. Future research should focus on well-designed studies and further testing of the most promising biomarkers.
PROTEOMICS CLINICAL APPLICATIONS
(2023)
Article
Medicine, General & Internal
Ivo Vujicic, Aleksandar Rusevski, Oliver Stankov, Zivko Popov, Aleksandar Dimovski, Katarina Davalieva
Summary: Currently available tests for prostate cancer clinical management are not accurate enough, and there is a clinical need to identify new molecular markers. This study collected and evaluated candidate biomarkers from published proteomic comparative studies of prostate tissue. FABP5 and ENO1 showed significant differences in protein levels between prostate cancer and benign prostatic hyperplasia (BPH). Combining FABP5, ENO1, and PSA provided the highest accuracy for prostate cancer detection. Additionally, AZGP1, FABP5, and EZR showed correlation with prognosis and clinical characteristics of prostate cancer. This study opens a way for further testing high-quality proteomic biomarkers, which could ultimately add value to the clinical management of prostate cancer.
Article
Biochemistry & Molecular Biology
Katarina Davalieva, Sanja Kiprijanovska, Ognen Ivanovski, Aleksandar Trifunovski, Skender Saidi, Aleksandar Dimovski, Zivko Popov
Summary: The high recurrence rate and invasive diagnostic methods in bladder cancer clinical management require the development of new non-invasive molecular tools for early detection and risk stratification. This study identified potential non-invasive diagnostic and prognostic markers using a new analysis method, expanding the field of bladder cancer research.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biochemical Research Methods
Michal Alexovic, Csilla Ulicna, Jan Sabo, Katarina Davalieva
Summary: This review focuses on the investigation of PBMC-derived protein biomarkers for various diseases over the past 15 years. It is found that PBMCs have shown great potential in providing early diagnostic and prognostic biomarkers for many diseases. Future research should include well-designed comparative studies and extensive testing to reveal the full potential of PBMC biomarkers identified so far.
PROTEOMICS CLINICAL APPLICATIONS
(2023)
Article
Pharmacology & Pharmacy
Ana Vavlukis, Kristina Mladenovska, Katarina Davalieva, Marija Vavlukis, Aleksandar Dimovski
Summary: This study evaluates the HDL proteome in dyslipidemic patients without established cardiovascular disease and investigates the effects of rosuvastatin treatment. The results show significant changes in the abundance of five HDL proteins after rosuvastatin treatment.
ACTA PHARMACEUTICA
(2023)
Article
Oncology
Sotirija Duvlis, Drage Dabeski, Predrag Noveski, Ljube Ivkovski, Dijana Plaseska-Karanfilska
