TY - JOUR A1 - Xing, N. A1 - Höfler, T. A1 - Hearn, C. J. A1 - Nascimento, M. A1 - Camps Paradell, G. A1 - McMahon, Dino Peter A1 - Kunec, D. A1 - Osterrieder, N. A1 - Cheng, H. H. A1 - Trimpert, J. ED - Trimpert, Jakob T1 - Fast-forwarding evolution—Accelerated adaptation in a proofreading-deficient hypermutator herpesvirus N2 - Evolution relies on the availability of genetic diversity for fitness-based selection. However, most deoxyribonucleic acid (DNA) viruses employ DNA polymerases (Pol) capable of exonucleolytic proofreading to limit mutation rates during DNA replication. The relative genetic stability produced by high-fidelity genome replication can make studying DNA virus adaptation and evolution an intensive endeavor, especially in slowly replicating viruses. Here, we present a proofreading-impaired Pol mutant (Y547S) of Marek’s disease virus that exhibits a hypermutator phenotype while maintaining unimpaired growth in vitro and wild-type (WT)-like pathogenicity in vivo. At the same time, mutation frequencies observed in Y547S virus populations are 2–5-fold higher compared to the parental WT virus. We find that Y547S adapts faster to growth in originally non-permissive cells, evades pressure conferred by antiviral inhibitors more efficiently, and is more easily attenuated by serial passage in cultured cells compared to WT. Our results suggest that hypermutator viruses can serve as a tool to accelerate evolutionary processes and help identify key genetic changes required for adaptation to novel host cells and resistance to antiviral therapy. Similarly, the rapid attenuation achieved through adaptation of hypermutators to growth in cell culture enables identification of genetic changes underlying attenuation and virulence, knowledge that could practically exploited, e.g. in the rational design of vaccines. KW - Polymerase mutant KW - Proofreading deficient KW - Hypermutation KW - Adaption KW - DNA polymerase KW - Marek's Disease Virus PY - 2022 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:b43-565631 SN - 2057-1577 VL - 8 IS - 2 SP - 1 EP - 11 PB - Oxford University Press CY - Oxford, UK AN - OPUS4-56563 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Page, T.M. A1 - Nie, C. A1 - Neander, L. A1 - Povolotsky, T.L. A1 - Sahoo, A.K. A1 - Nickl, Philip A1 - Adler, J.M. A1 - Bawadkji, O. A1 - Radnik, Jörg A1 - Achazi, K. A1 - Ludwig, K. A1 - Lauster, D. A1 - Netz, R.R. A1 - Trimpert, J. A1 - Kaufer, B. A1 - Haag, R. A1 - Donskyi, Ievgen T1 - Functionalized Fullerene for Inhibition of SARS-CoV-2 Variants N2 - As virus outbreaks continue to pose a challenge, a nonspecific viral inhibitor can provide significant benefits, especially against respiratory viruses. Polyglycerol sulfates recently emerge as promising agents that mediate interactions between cells and viruses through electrostatics, leading to virus inhibition. Similarly, hydrophobic C60 fullerene can prevent virus infection via interactions with hydrophobic cavities of surface proteins. Here, two strategies are combined to inhibit infection of SARS-CoV-2 variants in vitro. Effective inhibitory concentrations in the millimolar range highlight the significance of bare fullerene’s hydrophobic moiety and electrostatic interactions of polysulfates with surface proteins of SARS-CoV-2. Furthermore, microscale thermophoresis measurements support that fullerene linear polyglycerol sulfates interact with the SARS-CoV-2 virus via its spike protein, and highlight importance of electrostatic interactions within it. All-atom molecular dynamics simulations reveal that the fullerene binding site is situated close to the receptor binding domain, within 4 nm of polyglycerol sulfate binding sites, feasibly allowing both portions of the material to interact simultaneously. KW - Covalent functionalization KW - Fullerene KW - SARS-CoV 2 KW - Sulfated materials KW - Virus inhibition PY - 2023 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:b43-568672 SN - 1613-6810 SP - 1 EP - 8 PB - Wiley VCH AN - OPUS4-56867 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Trimpert, J. A1 - Groenke, N. A1 - Kunec, D. A1 - Eschke, K. A1 - He, Shulin A1 - McMahon, Dino Peter A1 - Osterrieder, N. T1 - A proofreading-impaired herpesvirus generates populations with quasispecies-like structure N2 - RNA virus populations are composed of highly diverse individuals that form a cloud of related sequences commonly referred to as a ‘quasispecies’1–3. This diversity arises as a consequence of low-fidelity genome replication4,5. By contrast, DNA Virus populations contain more uniform individuals with similar fitness6. Genome diversity is often correlated with increased Fitness in RNA viruses, while DNA viruses are thought to require more faithful genome replication. During DNA replication, erroneously incorporated bases are removed by a 3′-5′ exonuclease, a highly conserved enzymatic function of replicative DNA but not RNA polymerases. This proofreading process enhances replication fidelity and ensures the genome integrity of DNA organisms, including large DNA viruses7. Here, we show that a herpesvirus can tolerate impaired exonucleolytic proofreading, resulting in DNA virus populations, which, as in RNA viruses8, are composed of highly