Siering, Oliver

Abstract Description The live-attenuated measles virus (MeV) vaccine is one of the most efficacious vaccines ever developed and has the potential to eradicate MeV from the human population. While having been administered to millions of children over the past 60 years, the molecular mechanisms of its attenuation remain elusive. To determine these mechanisms, we have performed a comparative study of wild type (WT) and vaccine strain MeV infections in peripheral blood mononuclear cells (PBMCs) from human donors, the natural target cells of MeV. We performed in vitro growth kinetics, high-parameter spectral flow cytometry, next generation RNA-seq, and protein analyses. We found that the vaccine strain specifically activated cell intrinsic innate immunity signaling cascades causing a strong type-I interferon (IFN) signature. This resulted in 100-fold reduced titers of vaccine compared to WT virus. Surprisingly, while MeV vaccine infected B and T cells expressing the natural MeV receptor CD150 with similar efficiency as the WT virus, we found a subset of CD150-negative, CD11b+CD11c+CD123+ myeloid cells to become infected with the vaccine strain. We propose that these innate immune cells are highly specialized in pathogen sensing and prime the IFN response preventing vaccine from productive replication and generation of progeny virus in PBMCs. We currently investigate whether altered cell entry or innate immune control mechanisms are the underlying cause of attenuation. Funding Sources Supported by the German Research Foundation (DFG) Collaborative Research Center (SFB) 1021 (Project number 197785619/B12), internal funding of the German Ministry of Health, and by Mayo Clinic. Topic Categories Viral Immunology (VIR)

Abstract Description Innate immune sensing of viral double-stranded (ds) RNA induces the transcription of hundreds of interferon stimulated genes (ISGs) that shift the cell into an antiviral state. We have shown that measles virus (MeV) utilizes the 150 kDa isoform of adenosine deaminase acting on RNA 1 (ADAR1-p150) to prevent activation of protein kinase R (PKR), thereby subverting a type-I interferon response. Hypothesizing that cytoplasmic localization of ADAR1-p150 is required for this pro-viral activity, we generated cell lines expressing single isoforms and localization mutants of ADAR1. Based on MeV replication studies in these cells, we concluded that both nuclear and cytoplasmic ADAR1-p150 prevents PKR activation. However, only cytoplasmic but not nuclear ADAR1-p110 can efficiently prevent PKR activation. These observations suggest a bimodal activation of IFN responses. Initial sensing of viral dsRNA leads to upregulation of a subset of ISGs forming p150-specific self-RNA substrates driving PKR activation. Through ADAR editome analyses, we have identified candidate p150- and p110-specific self-RNA substrates that may be the drivers of this positive feedback loop. RNA immunoprecipitation studies to identify the specific substrates of ADAR1-p150 and PKR during MeV infection are underway to strengthen this novel model of a positive feedback loop driven by self-RNAs. Altogether, our findings shift the paradigm on the regulatory properties of self-RNA on amplifying antiviral innate immunity. Topic Categories Innate Immune Responses and Host Defense: Molecular Mechanisms (INM)

Abstract Measles virus (MeV) is a highly contagious pathogen capable of infecting immune cells and thereby causing immunosuppression and immune amnesia. A live-attenuated MeV vaccine is highly efficacious and has been safely administered for over 60 years. However, a detailed mechanistic understanding of the mode of its attenuation remains elusive. Here, we determined the molecular mechanisms underlying MeV vaccine attenuation in primary human immune cells. Enhanced infection of innate immune cells resulting in uncontrolled viral RNA synthesis and reduced ability to evade host antiviral responses induced a strong type-I interferon signature that arrested replication of the vaccine strain. In contrast, the wild type virus replicated slowly but steadily, avoiding detection by innate immunity.

ABSTRACT RNA viruses adapt rapidly to new host environments by generating highly diverse genome sets, so-called “quasispecies.” Minor genetic variants promote their rapid adaptation, allowing for the emergence of drug-resistance or immune-escape mutants. Understanding these adaptation processes is highly relevant to assessing the risk of cross-species transmission and the safety and efficacy of vaccines and antivirals. We hypothesized that genetic memory within a viral genome population facilitates rapid adaptation. To test this, we investigated the adaptation of the Morbillivirus canine distemper virus to ferrets and compared an attenuated, Vero cell-adapted virus isolate with its recombinant derivative over consecutive ferret passages. Although both viruses adapted to the new host, the reduced initial genetic diversity of the recombinant virus resulted in delayed disease onset. The non-recombinant virus gradually increased the frequencies of beneficial mutations already present at very low frequencies in the input virus. In contrast, the recombinant virus first evolved de novo mutations to compensate for the initial fitness impairments. Importantly, while both viruses evolved different sets of mutations, most mutations found in the adapted non-recombinant virus were identical to those found in a previous ferret adaptation experiment with the same isolate, indicating that mutations present at low frequency in the original virus stock serve as genetic memory. An arginine residue at position 519 in the carboxy terminus of the nucleoprotein shared by all adapted viruses was found to contribute to pathogenesis in ferrets. Our work illustrates the importance of genetic diversity for adaptation to new environments and identifies regions with functional relevance. IMPORTANCE When viruses encounter a new host, they can rapidly adapt to this host and cause disease. How these adaptation processes occur remains understudied. Morbilliviruses have high clinical and veterinary relevance and are attractive model systems to study these adaptation processes. The canine distemper virus is of particular interest, as it exhibits a broader host range than other morbilliviruses and frequently crosses species barriers. Here, we compared the adaptation of an attenuated virus and its recombinant derivative to that of ferrets. Pre-existing mutations present at low frequency allowed faster adaptation of the non-recombinant virus compared to the recombinant virus. We identified a common point mutation in the nucleoprotein that affected the pathogenesis of both viruses. Our study shows that genetic memory facilitates environmental adaptation and that erasing this genetic memory by genetic engineering results in delayed and different adaptation to new environments, providing an important safety aspect for the generation of live-attenuated vaccines.

Particles of many paramyxoviruses include small amounts of proteins with a molecular weight of about 20 kDa. These proteins, termed “C”, are basic, have low amino acid homology and some secondary structure conservation. C proteins are encoded in alternative reading frames of the phosphoprotein gene. Some viruses express nested sets of C proteins that exert their functions in different locations: In the nucleus, they interfere with cellular transcription factors that elicit innate immune responses; in the cytoplasm, they associate with viral ribonucleocapsids and control polymerase processivity and orderly replication, thereby minimizing the activation of innate immunity. In addition, certain C proteins can directly bind to, and interfere with the function of, several cytoplasmic proteins required for interferon induction, interferon signaling and inflammation. Some C proteins are also required for efficient virus particle assembly and budding. C-deficient viruses can be grown in certain transformed cell lines but are not pathogenic in natural hosts. C proteins affect the same host functions as other phosphoprotein gene-encoded proteins named V but use different strategies for this purpose. Multiple independent systems to counteract host defenses may ensure efficient immune evasion and facilitate virus adaptation to new hosts and tissue environments.