Article
Chemistry, Multidisciplinary
Sneh M. Toprani, Dimitrios Bitounis, Qiansheng Huang, Nathalia Oliveira, Kee Woei Ng, Chor Yong Tay, Zachary D. Nagel, Philip Demokritou
Summary: The potential genotoxic effects of engineered nanomaterials (ENMs) on DNA repair pathways have been investigated using a fluorescence multiplex-host-cell reactivation (FM-HCR) assay. Results showed that some ENMs may enhance DNA repair capacity while others suppress it. This method can be a valuable part of a multitier, in vitro hazard assessment of ENMs, providing insights into the interplay between ENM properties, DNA repair efficiency, and genomic stability.
Article
Chemistry, Medicinal
Zhongyuan Luo, Daohai Du, Yanjun Liu, Tian Lu, Liping Liu, Hualiang Jiang, Kaixian Chen, Changliang Shan, Cheng Luo
Summary: A new high-throughput screening method was developed to discover G6PD inhibitors, with Wedelolactone identified as a strong inhibitor in a non-competitive, reversible manner, as confirmed by surface Plasmon Resonance assay. The study also showed the inhibitory effect of Wedelolactone on ovarian cancer cell proliferation through targeting G6PD.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2021)
Article
Pharmacology & Pharmacy
Yihui Song, Min Zhao, Yahong Wu, Bin Yu, Hong-Min Liu
Summary: A high-throughput screening protocol was developed to discover SHP2 inhibitors, resulting in the identification of new SHP2-PTP inhibitors and allosteric inhibitors. These inhibitors showed potential for targeting cancer-associated SHP2 mutations.
ACTA PHARMACEUTICA SINICA B
(2021)
Article
Chemistry, Analytical
Guo-Ying Chen, Hao Zhang, Feng-Qing Yang
Summary: A simple and portable enzyme activity assay and inhibitor screening method based on beta-Glucosidase-mediated cascade reaction in a personal glucose meter (PGM) was developed in this study, allowing for direct determination of glucose and saligenin. The results showed that tea polyphenol extracts and certain compounds in bitter almonds exhibited inhibitory effects on beta-Glucosidase.
ANALYTICA CHIMICA ACTA
(2021)
Article
Pharmacology & Pharmacy
Moushimi Amaya, Han Cheng, Viktoriya Borisevich, Chanakha K. Navaratnarajah, Roberto Cattaneo, Laura Cooper, Terry W. Moore, Irina N. Gaisina, Thomas W. Geisbert, Lijun Rong, Christopher C. Broder
Summary: The study developed a high-throughput screening platform based on a recombinant version of Cedar virus to accelerate the development of anti-henipavirus drugs. Through screening and validation of compounds, potential compounds with potent antiviral activity were identified.
ANTIVIRAL RESEARCH
(2021)
Article
Multidisciplinary Sciences
Parisa Shiri, Veronica Lai, Tara Zepel, Daniel Griffin, Jonathan Reifman, Sean Clark, Shad Grunert, Lars P. E. Yunker, Sebastian Steiner, Henry Situ, Fan Yang, Paloma L. Prieto, Jason E. Hein
Summary: Solubility screening is essential but labor intensive. By developing a flexible robotic system with computer vision and iterative feedback, researchers can successfully measure solubility in multiple solvents autonomously, saving time and resources.
Review
Biochemical Research Methods
Lihao Fu, Erpeng Guo, Jianzhi Zhang, Keyi Li, Yongcan Chen, Tong Si
Summary: Microbial cell factories play a crucial role in converting renewable feedstocks into chemicals and materials. The lack of predictive modeling has made high-throughput screening essential for microbial strain engineering. Mass spectrometry (MS) has emerged as a powerful tool for label-free detection, offering high sensitivity and chemical specificity. Recent advancements in rapid MS assays have significantly improved screening efficiency for microbial libraries, approaching a rate of one sample per second. However, unique challenges in MS screening of strain libraries need to be addressed for future solutions.
CURRENT OPINION IN BIOTECHNOLOGY
(2022)
Article
Chemistry, Analytical
Chao Wang, Zhenhao Tian, Yifei Wang, Ming Zhang, Baojing Zhang, Lei Feng, Xiangge Tian, Huilian Huang, Jingnan Cui, Xiaochi Ma
Summary: A fluorescent probe activated by an enzyme was designed to detect bacterial gamma-GT activity, allowing real-time monitoring and in vitro imaging of various bacteria. Additionally, a high-throughput screening system was established to identify novel inhibitors of bacterial gamma-GT from natural compounds and herbal medicines library. Baicalein, myricetin and amaronol A from herbal medicines were confirmed as bacterial gamma-GT inhibitors for the first time.
SENSORS AND ACTUATORS B-CHEMICAL
(2021)
Article
Chemistry, Analytical
Weiwei Tang, Andrew Gordon, Hui-ying Wang, Ping Li, Jun Chen, Bin Li
Summary: The development of a peptide array platform for the discovery of natural thrombin inhibitors was described. This platform allowed for the investigation and screening of thrombin activity and its potential inhibitors, as well as monitoring and visualization of the anti-thrombin activity of grape seed proanthocyanidins with different degrees of polymerization.
Article
Biochemistry & Molecular Biology
Ji-Dong Shen, Xue Cai, Zhi-Qiang Liu, Yu-Guo Zheng
Summary: In this study, a novel fluorescent probe Rho-IDA-CoII was synthesized and successfully used to label and detect His-tagged proteins. The recombinant Bacillus subtilis strain capable of secreting NHase was screened using this probe, and high NHase activity was achieved.
Article
Agriculture, Multidisciplinary
Chao Li, Wei Zhang, Cancan Wei, Xin Gao, Shuhong Mao, Fuping Lu, Hui-Min Qin
Summary: A continuous spectrophotometric assay (CSA) was developed for the efficient analysis of D-allulose in a mixture, with a high-throughput screening strategy for DAEases being developed by coupling it with a NADH-dependent ribitol dehydrogenase. The identified variant showed improved thermostability and activity due to the formation of new hydrogen bonds, providing a robust tool and theoretical basis for the enhancement of DAEases.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2021)
Article
Biotechnology & Applied Microbiology
Kelly M. Zatopek, Samantha L. Fossa, Katharina Bilotti, Paul J. Caffrey, Lea Chuzel, Alexandra M. Gehring, Gregory J. S. Lohman, Christopher H. Taron, Andrew F. Gardner
Summary: This study presents a rapid, simple, high-throughput method to discover novel archaeal nucleic acid modifying enzymes by utilizing a fosmid genomic library, next-generation sequencing, and capillary electrophoresis. The methodology described provides a fast and efficient way to explore the T. kodakarensis genome for a variety of nucleic acid modifying activities and may have implications for similar exploration of enzymes and pathways in other Archaea.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Oksana V. Salomatina, Nadezhda S. Dyrkheeva, Irina I. Popadyuk, Alexandra L. Zakharenko, Ekaterina S. Ilina, Nina I. Komarova, Johannes Reynisson, Nariman F. Salakhutdinov, Olga I. Lavrik, Konstantin P. Volcho
Summary: The deoxycholic acid amide derivatives were found to inhibit both TDP1 and TDP2, with tryptamide 5 and para-bromoanilide 8 showing excellent activity and enhancing the cytotoxicity of topotecan.
Article
Biophysics
Min Li, Huijuan Yu, Yiran Li, Xin Li, Shiqing Huang, Xiaogang Liu, Gaoqi Weng, Lei Xu, Tingjun Hou, Dong-Sheng Guo, Yi Wang
Summary: By utilizing supramolecular chemistry and artificial peptide library, a turn-on fluorescent sensing system for intracellular imaging of histone deacetylase 1 (HDAC1) was developed, allowing specific and highly sensitive detection, and a novel HDAC1 down-regulator was identified through high-throughput screening.
BIOSENSORS & BIOELECTRONICS
(2023)
Article
Biochemistry & Molecular Biology
Elizaveta D. Gladkova, Arina A. Chepanova, Ekaterina S. Ilina, Alexandra L. Zakharenko, Johannes Reynisson, Olga A. Luzina, Konstantin P. Volcho, Olga I. Lavrik, Nariman F. Salakhutdinov
Summary: Novel polycyclic berberine derivatives with sultone ring showed high inhibitory activity against DNA-repair enzyme Tdp1, making them potential candidates for adjuvant therapy against cancer. The active compounds demonstrated micromolar and submicromolar activity levels, while inactive acyclic analogs and sulfonates were not effective. Molecular modeling confirmed the significance of sultone cycle and bromine substituent in binding with the enzyme, showing potential synergy with clinical topoisomerase 1 poison topotecan.