diverse genotypes of variable individual fitness. This indicates that herpesvirus mutant diversity may compensate for individual Fitness loss. Notably, in vivo infection with diverse virus populations results in a marked increase in virulence compared to genetically homogenous parental virus. While we cannot exclude that the increase in virulence is caused by selection of and/or interactions between individual genotypes, our findings are consistent with quasispecies dynamics. Our results contrast with traditional views of DNA virus replication and evolution, and indicate that a substantial increase in population diversity can lead to higher virulence. KW - Marek's virus KW - Virulence KW - Quasispecies KW - Evolution PY - 2019 U6 - https://doi.org/10.1038/s41564-019-0547-x SN - 2058-5276 N1 - Corrigendum: Nature Microbiology 4 (2019) 2025 VL - 4 SP - 2175 EP - 2183 PB - Nature Publishing Group CY - London AN - OPUS4-48896 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Donskyi, Ievgen A1 - Nie, C. A1 - Ludwig, K. A1 - Trimpert, J. A1 - Ahmed, R. A1 - Quaas, E. A1 - Achazi, K. A1 - Radnik, Jörg A1 - Adeli, M. A1 - Haag, R. A1 - Osterrieder, K. T1 - Graphene Sheets with Defined Dual Functionalities for the Strong SARS-CoV-2 Interactions N2 - Search of new strategies for the inhibition of respiratory viruses is one of the urgent health challenges worldwide, as most of the current therapeutic agents and treatments are inefficient. Severe acute respiratory syndrome coronavirus 2 (SARSCoV-2) has caused a pandemic and has taken lives of approximately two Million people to date. Even though various vaccines are currently under development, virus, and especially its spike glycoprotein can mutate, which highlights a Need for a broad-spectrum inhibitor. In this work, inhibition of SARS-CoV-2 by graphene platforms with precise dual sulfate/alkyl functionalities is investigated. A series of graphene derivatives with different lengths of aliphatic chains is synthesized and is investigated for their ability to inhibit SARS-CoV-2 and feline coronavirus. Graphene derivatives with long alkyl chains (>C9) inhibit coronavirus replication by virtue of disrupting viral envelope. The ability of these graphene platforms to rupture viruses is visualized by atomic force microscopy and cryogenic electron microscopy. A large concentration window (10 to 100-fold) where graphene platforms display strongly antiviral activity against native SARS-CoV-2 without significant toxicity against human cells is found. In this concentration range, the synthesized graphene platforms inhibit the infection of enveloped viruses efficiently, opening new therapeutic and metaphylactic avenues against SARS-CoV-2. KW - Graphene KW - Graphene-based polyglycerol sulfates KW - SARS-CoV2 inhibitor KW - Virucidality PY - 2021 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:b43-520858 VL - 17 IS - 11 SP - 7091 PB - Wiley VCH AN - OPUS4-52085 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Trimpert, J. A1 - Groenke, N. A1 - Jenckel, M. A1 - He, Shulin A1 - Kunec, D. A1 - Szpara, M.L. A1 - Spatz, S.J. A1 - Osterrieder, N. A1 - McMahon, Dino Peter T1 - A phylogenomic analysis of Marek's disease virus (MDV) reveals independent paths to virulence in Eurasia and North America N2 - Virulence determines the impact a pathogen has on the fitness of its host, yet current understanding of the evolutionary origins and causes of virulence of many pathogens is surprisingly incomplete. Here, we explore the evolution of Marek’s disease virus (MDV), a herpesvirus commonly afflicting chickens and rarely other avian species. The history of MDV in the 20th century represents an important case study in the evolution of virulence. The severity of MDV infection in chickens has been rising steadily since the adoption of intensive farming techniques and vaccination programs in the 1950s and 1970s, respectively. It has remained uncertain, however, which of these factors is causally more responsible for the observed increase in virulence of circulating viruses. We conducted a phylogenomic study to understand the evolution of MDV in the context of dramatic changes to poultry farming and disease control. Our analysis reveals evidence of geographical structuring of MDV strains, with reconstructions supporting the emergence of virulent viruses independently in North America and Eurasia. Of note, the emergence of virulent viruses appears to coincide approximately with the introduction of comprehensive vaccination on both continents. The time-dated phylogeny also indicated that MDV has a mean evolutionary rate of ~1.6 × 10−5 substitutions per site per year. An examination of gene-linked mutations did not identify a strong association between mutational variation and virulence phenotypes, indicating that MDV may evolve readily and rapidly under strong selective pressures and that multiple genotypic pathways may underlie virulence adaptation in MDV. KW - Sesistance KW - Disease KW - Emergence KW - Evolution KW - Virulence PY - 2017 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:b43-429054 SN - 1752-4571 VL - 10 IS - 10 SP - 1091 EP - 1101 PB - John Wiley & Sons Ltd. AN - OPUS4-42905 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER -