Article
Biochemical Research Methods
Rohith Vedhthaanth Sekar, Patricia Oliva, Michael Woodside
Summary: This study computationally modeled the structures of frame-shift-stimulatory pseudoknots in bat coronaviruses and found shared key structural features among them. These findings lay a foundation for further research on bat coronavirus pseudoknots as potential therapeutic targets.
PLOS COMPUTATIONAL BIOLOGY
(2023)
Review
Virology
Fan Guo, Li Xing
Summary: RNA helicase A (RHA) is a widely expressed enzyme involved in various biological processes, including RNA and DNA virus replication. RHA interacts with certain DNA viruses during replication, regulating gene expression and antiviral responses. Further research is needed to understand the diverse molecular mechanisms underlying RHA's interactions with DNA viruses.
Article
Multidisciplinary Sciences
Ashleigh Shannon, Veronique Fattorini, Bhawna Sama, Barbara Selisko, Mikael Feracci, Camille Falcou, Pierre Gauffre, Priscila El Kazzi, Adrien Delpal, Etienne Decroly, Karine Alvarez, Cecilia Eydoux, Jean-Claude Guillemot, Adel Moussa, Steven S. Good, Paolo La Colla, Kai Lin, Jean-Pierre Sommadossi, Yingxiao Zhu, Xiaodong Yan, Hui Shi, Francois Ferron, Bruno Canard
Summary: AT-527 is a promising candidate drug that targets the SARS-CoV-2 replication machinery by inhibiting the RNA-dependent RNA polymerase.
NATURE COMMUNICATIONS
(2022)
Article
Multidisciplinary Sciences
Claire Chung, Bert M. Verheijen, Zoe Navapanich, Eric G. McGann, Sarah Shemtov, Guan-Ju Lai, Payal Arora, Atif Towheed, Suraiya Haroon, Agnes Holczbauer, Sharon Chang, Zarko Manojlovic, Stephen Simpson, Kelley W. Thomas, Craig Kaplan, Peter van Hasselt, Marc Timmers, Dorothy Erie, Lin Chen, Jean-Francois Gout, Marc Vermulst
Summary: Accurate transcription is crucial for the faithful expression of genetic information. This study measured the error rate of transcription in five organisms and found variations in RNA polymerase II error rates among species. The research also identified genetic factors that affect transcription fidelity and provided insights into the co-evolution of transcription error rate and the genetic code.
NATURE COMMUNICATIONS
(2023)
Article
Microbiology
Mariel Kleer, Rory P. Mulloy, Carolyn-Ann Robinson, Danyel Evseev, Maxwell P. Bui-Marinos, Elizabeth L. Castle, Arinjay Banerjee, Samira Mubareka, Karen Mossman, Jennifer A. Corcoran
Summary: The nucleocapsid (N) protein of SARS-CoV-2 is capable of causing the disassembly of processing bodies (PBs), leading to an imbalanced immune response during severe coronavirus infections caused by SARS-CoV-2.
Review
Virology
Jessica E. Packard, Jill A. Dembowski
Summary: DNA replication in HSV-1 involves a combination of viral and cellular factors, such as UL9, ICP8, UL30, UL42, and UL5/UL8/UL52 proteins, as well as accessory factors to coordinate viral DNA replication with other processes.
Article
Endocrinology & Metabolism
Xiaofeng Zhai, Ningning Wang, Houqi Jiao, Jie Zhang, Chaofan Li, Wenkai Ren, Russel J. Reiter, Shuo Su
Summary: The COVID-19 pandemic has revealed gaps in our knowledge of animal coronavirus prevention and control, while indoles show potential activity against swine coronaviruses. Molecules such as melatonin can inhibit viral replication in cells, providing a basis for the development of new treatments.
JOURNAL OF PINEAL RESEARCH
(2021)
Article
Multidisciplinary Sciences
E. Heilmann, J. Kimpel, B. Hofer, A. Roessler, I. Blaas, L. Egerer, T. Nolden, C. Urbiola, H. G. Kraeusslich, G. Wollmann, D. von Laer
Summary: This study presents a regulatory switch for RNA viruses that allows control over viral activity using clinically approved HIV protease inhibitors.
