Article
Engineering, Environmental
Ke Zhang, Joseph Hodge, Anamika Chatterjee, Tae Seok Moon, Kimberly M. Parker
Summary: Double-stranded RNA undergoes alkaline hydrolysis at orders-of-magnitude slower rates compared to single-stranded RNA, and can remain intact for months at neutral pH. Increasing pH effectively attenuates enzymatic degradation of dsRNA without inducing alkaline hydrolysis, which differs significantly from ssRNA. Understanding these unique properties of dsRNA allows for greater control of stability in RNAi technology and provides insights into various applications, including isolation, detection, and inactivation of dsRNA viruses.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2021)
Article
Agronomy
Ningbo Chen, Xin Dai, Qian Hu, Hongxiao Tan, Liping Qiao, Laifeng Lu
Summary: Postharvest quality deterioration is a major issue in food loss and waste, but the technique of spray-induced gene silencing (SIGS) offers a new solution. By spraying double-stranded RNA (dsRNA) onto the surface of plants, specific genes can be targeted for RNA interference, effectively reducing browning in freshly-cut potatoes. This study highlights the potential application of SIGS in controlling postharvest quality deterioration.
POSTHARVEST BIOLOGY AND TECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
Chen Zhang, Fujia Tian, Ying Lu, Bing Yuan, Zhi-Jie Tan, Xing-Hua Zhang, Liang Dai
Summary: DNA deformations can occur upon environmental changes, and an increase in salt concentration leads to DNA overwinding. Our magnetic tweezers experiments and simulations demonstrate that the twist change induced by salt can be quantitatively explained by the screening of electrostatic repulsion and the coupling between twist and DNA diameter. We determine the coupling constant and predict the temperature dependence of DNA twist, finding that the twist-diameter coupling is a common driving force for salt- and temperature-induced DNA twist changes.
Article
Chemistry, Analytical
Steven R. Strezsak, Penny J. Beuning, Nicholas J. Skizim
Summary: A method for accurately determining the concentration of long dsRNA was developed using nucleic acid digestion and reversed-phase HPLC/UV methods. The study found that sequence design can dramatically change the extinction coefficient of the molecule, with ssRNA overhangs leading to a 5% reduction in the calculated extinction coefficient.
ANALYTICAL METHODS
(2021)
Article
Biochemistry & Molecular Biology
Wenbo Xu, Miao Zhang, Yangcun Li, Wanwan He, Shengchun Li, Jiang Zhang
Summary: RNA interference (RNAi) is an effective technology for pest management. This study demonstrates that RNAi can be used to control the 28-spotted potato ladybird by targeting the beta-Actin gene. Transgenic potato plants expressing the target gene showed enhanced resistance to the pest. These findings expand the application range of RNAi technology to Coccinellidae pests.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2023)
Article
Microbiology
Alexander Stevens, Katherine Muratore, Yanxiang Cui, Patricia J. Johnson, Z. Hong Zhou
Summary: The atomic structure of TVV2 reveals the interactions driving capsid assembly and the properties governing viral genome organization. Comparison with other dsRNA viruses suggests conserved strategies of RNA release and potential domains involved in viral RNA maintenance. This provides insights for future investigations into the interactions between Trichomonas vaginalis and its viruses.
Article
Plant Sciences
Jinqiu Fu, Shijing Xu, Huan Lu, Fanchi Li, Shengchun Li, Ling Chang, David G. Heckel, Ralph Bock, Jiang Zhang
Summary: Plant-mediated RNA interference (RNAi) using dsRNA or siRNA has shown promise in pest control, but little is known about the molecular mechanisms. This study found that siRNAs derived from transgenic plants may be more effective triggers of RNAi in Lepidoptera than dsRNAs.
PLANT CELL AND ENVIRONMENT
(2022)
Article
Agronomy
Danielle Duanis-Assaf, Ilya Shlar, Ortal Galsurker, Olga Davydov, Dalia Maurer, Oleg Feygenberg, Elena Poverenov, Robert Fluhr, Noam Alkan
Summary: By incorporating dsRNA into LDH nano-clays, the stability of dsRNA is improved and it can serve as a long-term controlled-release mechanism to selectively control postharvest pathogen B. cinerea. The LDH-dsRNA complex shows continued efficacy after long-term storage and reduces gray mold development significantly.
