Article
Biochemical Research Methods
Gertrud E. Morlock, Jan A. Morlock, Ayse D. Cardak, Annabel Mehl
Summary: Veterinary drug residues in food samples of animal origin are currently analyzed using high-performance liquid chromatography combined with sophisticated mass spectrometers. However, the results of this method are only partially consistent with microbiological results and positive findings occur rarely. Therefore, the potential of a non-target planar bioassay screening in veterinary drug residue analysis was studied. The results showed that non-target screening can provide a simple, rapid, eco-friendly, and non-target analysis, filling the gap in routine target analysis.
JOURNAL OF CHROMATOGRAPHY A
(2022)
Article
Biochemistry & Molecular Biology
Anne-Marie Ray, Nilshad Salim, Mckayla Stevens, Siddhi Chitre, Sanofar Abdeen, Alex Washburn, Jared Sivinski, Heather M. O'Hagan, Eli Chapman, Steven M. Johnson
Summary: This study investigated the selective cytotoxicity of inhibitors targeting HSP60 on colorectal cancer cells, identifying 24 inhibitors with superior properties. The results suggest the potential of HSP60 as a viable chemotherapeutic target for colorectal cancer.
BIOORGANIC & MEDICINAL CHEMISTRY
(2021)
Article
Microbiology
Martha Patricia Chavez-Moctezuma, Ramiro Martinez-Camara, Julie Hernandez-Salmeron, Gabriel Moreno-Hagelsieb, Gustavo Santoyo, Eduardo Valencia-Cantero
Summary: Quorum sensing is a bacterial cell-cell communication system that is genetically regulated and dependent on cell density. This study found that in Arthrobacter sp. UMCV2, multiple luxR-related genes are induced when quorum sensing behavior is produced through the bacterial biocompound DMHDA.
FRONTIERS IN MICROBIOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Goro Kato
Summary: This review discusses the structural and functional aspects of Src protein and its regulatory mechanism. By reviewing nuclear magnetic resonance analyses and recent studies, the authors explore new characteristics and regulatory roles of Src protein. Finally, the new regulatory roles are integrated with the canonical model to elucidate the functions of full-length Src.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemical Research Methods
Tamara Schreiner, Gertrud E. Morlock
Summary: The challenge of identifying individual bioactive compounds in complex mixtures can be addressed by the development of an eight-dimensional hyphenation technique. This technique combines multiple separation and detection methods to efficiently analyze samples and identify bioactive compounds. The use of online analyte trapping, desalting, and multiple detection steps allows for high-throughput screening of complex samples for individual bioactive compounds.
JOURNAL OF CHROMATOGRAPHY A
(2021)
Article
Plant Sciences
Sabine Brumm, Manoj K. Singh, Choy Kriechbaum, Sandra Richter, Kerstin Huhn, Tim Kucera, Sarah Baumann, Hanno Wolters, Shinobu Takada, Gerd Juergens
Summary: Evolutionary changes following gene duplication can lead to functional differences in paralogous proteins. In this study, GNOM and GNL1, two paralogous proteins in Arabidopsis, were found to form homodimers but not heterodimers. Heterodimer formation between GNOM and GNL1 was shown to result in developmental defects. The interaction between the N-terminal dimerization and cyclophilin-binding (DCB) domain was found to play a crucial role in preventing the formation of detrimental GNOM-GNL1 heterodimers.
Article
Biochemistry & Molecular Biology
Daniele Novarina, Paolo Guerra, Andreas Milias-Argeitis
Summary: The study reveals that the N-terminal domain of Sch9 is crucial for its vacuolar localization and TORC1-dependent phosphorylation. Deletion of the N-terminal domain, but not the C2 domain, leads to Sch9 delocalization and growth defects, which can be reversed through artificial tethering to the vacuole or introducing phosphomimetic mutations at TORC1 target sites.
JOURNAL OF MOLECULAR BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Miranda P. Collier, Karen Betancourt Moreira, Kathy H. Li, Yu-Chan Chen, Daniel Itzhak, Rahul Samant, Alexander Leitner, Alma Burlingame, Judith Frydman
Summary: The study characterized recombinant human TRiC (hTRiC) using mass spectrometry techniques, revealing post-translational processing of its subunits. Interestingly, some subunits can promiscuously re-assemble into dimers with non-canonical contacts. CCT5 was found to be the most stable subunit and engaged in the greatest number of non-canonical dimer pairings.