Article
Chemistry, Inorganic & Nuclear
Burak Ay, Ilyas Gonul, Burcu Saygideker Demir, Yasemin Saygideger, Ibrahim Kani
INORGANIC CHEMISTRY COMMUNICATIONS
(2020)
Article
Multidisciplinary Sciences
Aleksandar Zdravkovic, James M. Daley, Arijit Dutta, Tatsuya Niwa, Yasuto Murayama, Shuji Kanamaru, Kentaro Ito, Takahisa Maki, Bilge Argunhan, Masayuki Takahashi, Hideo Tsubouchi, Patrick Sung, Hiroshi Iwasaki
Summary: The Mre11-Rad50-Nbs1 complex is critical for repairing DNA double-strand breaks through homologous recombination, with its endonuclease activity being stimulated by Ctp1 phosphorylation. The recruitment of the highly conserved extreme C terminus of Ctp1 plays a pivotal role in the activation of the Mre11 endonuclease. This stimulatory mechanism appears to be generalizable to the human CtIP equivalent, suggesting an evolutionary conservation of this function.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Chemistry, Multidisciplinary
Maria G. Babashkina, Antonio Frontera, Alexander Kertman, Yasemin Saygideger, Swaminathan Murugavel, Damir A. Safin
Summary: Favipiravir molecule features a flat structure with a pseudo-aromatic ring stabilized by an intramolecular hydrogen bond. The crystal packing is mainly constructed through intermolecular hydrogen bonds, leading to a 3D supramolecular framework. The crystal structure is further stabilized by weak dihalogen interactions and the energy frameworks suggest dispersion energy as the main contributor.
JOURNAL OF THE IRANIAN CHEMICAL SOCIETY
(2022)
Article
Biochemistry & Molecular Biology
Burcu Saygideger Demir, Ghodrat Mahmoudi, Aycan Sezan, Ezgi Derinoz, Eylem Nas, Yasemin Saygideger, Fedor Zubkov, Ennio Zangrando, Damir A. Safin
Summary: In this study, the antitumor properties of a series of pincer-type metallocomplexes were reported. Complexes 1 and 2 showed the highest efficiency against the Huh7 cell line, while complex 3·MeOH exhibited lower efficiency towards all three cell lines. The cytotoxic effects and antitumor activity of the metallocomplexes were influenced by the metal nature and the presence of coordinated halide.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2021)
Article
Chemistry, Multidisciplinary
Demet Tasdemir Kahraman, Aysegul Karakucuk-Iyidogan, Yasemin Saygideger, Emine Elcin Oruc-Emre, Tugba Taskin-Tok, Eyup Basaran, Sedat Ilhan, Burcu Saygideger Demir, Aykut Uren, Hasan Bayram
Summary: This study synthesized multiple chiral compounds and identified potential target compounds for treating lung cancer, with compound 6a showing promise as a HIF-1 beta inhibitor candidate. The cytotoxic activity and apoptotic effects of these compounds, as well as their HIF-1 beta inhibitory properties, were evaluated, emphasizing the importance of selective HIF inhibitors in lung cancer treatment.
NEW JOURNAL OF CHEMISTRY
(2022)
Review
Public, Environmental & Occupational Health
Yasemin Saygideger, Hakan Ozkan, Oya Baydar, Ozge Yilmaz
Summary: There is growing evidence on the association between childhood adversity and vulnerability to chronic diseases, including epigenetic influences that contribute to the development of these diseases. This research focused on asthma and hypothesized that childhood adversity may cause epigenetic changes in the asthma-related genes of individuals who experienced childhood trauma. The systematic review found that several genes and pathways associated with asthma, inflammation, and response to treatment were epigenetically affected by childhood traumas. These findings highlight the importance of considering childhood adversity and its impact on DNA epigenetic changes in the development and course of asthma.
JOURNAL OF DEVELOPMENTAL ORIGINS OF HEALTH AND DISEASE
(2022)
Article
Microbiology
Oya Baydar Toprak, Ashhan Candevir, Suheyla Komur, Ferit Kuscu, Ayse Seza Inal, Yasemin Saygider, Behice Kurtaran, Ezgi Ozyilmaz, Efraim Guzel, Yesim Tasova
Summary: Nosocomial infections occur in approximately 7% of patients in the COVID-19 intensive care unit, resulting in high mortality rates. The most common type of infection is lower respiratory tract infection, with most infections caused by a single microorganism, notably A. baumannii and K. pneumoniae. Regular microbiological follow-up and strict infection control measures are recommended to prevent antimicrobial resistance development.
FLORA INFEKSIYON HASTALIKLARI VE KLINIK MIKROBIYOLOJI DERGISI
(2022)
Article
Biochemistry & Molecular Biology
Busra Ozlem Kilinc, Duygu Godelek, Ozge Sufer, Burcu Saygideger Demir, Aycan Sezan, Yasemin Saygideger, Fuat Bozok
Summary: The purpose of this study was to determine the chemical compositions, antioxidant and anticancer activities and thermal behavior of essential oils obtained from different types of mint plants in Osmaniye, Turkey. The results showed that the mint plant oils had varying chemical compositions and exhibited antioxidant and anticancer activities. The study also assessed the thermal behavior of the oils.