NATURE COMMUNICATIONS
(2021)
Review
Microbiology
Manuel Ruiz-Aravena, Clifton McKee, Amandine Gamble, Tamika Lunn, Aaron Morris, Celine E. Snedden, Claude Kwe Yinda, Julia R. Port, David W. Buchholz, Yao Yu Yeo, Christina Faust, Elinor Jax, Lauren Dee, Devin N. Jones, Maureen K. Kessler, Caylee Falvo, Daniel Crowley, Nita Bharti, Cara E. Brook, Hector C. Aguilar, Alison J. Peel, Olivier Restif, Tony Schountz, Colin R. Parrish, Emily S. Gurley, James O. Lloyd-Smith, Peter J. Hudson, Vincent J. Munster, Raina K. Plowright
Summary: Bats are known to carry a variety of coronaviruses and have been identified as prime reservoir hosts for emerging viruses. Since the first SARS epidemic in 2002, the understanding of bats as key hosts of coronaviruses has rapidly advanced. There are critical knowledge gaps regarding bat coronaviruses, and filling these gaps may help prevent the next pandemic.
NATURE REVIEWS MICROBIOLOGY
(2022)
Article
Multidisciplinary Sciences
Huiling Kang, Jingyuan Cong, Chenlong Wang, Wenxin Ji, Yuhui Xin, Ying Qian, Xuemei Li, Yutao Chen, Zihe Rao
Summary: The study presents the cryo-EM structure of the complex of JUNV L protein with Z protein, revealing insights into how Z protein regulates JUNV L during viral life cycle and RNA synthesis. This work sheds light on the mechanism of JUNV transcription, replication, and regulation, providing a basis for the design of antivirals against viral infections.
NATURE COMMUNICATIONS
(2021)
Article
Multidisciplinary Sciences
Toshiki Akui, Kei Fujiwara, Gaku Sato, Masahiro Takinoue, Shin-ichiro M. Nomura, Nobuhide Doi
Summary: Biochemical systems in living cells have an optimal concentration ratio among each constituent element to maintain functionality. However, in systems with complex interactions and feedbacks, the concentration shift of the entire system can greatly change its activity. This study uses a TX-TL system to illustrate the nonlinear relationship between system concentration and activity, showing how concentration shifts can act as a switch for system activity and influence its function.
Article
Biochemistry & Molecular Biology
Xingyu Yin, Horia Popa, Anthony Stapon, Emilie Bouda, Miguel Garcia-Diaz
Summary: Genomic variations in SARS-CoV-2 have led to the emergence of more infectious variants. The replication fidelity of the virus is greatly affected when lacking the proofreading subunit, resulting in lower accuracy. Mutations in the nsp12 and nsp14 genes are likely to reduce replication fidelity, providing insight for future antiviral drugs and vaccine development.
JOURNAL OF MOLECULAR BIOLOGY
(2023)
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)
Article
Multidisciplinary Sciences
Hong Zhan, Nuruddin Unchwaniwala, Andrea Rebolledo-Viveros, Janice Pennington, Mark Horswill, Roma Broadberry, Jonathan Myers, Johan A. den Boon, Timothy Grant, Paul Ahlquist
Summary: Positive-strand RNA viruses replicate their genomes in virus-induced membrane vesicles, and the resulting RNA replication complexes are a major target for virus control. Using cryoelectron microscopy, researchers have discovered that mature nodavirus crowns are composed of two stacked 12-mer rings of viral RNA replication protein A, demonstrating the multifunctionality and flexibility of viral proteins.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Review
Biochemistry & Molecular Biology
Fernando Moreira Simabuco, Rodrigo Esaki Tamura, Isadora Carolina Betim Pavan, Mirian Galliote Morale, Armando Morais Ventura
Summary: This review explores the cellular mechanisms and pharmacological interventions associated with SARS-CoV-2, aiming to enhance understanding of its replication cycle and aid in the development of targeted drugs against COVID-19.