POSTHARVEST BIOLOGY AND TECHNOLOGY
(2022)
Article
Endocrinology & Metabolism
Bong Jung Kang, Zakea Sultana, Marcy N. Wilder
Summary: Vitellogenesis-inhibiting hormone (VIH) negatively regulates reproduction in shrimp, and transcriptional silencing of Liv-SGP-G was successfully achieved with dsRNA injections. Although the treatment did not promote ovarian maturation, it was the first report of co-transcriptional repression of Liv-SGP-G using dsRNAs for homologous genes. This study indicates that subadult shrimp can respond to transcriptional silencing techniques.
FRONTIERS IN ENDOCRINOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Danielle Duanis-Assaf, Ortal Galsurker, Olga Davydov, Dalia Maurer, Oleg Feygenberg, Moshe Sagi, Elena Poverenov, Robert Fluhr, Noam Alkan
Summary: Pathogenic fungi cause postharvest losses, prompting the need for new control strategies. The development of dsRNA-ERG effectively inhibits fungal growth and grey-mould development, reducing the required fungicide amount.
PLANT BIOTECHNOLOGY JOURNAL
(2022)
Article
Biochemistry & Molecular Biology
Bailing Ren, Jingnan Cao, Yanqiu He, Sheng Yang, Jiang Zhang
Summary: RNA interference is a efficient technology for pest control, and expression of dsRNAs in transplastomic plants may have potential effects on non-target pests. The study showed that ACT plants had cross-resistance to another coleopteran insect with highly conserved nucleotide sequence, providing an opportunity for simultaneous control of different pests.
PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY
(2021)
Article
Virology
Mi-Sun Yoo, A-Tai Truong, Hana Jeong, Do-Hyun Hahn, Ju-Seong Lee, Soon-Seek Yoon, So-Youn Youn, Yun-Sang Cho
Summary: Sacbrood virus (SBV) infection poses a significant threat to Apis cerana colonies in South Korea. RNA interference (RNAi) targeting the VP3 gene is an effective method for protecting and treating SBV in vitro and in infected colonies. Laboratory-based experiments and large-scale field trials demonstrate the safety and efficacy of VP3 double-stranded RNA (dsRNA) treatment in increasing survival rates and preventing symptomatic SBV infections.
Article
Biochemistry & Molecular Biology
Xiaoxiao Zhang, Peng Li, Huanhuan Zhong, Fanming Yang, Fanzhou Liu, Gabriel Yedid, Yan Zeng
Summary: Proteins involved in RNA metabolism possess a double-stranded RNA-binding domain (dsRBD), with variations in sequences and functions. A study showed that a short insertion in the dsRBD of Drosha is important for its function, and extending the L1 region in other dsRBDs reduces RNA binding. This highlights the sensitivity of dsRBDs to perturbations in the L1 region and adds to the understanding of their structural and functional diversity.
ACTA BIOCHIMICA ET BIOPHYSICA SINICA
(2021)
Review
Biochemistry & Molecular Biology
Alexey D. Nikulin
Summary: The review discusses the differences in protein interactions with single- and double-stranded RNA molecules based on the structure of RNA-protein complexes. Proteins interacting with single-stranded RNAs form contacts with RNA bases for recognition of specific nucleotide sequences, while proteins interacting with double-stranded RNAs mainly interact with the RNA sugar-phosphate backbone.
