Article
Cell Biology
Chun-Yi Cho, James P. Kemp, Robert J. Duronio, Patrick H. O'Farrell
Summary: Collisions between DNA replication forks and transcribing RNA polymerases disrupt gene transcription, especially during the rapid cell cycles of early embryonic development. Replication dependency defers the onset of transcription to maintain orderly progression and avoid conflicts between transcription and replication.
Article
Biochemistry & Molecular Biology
Gustavo Carvalho, Bruno Marcal Repoles, Isabela Mendes, Paulina H. Wanrooij
Summary: Research has focused on maintenance and instability of mitochondrial DNA, exploring the role of DNA repair factors in mitochondria and the connection between mtDNA damage and immune response. Future studies should delve into mechanisms by which mitochondria maintain mtDNA, the balance between repair and degradation, as well as the release of mtDNA into the cytosol.
ANTIOXIDANTS & REDOX SIGNALING
(2022)
Article
Gastroenterology & Hepatology
Kaitao Zhao, Fangteng Guo, Jingjing Wang, Youquan Zhong, Junzhu Yi, Yan Teng, Zaichao Xu, Li Zhao, Aixin Li, Zichen Wang, Xinwen Chen, Xiaoming Cheng, Yuchen Xia
Summary: We investigated the process of HBV infection in murine hepatic cells and found that HBV cannot infect murine hepatic cells expressing hNTCP effectively. Moreover, we discovered that the disassembly of cytoplasmic HBV nucleocapsids is restricted in murine hepatic cells. Overcoming this limitation may help to establish an HBV infection mouse model.
Article
Cell Biology
Rachel A. Hoffman, Heather K. MacAlpine, David M. MacAlpine
Summary: This study provides insights into helicase activation within origin chromatin and its regulation in the absence of DNA replication. Activation of the helicase disrupts and disorganizes chromatin, extending up to 1 kb from early replication origins. The local sequence context plays a role in regulating helicase progression when uncoupled from replication.
GENES & DEVELOPMENT
(2021)
Article
Biochemical Research Methods
Kilian Vogele, Elisabeth Falgenhauer, Sophie von Schonberg, Friedrich C. Simmel, Tobias Pirzer
Summary: Cell-free systems allow interference with gene expression processes using small DNA molecules complementary to the mRNA, achieving significant reduction in gene expression. This technique was successfully applied to modulate gene expression from the native T7 phage genome, leading to improved gene replication and amplification in droplet-based experiments.
ACS SYNTHETIC BIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Hui Zhang
Summary: DNA replication licensing is tightly regulated in eukaryotic cells to ensure proper replication initiation and prevent re-replication, with key mechanisms involving degradation of Cdt1 protein by CRL4(Cdt2) ubiquitin E3 ligase. The interaction between Cdt1 and PCNA, facilitated by the PIP box domain, plays a crucial role in this process, highlighting the importance of regulating DNA replication and genome stability.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Cell Biology
Shan Qiu, Guixing Jiang, Liping Cao, Jun Huang
Summary: Replication fork reversal is a critical protective mechanism in higher eukaryotic cells in response to replication stress, where forks change direction to form a Holliday junction-like structure for protection, with DNA damage repair proteins playing important roles.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Cell Biology
Erin Bonnell, Emeline Pasquier, Raymund J. Wellinger
Summary: Telomeres, crucial for maintaining genomic stability, pose challenges for replication due to their repetitive nature and the formation of secondary structures, leading to replication fork stalling. Multiple mechanisms are involved in overcoming these obstacles to ensure efficient telomeric DNA duplication and preserve genome integrity.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Oncology
Jonathan J. Morgan, Lisa J. Crawford
Summary: This article examines the importance of genomic stability in tumour development and the role of ubiquitination in maintaining genome integrity. Faithful DNA replication during cell division is crucial for genome stability, and dysregulation of the UPS may contribute to cancer progression.
Article
Biochemistry & Molecular Biology
Sophie L. Williams, Corella S. Casas-Delucchi, Federica Raguseo, Dilek Guneri, Yunxuan Li, Masashi Minamino, Emma E. Fletcher, Joseph T. P. Yeeles, Ulrich F. Keyser, Zoe A. E. Waller, Marco Di Antonio, Gideon Coster
Summary: This study investigates the effects of physiological quadruplex secondary structures on genome stability by reconstituting eukaryotic DNA replication in vitro. G-quadruplexes (G4s) and intercalated Motifs (iMs) are found to form during replication and thereby induce replisome stalling, leading to helicase-polymerase uncoupling and nascent DNA breakage. A single physiological G4 or iM structure stalls the eukaryotic replisome by inhibiting leading strand synthesis. Helicase-polymerase uncoupling occurs following replication stalling at G4s. iMs can induce breakage on nascent DNA. Stalled forks at G4s or iMs can be rescued by the accessory helicase Pif1. In vitro reconstitution shows that a single physiological G4 or iM secondary structure stalls the eukaryotic replisome by inhibiting leading strand synthesis.