SCIENTIFIC REPORTS
(2021)
Article
Cell Biology
Guanlan Fan, Fan Wang, Yurou Chen, Qian Zheng, Jie Xiong, Qiongying Lv, Kejia Wu, Jiaqiang Xiong, Lei Wei, Dongqing Li, Jiachen Zhang, Wei Zhang, Feng Li
Summary: In this study, OTUD1 is identified as an Akt-associated protein and is downregulated upon Akt activation. Ectopic OTUD1 inhibits Akt phosphorylation, and a short peptide (OUN-36) located in the OTUD1 N-terminal intrinsically disordered region strongly binds to the Akt PH domain. OUN-36-based therapy efficiently abrogates Akt feedback reactivation and sensitizes cancer cells to chemotherapy and immunotherapy.
Article
Engineering, Aerospace
Wanqing Zhang, Wanchun Chen, Wenbin Yu
Summary: A new guidance law is proposed to target a maneuvering target with impact angle and terminal acceleration constraints. The impact angle constraint is addressed by solving an optimal guidance problem with time-varying target's maneuvering acceleration. The closed-form solutions of the new guidance are derived and a linear time-varying system is obtained for analytical solving. The stability domain of the guidance coefficients is determined by analyzing the generalized solutions, ensuring the convergence of missile's maneuvering acceleration to zero.
Article
Chemistry, Medicinal
Anand Divakaran, Cole R. Scholtz, Huda Zahid, Wenwei Lin, Elizabeth C. Griffith, Richard E. Lee, Taosheng Chen, Daniel A. Harki, William C. K. Pomerantz
Summary: Targeted protein degradation is a powerful tool for controlling cellular protein concentrations. In this study, the researchers designed a selective inhibitor of the first BRD4 bromodomain and developed a selective degrader for BRD4. This approach allowed for specific degradation of BRD4 without inhibiting other BET family members such as BRD2/3.
ACS MEDICINAL CHEMISTRY LETTERS
(2022)
Article
Medicine, Research & Experimental
Naveenchandra Suryadevara, Andrea R. Shiakolas, Laura A. VanBlargan, Elad Binshtein, Rita E. Chen, James Brett Case, Kevin J. Kramer, Erica C. Armstrong, Luke Myers, Andrew Trivette, Christopher Gainza, Rachel S. Nargi, Christopher N. Selverian, Edgar Davidson, Benjamin J. Doranz, Summer M. Diaz, Laura S. Handal, Robert H. Carnahan, Michael S. Diamond, Ivelin S. Georgiev, James E. Crowe
Summary: This study identifies a rare human antibody, COV23434, that disrupts the integrity of the SARS-CoV-2 S protein and possesses a distinct class of functional activity. The findings suggest that the trimer interface region of the S protein may be a vulnerable site for the virus.
JOURNAL OF CLINICAL INVESTIGATION
(2022)
Article
Biochemistry & Molecular Biology
Alexandra D. Gurzau, Christopher R. Horne, Yee-Foong Mok, Megan Iminitoff, Tracy A. Willson, Samuel N. Young, Marnie E. Blewitt, James M. Murphy
Summary: SMCHD1 is an epigenetic regulator that mediates gene expression silencing, and dimerization of its N-terminal ATPase and C-terminal SMC hinge domains plays a crucial role in its function. The targeted deletion of the N-terminal UBL domain disrupts the localization of SMCHD1 to chromatin in cells, indicating its importance for chromatin interaction.
BIOCHEMICAL JOURNAL
(2021)
Article
Virology
Chelsea T. Barrett, Hadley E. Neal, Kearstin Edmonds, J. Lizbeth Reyes Zamora, Carole L. Moncman, Andreea Popa, Everett Clinton Smith, Stacy R. Webb, Rebecca Ellis Dutch
Summary: Hendra virus uses two surface glycoproteins to infect host cells, with the TM region of the F protein playing a key role in stability and fusion. Mutations at residues M491 and L492 have been shown to alter F protein function, indicating their involvement in the fusion process.