BIOCHEMISTRY-MOSCOW
(2021)
Article
Biotechnology & Applied Microbiology
Shuhei Hashiro, Yasuhiko Chikami, Haruka Kawaguchi, Alexander A. Krylov, Teruyuki Niimi, Hisashi Yasueda
Summary: RNA-based pesticides utilize RNA interference to suppress the expression of essential genes in target pests. Through the development of a cost-competitive dsRNA overproduction system using Corynebacterium glutamicum as a host bacterium, long-chain dsRNAs were efficiently produced and shown to significantly suppress larval growth of pests like the ladybird beetle. This technology has the potential to reduce production costs and find applications in various industries, including agricultural pest control.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Biophysics
Steve P. Meisburger, Suzette A. Pabit, Lois Pollack
BIOPHYSICAL JOURNAL
(2015)
Article
Chemistry, Multidisciplinary
Jesse B. Hopkins, Andrea M. Katz, Steve P. Meisburger, Matthew A. Warkentin, Robert E. Thorne, Lois Pollack
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2015)
Article
Chemistry, Multidisciplinary
Steve P. Meisburger, Alexander B. Taylor, Crystal A. Khan, Shengnan Zhang, Paul F. Fitzpatrick, Nozomi Ando
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2016)
Article
Biochemistry & Molecular Biology
Alex Plumridge, Steve P. Meisburger, Lois Pollack
NUCLEIC ACIDS RESEARCH
(2017)
Article
Multidisciplinary Sciences
Yujie Chen, Joshua M. Tokuda, Traci Topping, Steve P. Meisburger, Suzette A. Pabit, Lisa M. Gloss, Lois Pollack
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2017)
Article
Multidisciplinary Sciences
Joane K. Rustiguel, Ricardo O. S. Soares, Steve P. Meisburger, Katherine M. Davis, Kristina L. Malzbender, Nozomi Ando, Marcelo Dias-Baruffi, Maria Cristina Nonato
SCIENTIFIC REPORTS
(2016)
Article
Biochemistry & Molecular Biology
Alex Plumridge, Steve P. Meisburger, Kurt Andresen, Lois Pollack
NUCLEIC ACIDS RESEARCH
(2017)
Article
Multidisciplinary Sciences
Mackenzie J. Parker, Ailiena O. Maggiolo, William C. Thomas, Albert Kim, Steve P. Meisburger, Nozomi Ando, Amie K. Boal, JoAnne Stubbe
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2018)
Article
Chemistry, Physical
Hung T. Nguyen, Suzette A. Pabit, Steve P. Meisburger, Lois Pollack, David A. Case
JOURNAL OF CHEMICAL PHYSICS
(2014)
Article
Biochemistry & Molecular Biology
Crystal A. Khan, Steve P. Meisburger, Nozomi Ando, Paul F. Fitzpatrick
JOURNAL OF BIOLOGICAL CHEMISTRY
(2019)
Article
Multidisciplinary Sciences
Steve P. Meisburger, David A. Case, Nozomi Ando
NATURE COMMUNICATIONS
(2020)
Article
Chemistry, Multidisciplinary
Steve P. Meisburger, Da Xu, Nozomi Ando
Summary: Studying mixtures of biological macromolecules poses challenges, but utilizing the REGALS method can provide robust solutions, making it a valuable addition to the SAXS analysis toolkit.
Article
Biochemistry & Molecular Biology
Da Xu, Steve P. Meisburger, Nozomi Ando
Summary: Correlated motions in proteins, arising from collective movements of residues, play a fundamental role in key properties of proteins. Recent breakthroughs in structural biology have enabled the capture of proteins undergoing complex conformational changes, shedding light on intrinsic correlated motions within a conformation. Total scattering now provides a bridge between theory and experiment, offering the opportunity to gain atomistic insight into correlated motions in proteins.
Article
Multidisciplinary Sciences
Steve P. Meisburger, David A. Case, Nozomi Ando
Summary: This study presents a new experimental approach to capturing both structure and collective motions of proteins. The authors introduce two methods for robustly subtracting lattice disorder and successfully demonstrate the workflow's robustness. This work expands the capabilities of protein crystallography in interpreting diffuse scattering signals and studying protein dynamics.
NATURE COMMUNICATIONS
(2023)
Review
Chemistry, Multidisciplinary
Steve P. Meisburger, William C. Thomas, Maxwell B. Watkins, Nozomi Ando