Article
Multidisciplinary Sciences
Sebastian Zeltzer, Pierce Longmire, Marek Svoboda, Giovanni Bosco, Felicia Goodrum
Summary: Human cells have multiple specialized DNA polymerases for chromosomal DNA synthesis and repair, while complex DNA viruses may rely on host polymerases for synthesis. This study shows that error-prone Y-family polymerases can restrict human cytomegalovirus genome synthesis, while other TLS polymerases are required for optimal replication. Host polymerases also suppress viral genome rearrangements, indicating their role in ensuring viral genome stability.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Developmental Biology
Vijay Pratap Singh, Huzaifa Hassan, Fengyan Deng, Dai Tsuchiya, Sean McKinney, Kevin Ferro, Jennifer L. Gerton
Summary: This paper explores the role of polyploidy in the murine placenta and identifies Myc as a key regulator of polyploidy and placental development. The study shows that Myc is essential for multiple rounds of DNA replication, supports gene expression involved in replication and nucleotide biosynthesis, and prevents DNA damage and premature senescence in trophoblast giant cells.
Article
Multidisciplinary Sciences
Daniel J. Emerson, Peiyao A. Zhao, Ashley L. Cook, R. Jordan Barnett, Kyle N. Klein, Dalila Saulebekova, Chunmin Ge, Linda Zhou, Zoltan Simandi, Miriam K. Minsk, Katelyn R. Titus, Weitao Wang, Wanfeng Gong, Di Zhang, Liyan Yang, Sergey V. Venev, Johan H. Gibcus, Hongbo Yang, Takayo Sasaki, Masato T. Kanemaki, Feng Yue, Job Dekker, Chun-Long Chen, David M. Gilbert, Jennifer E. Phillips-Cremins
Summary: This article reveals the determinants of replication origin positioning in the human genome. The study found that topologically associating domains and loops play crucial roles in the localization of replication initiation zones. By disrupting cohesin-mediated loop extrusion, the positioning of replication origins can be altered. These findings contribute to a better understanding of the mechanism of DNA replication.
Article
Biochemistry & Molecular Biology
Almudena Serrano-Benitez, Sophie E. Wells, Lylah Drummond-Clarke, Lilian C. Russo, John Christopher Thomas, Giovanna A. Leal, Mark Farrow, James Michael Edgerton, Shankar Balasubramanian, Ming Yang, Christian Frezza, Amit Gautam, Jan Brazina, Kamila Burdova, Nicolas C. Hoch, Stephen P. Jackson, Keith W. Caldecott
Summary: DNA single-strand breaks (SSBs) play a role in disrupting DNA replication and causing chromosome breakage. This study investigates whether SSBs induce chromosome breakage when located behind or ahead of replication forks, and finds that only SSBs ahead of replication forks trigger fork collapse and chromosome breakage. Furthermore, the study shows that CldU, a thymidine analogue, is cytotoxic to cells lacking SSB repair mechanisms and its incorporation in template DNA is particularly harmful during the following cell cycle. Additionally, BRCA-defective cells are highly sensitive to CldU, suggesting its potential clinical utility.
Review
Genetics & Heredity
Aamir Raina, Parmeshwar K. Sahu, Rafiul Amin Laskar, Nitika Rajora, Richa Sao, Samiullah Khan, Rais A. Ganai
Summary: Maintenance of genomic integrity is crucial for plant survival due to the lack of reserve germline. Plants possess highly conserved DNA damage repair pathways to counteract external DNA damage, ensuring genomic stability.