Article
Biochemistry & Molecular Biology
Femi Olawale, Opeyemi Iwaloye, Olusola Olalekan Elekofehinti
Summary: The over-expression of PLK1 is linked to cancer prognosis, and this study identified potential inhibitors by targeting the NCD and PBD domains of PLK1 through pharmacophore modeling and molecular docking. The hit compounds showed promising inhibitory activity and drug-like properties for further experimental validation.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Biochemistry & Molecular Biology
Andrew G. Kessenikh, Uliana S. Novoyatlova, Sergey Bazhenov, Eugeniya A. Stepanova, Svetlana A. Khrulnova, Eugeny Yu Gnuchikh, Vera Yu Kotova, Anna A. Kudryavtseva, Maxim Bermeshev, Ilya Manukhov
Summary: A new lux-biosensor based on Bacillus subtilis was developed for detecting DNA-tropic and oxidative stress-causing agents. The biosensors showed increased sensitivity to certain toxicants compared to E. coli-based lux-biosensors. They can be used for studying mechanisms of toxicity against different types of bacteria.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Sergey Bazhenov, Olga Melkina, Vadim Fomin, Ekaterina Scheglova, Pavel Krasnik, Svetlana Khrulnova, Gennadii Zavilgelsky, Ilya Manukhov
Summary: LitR acts as a master-regulator of gene expression in QS systems of bacteria from Vibrio and Aliivibrio genera, upregulating key genes such as luxI, luxCDABE, and luciferase. This upregulation is independent of luxR gene and depends on lux-box sequence in the luxI promoter.
Article
Biochemistry & Molecular Biology
Olga E. Melkina, Vladimir A. Plyuta, Inessa A. Khmel, Gennadii B. Zavilgelsky
Summary: This study investigated the mechanisms of action of two volatile organic compounds on bacteria and found that (-)-limonene induces oxidative stress leading to DNA, protein, and membrane damage, while (+)-alpha-pinene only induces heat shock in bacteria. Additionally, it was shown that (-)-limonene completely inhibits the refolding process of heat-inactivated bacterial luciferase, while (+)-alpha-pinene partially inhibits this process in a mutant strain.
Article
Chemistry, Analytical
Sergey Bazhenov, Uliana Novoyatlova, Ekaterina Scheglova, Vadim Fomin, Svetlana Khrulnova, Olga Melkina, Vladimir Chistyakov, Ilya Manukhov
Summary: The study focused on the impact of luxR gene expression level on cell functionality in the LuxI/R QS system, showing that increasing the expression level and dosage of the regulatory gene can enhance sensitivity of the biosensor to autoinducers and reduce response time. The best parameters were achieved with an increased dosage of A. fischeri luxR, reaching a sensitivity of 30-100 pM to the autoinducer.
Article
Biotechnology & Applied Microbiology
E. Yu. Gnuchikh, I. V. Manukhov, G. B. Zavilgelsky
Summary: Plasmids were constructed to study the activities of promoters in Bacillus subtilis cells, showing that inducible promoters had higher responses to D(+)-xylose but were sensitive to glucose repression. Lux sensors with bacterial luciferases as reporter proteins assessed the influence of DnaKJE and TF chaperones on enzyme synthesis levels.
APPLIED BIOCHEMISTRY AND MICROBIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Alexey V. Vlasov, Stepan D. Osipov, Nikolay A. Bondarev, Vladimir N. Uversky, Valentin Borshchevskiy, Mikhail F. Yanyushin, Ilya Manukhov, Andrey Rogachev, Anastasiia D. Vlasova, Nikolay S. Ilyinsky, Alexandr Kuklin, Norbert A. Dencher, Valentin Gordeliy
Summary: ATP synthases are unique molecular machines that synthesize ATP and play important roles in cellular bioenergetics. Understanding their structure and function can lead to the development of new therapies and tools for controlling cellular energy.
CELLULAR AND MOLECULAR LIFE SCIENCES
(2022)
Article
Genetics & Heredity
S. Bazhenov, E. S. Scheglova, V. V. Fomin, G. B. Zavilgelsky, I. Manukhov
Summary: This study investigates the regulation of the lux regulon in the psychrophilic marine luminescent bacteria Aliivibrio logei. The researchers determined the properties of autoinducer-dependent regulation of the luxI and luxCDABEG genes and found that the expression of these genes is enhanced at different concentrations of the autoinducer.
RUSSIAN JOURNAL OF GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Dmitrii M. Bubnov, Tigran Yuzbashev, Andrey A. Khozov, Olga E. Melkina, Tatiana V. Vybornaya, Guy-Bart Stan, Sergey P. Sineoky
Summary: This study proposes a straightforward and robust approach for the markerless integration of DNA fragments encoding whole metabolic pathways into the genome of bacteria. By utilizing the Ocr antirestriction function of T7 phage, along with highly restrictive counterselection and lambda Red recombineering, the efficiency of integrating operon-sized cassettes into arbitrary genomic loci of four enterobacterial species is significantly improved, reaching 50-100%.
NUCLEIC ACIDS RESEARCH
(2022)
Review
Biochemistry & Molecular Biology
Vsevolod V. Sudarev, Sofya M. Dolotova, Siarhei M. Bukhalovich, Sergey V. Bazhenov, Yury L. Ryzhykau, Vladimir N. Uversky, Nikolay A. Bondarev, Stepan D. Osipov, Anatolii E. Mikhailov, Daria D. Kuklina, Tatiana N. Murugova, Ilya V. Manukhov, Andrey V. Rogachev, Valentin I. Gordeliy, Ivan Yu. Gushchin, Alexander I. Kuklin, Alexey V. Vlasov
Summary: Ferritin is a crucial protein complex that stores iron and plays various roles in metabolic pathways, inflammation, stress response, and disease development. This review emphasizes the importance of ferritin in disease, cellular iron regulation, its structure, and its applications in biotechnology. The molecular mechanisms of ferritin self-assembly are essential for biotechnological and pharmaceutical purposes, and different self-assembly pathways have been proposed. This review compares these mechanisms and discusses the potential to control self-assembly by switching between intermediate states.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Biochemistry & Molecular Biology
Vladimir Burmistrov, Christophe Morisseau, Denis A. Babkov, Tatiana Golubeva, Dmitry Pitushkin, Elena Sokolova, Vladimir Vasipov, Yaroslav Kuznetsov, Sergey Bazhenov, Uliana S. Novoyatlova, Nikolay A. Bondarev, Ilya Manukhov, Victoria Osipova, Nadezhda Berberova, Alexander A. Spasov, Gennady M. Butov, Bruce D. Hammock
Summary: The newly synthesized inhibitor compounds showed effective inhibitory activity against inflammation and exhibited low cytotoxicity in cell assays.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Nikolay Bondarev, Karina Ivanenko, Elmira Khabusheva, Timofey Lebedev, Ilya Manukhov, Vladimir Prassolov
Summary: Methionine dependence is a hallmark of malignant cells, and deprivation of methionine can induce cancer cell death. The genetically engineered protein MGL S3 can effectively reduce the number of cancer cells from multiple origins and induce cell death through apoptosis and downregulation of ERK activity. High expression of certain genes in the methionine metabolism pathway is associated with poor prognosis in breast cancer and neuroblastoma patients, and there is a strong correlation between EGFR dependency and DNMT3A/CBS expression in these cancers. Furthermore, MGL S3 enhances the sensitivity of H1299 cells to EGFR inhibitor gefitinib.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Chemistry, Analytical
Uliana S. Novoyatlova, Andrei G. Kessenikh, Olga V. Kononchuk, Sergey V. Bazhenov, Alexander A. Fomkin, Anna A. Kudryavtseva, Sergey V. Shorunov, Maxim V. Bermeshev, Ilya V. Manukhov
Summary: In this study, the genotoxic properties of dicyclopropanated 5-vinyl-2-norbornene (dcpVNB) were investigated using biosensors based on Escherichia coli and Bacillus subtilis. It was found that dcpVNB induces DNA damage, triggers SOS response and Dps expression, and activates the OxyR-mediated response to oxidative stress. The sensitivity of the biosensors based on B. subtilis and E. coli to dcpVNB was comparable, indicating similar permeability of the cell walls of Gram-positive and Gram-negative bacteria to this compound. Furthermore, structural changes in hydrocarbons can significantly alter their mode of toxicity, as demonstrated by the comparison with 2-ethyl(bicyclo[2.2.1]heptane) (EBH) lacking cyclopropanated groups.
Article
Multidisciplinary Sciences
V. V. Fomin, S. V. Bazhenov, O. V. Kononchuk, V. O. Matveeva, A. P. Zarubina, S. E. Spiridonov, I. V. Manukhov
Summary: The transcription of Photorhabdus luminescens lux-operon increases significantly under high temperature, and this increase is associated with an increase in the transcription of luxCDABE genes.
Article
Biochemistry & Molecular Biology
O. E. Melkina, G. B. Zavilgelsky
Summary: ArdA anti-restriction proteins inhibit the restriction activity of the RM system, and the N domain of ArdA proteins from different bacteria can overcome intercellular restriction barriers by inhibiting H-NS, enabling faster horizontal gene transfer.