CHEMISTRY & BIODIVERSITY
(2022)
Article
Medicine, General & Internal
Oya Baydar Toprak, Ezgi Ozyilmaz, Yasemin Saygideger, Efraim Guzel
Summary: This study aimed to assess the value of blood-derived biomarkers in patients with idiopathic pulmonary fibrosis (IPF). The results showed no significant correlation between matrix metalloproteinase (MMP) levels and IPF prognostic markers, pulmonary function tests, or disease severity. However, these biomarkers could potentially be used in cutting-edge treatment strategies, warranting further investigation in larger studies.
CUKUROVA MEDICAL JOURNAL
(2022)
Article
Chemistry, Physical
Tirtha Bhattacharjee, Suman Adhikari, Afzal Hussain Sheikh, Ghodrat Mahmoudi, Sixberth Mlowe, Matthew P. Akerman, Nurul Alam Choudhury, Surajit Chakraborty, Raymond J. Butcher, Alan R. Kennedy, Burcu Saygideger Demir, Aylin oers, Yasemin Saygideger
Summary: This work presents the synthesis and characterization of a Schiff-base ligand and its chelate with a Ni(II) salt. The solid state structures and non-covalent interactions were studied using spectral techniques, density functional theory, and surface analysis. Additionally, the anticancer activity of the compound was investigated.
JOURNAL OF MOLECULAR STRUCTURE
(2022)
Article
Pharmacology & Pharmacy
Burcu Saygideger Demir, Simay Ince, Mustafa Kemal Yilmaz, Aycan Sezan, Ezgi Derinoz, Tugba Taskin-Tok, Yasemin Saygideger
Summary: This study investigates the DNA-binding ability of Pd(II) and Pt(II) complexes of four phosphorus Schiff base ligands and four hydrazonoic-phosphines through in silico analyses and experimental validation. The synthesized Pd(II) complexes with the best DNA-binding potential are further characterized. The antitumor properties of these complexes are demonstrated in vitro in different cancer cells, and the mechanisms of cell death are elucidated.
Article
Medicine, General & Internal
Efraim Guzel, Oya Baydar Toprak, Yasemin Saygideger, Ismail Hanta, Saime Paydas, Bulent Kaya, Yesim Tasova
Summary: This study investigates the clinical features of COVID-19 in kidney transplant recipients (KTRxs) and highlights the severe and fatal course of the disease in this population. The findings suggest that KTRxs with COVID-19 should be admitted to the hospital for constant monitoring, and effective management techniques should be initiated early based on clinical circumstances.
CUKUROVA MEDICAL JOURNAL
(2022)
Article
Infectious Diseases
Aslihan Candevir, Damla Erturk, Ferit Kuscu, Sueheyla Komur, Yasemin Saygideger, A. Seza Inal, Ezgi Ozyilmaz, Behice Kurtaran, Yesim Tasova
Summary: A retrospective single-center cohort study was conducted to investigate the characteristics of exposure to SARS-CoV-2 among healthcare workers and determine the risk of COVID-19 development. The study found that exposure to SARS-CoV-2-positive healthcare workers posed a greater risk compared to contact with patients.
JOURNAL OF INFECTION IN DEVELOPING COUNTRIES
(2023)
Article
Medicine, General & Internal
Syed Ali Raza Shah, Hazir Rahman, Muhammad Qasim, Muhammad Safwan Akram, Yasemin Saygideger, Nanda Puspita, Burcu Saygideger Demir, Khalid J. Alzahrani, Muhammad Fayyaz Ur Rehman, Fuad M. Alzahrani, Mohamed A. Alblihd
Summary: This study conducted a proteomic analysis on Helicobacter pylori isolates from patients with gastritis, ulcer, and gastric cancer. The results revealed three distinct protein signatures with differential expression in these gastric diseases. These findings provide insights into the virulence and pathogenesis of H. pylori.
MEDICINA-LITHUANIA
(2022)
Article
Oncology
Yasemin Saygideger, Alper Avci, Emine Bagir, Burcu Saygideger Demir, Aycan Sezan, Mucahit Ekici, Oya Baydar, Ozgur Cem Erkin
Summary: In this study, the molecular mechanism of Skip N2 metastasis in non-small cell lung cancer tissues was investigated. The results showed that Skip N2 tumor tissues had a different molecular background, and the regulation of SLUG expression may play a role in orchestrating the process.