GENETICS AND MOLECULAR BIOLOGY
(2021)
Article
Virology
James Brett Case, Yize Li, Ruth Elliott, Xiaotao Lu, Kevin W. Graepel, Nicole R. Sexton, Everett Clinton Smith, Susan R. Weiss, Mark R. Denison
JOURNAL OF VIROLOGY
(2018)
Article
Virology
Lingshu Wang, Wei Shi, James D. Chappell, M. Gordon Joyce, Yi Zhang, Masaru Kanekiyo, Michelle M. Becker, Neeltje van Doremalen, Robert Fischer, Nianshuang Wang, Kizzmekia S. Corbett, Misook Choe, Rosemarie D. Mason, Joseph G. Van Galen, Tongqing Zhou, Kevin O. Saunders, Kathleen M. Tatti, Lia M. Haynes, Peter D. Kwong, Kayvon Modjarrad, Wing-Pui Kong, Jason S. McLellan, Mark R. Denison, Vincent J. Munster, John R. Mascola, Barney S. Graham
JOURNAL OF VIROLOGY
(2018)
Article
Virology
Andrea J. Pruijssers, Mark R. Denison
CURRENT OPINION IN VIROLOGY
(2019)
Article
Virology
Kevin W. Graepel, Maria L. Agostini, Xiaotao Lu, Nicole R. Sexton, Mark R. Denison
JOURNAL OF VIROLOGY
(2019)
Article
Pharmacology & Pharmacy
Ariane J. Brown, John J. Won, Rachel L. Graham, Kenneth H. Dinnon, Amy C. Sims, Joy Y. Feng, Tomas Cihlar, Mark R. Denison, Ralph S. Baric, Timothy P. Sheahan
ANTIVIRAL RESEARCH
(2019)
Article
Cell Biology
Nianshuang Wang, Osnat Rosen, Lingshu Wang, Hannah L. Turner, Laura J. Stevens, Kizzmekia S. Corbett, Charles A. Bowman, Jesper Pallesen, Wei Shi, Yi Zhang, Kwanyee Leung, Robert N. Kirchdoerfer, Michelle M. Becker, Mark R. Denison, James D. Chappell, Andrew B. Ward, Barney S. Graham, Jason S. McLellan
Article
Virology
Maria L. Agostini, Andrea J. Pruijssers, James D. Chappell, Jennifer Gribble, Xiaotao Lu, Erica L. Andres, Gregory R. Bluemling, Mark A. Lockwood, Timothy P. Sheahan, Amy C. Sims, Michael G. Natchus, Manohar Saindane, Alexander A. Kolykhalov, George R. Painter, Ralph S. Baric, Mark R. Denison
JOURNAL OF VIROLOGY
(2019)
Article
Multidisciplinary Sciences
Timothy P. Sheahan, Amy C. Sims, Sarah R. Leist, Alexandra Schafer, John Won, Ariane J. Brown, Stephanie A. Montgomery, Alison Hogg, Darius Babusis, Michael O. Clarke, Jamie E. Spahn, Laura Bauer, Scott Sellers, Danielle Porter, Joy Y. Feng, Tomas Cihlar, Robert Jordan, Mark R. Denison, Ralph S. Baric
NATURE COMMUNICATIONS
(2020)
Article
Cell Biology
Timothy P. Sheahan, Amy C. Sims, Shuntai Zhou, Rachel L. Graham, Andrea J. Pruijssers, Maria L. Agostini, Sarah R. Leist, Alexandra Schafer, Kenneth H. Dinnon, Laura J. Stevens, James D. Chappell, Xiaotao Lu, Tia M. Hughes, Amelia S. George, Collin S. Hill, Stephanie A. Montgomery, Ariane J. Brown, Gregory R. Bluemling, Michael G. Natchus, Manohar Saindane, Alexander A. Kolykhalov, George Painter, Jennifer Harcourt, Azaibi Tamin, Natalie J. Thornburg, Ronald Swanstrom, Mark R. Denison, Ralph S. Baric
SCIENCE TRANSLATIONAL MEDICINE
(2020)
Article
Medicine, General & Internal
L. A. Jackson, E. J. Anderson, N. G. Rouphael, P. C. Roberts, M. Makhene, R. N. Coler, M. P. McCullough, J. D. Chappell, M. R. Denison, L. J. Stevens, A. J. Pruijssers, A. McDermott, B. Flach, N. A. Doria-Rose, K. S. Corbett, K. M. Morabito, S. O'Dell, S. D. Schmidt, P. A. Swanson, M. Padilla, J. R. Mascola, K. M. Neuzil, H. Bennett, W. Sun, E. Peters, M. Makowski, J. Albert, K. Cross, W. Buchanan, R. Pikaart-Tautges, J. E. Ledgerwood, B. S. Graham, J. H. Beigel
NEW ENGLAND JOURNAL OF MEDICINE
(2020)
Article
Cell Biology
Andrea J. Pruijssers, Amelia S. George, Alexandra Schafer, Sarah R. Leist, Lisa E. Gralinksi, Kenneth H. Dinnon, Boyd L. Yount, Maria L. Agostini, Laura J. Stevens, James D. Chappell, Xiaotao Lu, Tia M. Hughes, Kendra Gully, David R. Martinez, Ariane J. Brown, Rachel L. Graham, Jason K. Perry, Venice Du Pont, Jared Pitts, Bin Ma, Darius Babusis, Eisuke Murakami, Joy Y. Feng, John P. Bilello, Danielle P. Porter, Tomas Cihlar, Ralph S. Baric, Mark R. Denison, Timothy P. Sheahan
Article
Medicine, General & Internal
E. J. Anderson, N. G. Rouphael, A. T. Widge, L. A. Jackson, P. C. Roberts, M. Makhene, J. D. Chappell, M. R. Denison, L. J. Stevens, A. J. Pruijssers, A. B. McDermott, B. Flach, B. C. Lin, N. A. Doria-Rose, S. O'Dell, S. D. Schmidt, K. S. Corbett, P. A. Swanson, M. Padilla, K. M. Neuzil, H. Bennett, B. Leav, M. Makowski, J. Albert, K. Cross, V. V. Edara, K. Floyd, M. S. Suthar, D. R. Martinez, R. Baric, W. Buchanan, C. J. Luke, V. K. Phadke, C. A. Rostad, J. E. Ledgerwood, B. S. Graham, J. H. Beigel
NEW ENGLAND JOURNAL OF MEDICINE
(2020)
Letter
Medicine, General & Internal
Alicia T. Widge, Nadine G. Rouphael, Lisa A. Jackson, Evan J. Anderson, Paul C. Roberts, Mamodikoe Makhene, James D. Chappell, Mark R. Denison, Laura J. Stevens, Andrea J. Pruijssers, Adrian B. McDermott, Britta Flach, Bob C. Lin, Nicole A. Doria-Rose, Sijy O'Dell, Stephen D. Schmidt, Kathleen M. Neuzil, Hamilton Bennett, Brett Leav, Mat Makowski, Jim Albert, Kaitlyn Cross, Venkata-Viswanadh Edara, Katharine Floyd, Mehul S. Suthar, Wendy Buchanan, Catherine J. Luke, Julie E. Ledgerwood, John R. Mascola, Barney S. Graham, John H. Beigel
NEW ENGLAND JOURNAL OF MEDICINE
(2021)
Article
Microbiology
Jennifer Gribble, Laura J. Stevens, Maria L. Agostini, Jordan Anderson-Daniels, James D. Chappell, Xiaotao Lu, Andrea J. Pruijssers, Andrew L. Routh, Mark R. Denison
Summary: Recombination is essential for coronavirus diversity and the emergence of new strains. The mechanisms of CoV recombination are not well understood, but studies have shown extensive and diverse recombination products in CoVs during replication. The nsp14-ExoN protein is crucial for native recombination in CoVs, highlighting its potential as a target for inhibitors to control SARS-CoV-2 and future emerging zoonotic CoVs.
Article
Infectious Diseases
Kathleen Chiotos, Molly Hayes, David W. Kimberlin, Sarah B. Jones, Scott H. James, Swetha G. Pinninti, April Yarbrough, Mark J. Abzug, Christine E. MacBrayne, Vijaya L. Soma, Daniel E. Dulek, Surabhi B. Vora, Alpana Waghmare, Joshua Wolf, Rosemary Olivero, Steven Grapentine, Rachel L. Wattier, Laura Bio, Shane J. Cross, Nicholas O. Dillman, Kevin J. Downes, Kathryn Timberlake, Jennifer Young, Rachel C. Orscheln, Pranita D. Tamma, Hayden T. Schwenk, Philip Zachariah, Margaret Aldrich, David L. Goldman, Helen E. Groves, Gabriella S. Lamb, Alison C. Tribble, Adam L. Hersh, Emily A. Thorell, Mark R. Denison, Adam J. Ratner, Jason G. Newland, Mari M. Nakamura
JOURNAL OF THE PEDIATRIC INFECTIOUS DISEASES SOCIETY
(2020)