FRONTIERS IN GENETICS
(2021)
Article
Genetics & Heredity
T. Vachev, V. K. Stoyanova, H. Y. Ivanov, I. N. Minkov, N. T. Popov
BALKAN JOURNAL OF MEDICAL GENETICS
(2015)
Article
Cell Biology
Kentaro Ohkuni, Yoshimitsu Takahashi, Alyona Fulp, Josh Lawrimore, Wei-Chun Au, Nagesh Pasupala, Reuben Levy-Myers, Jack Warren, Alexander Strunnikov, Richard E. Baker, Oliver Kerscher, Kerry Bloom, Munira A. Basrai
MOLECULAR BIOLOGY OF THE CELL
(2016)
Article
Medical Laboratory Technology
Milena Mazalovska, Nikola Varadinov, Tsvetoslav Koynarski, Ivan Minkov, Pavel Teoharov, George P. Lomonossoff, Gergana Zahmanova
ANNALS OF LABORATORY MEDICINE
(2017)
Article
Biology
Nicolas Talarek, Elisabeth Gueydon, Etienne Schwob
Article
Biotechnology & Applied Microbiology
Tihomir Vachev, Desislava Ivanova, Galina Yahubyan, Samir Naimov, Ivan Minkov, Mariyana Gozmanova
BIOTECHNOLOGY & BIOTECHNOLOGICAL EQUIPMENT
(2014)
Article
Zoology
Samir Naimov, Radostina Nedyalkova, Nikola Staykov, Mieke Weemen-Hendriks, Ivan Minkov, Ruud A. de Maagd
JOURNAL OF INVERTEBRATE PATHOLOGY
(2014)
Article
Plant Sciences
Gergana G. Zahmanova, Milena Mazalovska, Katerina H. Takova, Valentina T. Toneva, Ivan N. Minkov, Eugenia S. Mardanova, Nikolai V. Ravin, George P. Lomonossoff
Article
Agriculture, Dairy & Animal Science
Katerina Takova, Tsvetoslav Koynarski, Ivan Minkov, Zdravka Ivanova, Valentina Toneva, Gergana Zahmanova
Article
Biology
Gergana Zahmanova, Katerina Takova, Rumyana Valkova, Valentina Toneva, Ivan Minkov, Anton Andonov, Georgi L. Lukov
Summary: Vaccination is the most effective way to restrict the spread of zoonotic viruses and prevent diseases. Recombinant proteins produced in plants offer a safe, effective, and inexpensive approach for vaccine development. Virus-like particles (VLPs) produced in plants, which can self-assemble and resemble the form of virus particles, are gaining popularity as candidate vaccines against various infectious diseases.
Review
Biochemistry & Molecular Biology
Zdravka Ivanova, Georgi Minkov, Andreas Gisel, Galina Yahubyan, Ivan Minkov, Valentina Toneva, Vesselin Baev
Summary: This article reviews over 35 tools developed specifically for plant sRNAs in recent years and explores their algorithms and applications, aiming to assist biologists in choosing the appropriate tool for analyzing plant sRNA datasets.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Genetics & Heredity
Marta Bialic, Baraah Al Ahmad Nachar, Maria Kozlak, Vincent Coulon, Etienne Schwob
Summary: This article describes a simple and robust method to measure the duration of the S phase in cell cultures. It utilizes a dual EdU-BrdU pulse-labeling regimen with incremental thymidine chases and quantification by flow cytometry. The method does not require cell synchronization or genome engineering and can be used for various types of cells.
Review
Biochemistry & Molecular Biology
Gergana Zahmanova, Alaa A. Aljabali, Katerina Takova, Valentina Toneva, Murtaza M. Tambuwala, Anton P. Andonov, Georgi L. Lukov, Ivan Minkov
Summary: Plant viruses have expanded their role beyond pathogens and have become important in the production of nanomaterials, vaccines, and other pharmaceutical products. Plant molecular farming offers a fast and cost-effective approach to meeting global health needs. Various applications and advantages of plant-produced vaccines are discussed, as well as the challenges they face in becoming available on the market.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Editorial Material
Biochemistry & Molecular Biology
Vesselin Baev, Andreas Gisel, Ivan Minkov
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Nikolay Anachkov, Galina Yahubyan, Ivan Minkov, Oksana Charishnikova, Teodora Popova, Alisher Touraev
COMPTES RENDUS DE L ACADEMIE BULGARE DES SCIENCES
(2017)
Article
Biotechnology & Applied Microbiology
Elena M. Pugacheva, Samuel Rivero-Hinojosa, Celso A. Espinoza, Claudia Fabiola Mendez-Catala, Sungyun Kang, Teruhiko Suzuki, Natsuki Kosaka-Suzuki, Susan Robinson, Vijayaraj Nagarajan, Zhen Ye, Abdelhalim Boukaba, John E. J. Rasko, Alexander V. Strunnikov, Dmitri Loukinov, Bing Ren, Victor V. Lobanenkov