RNA Therapeutics: Informational drugs as a pandemic response tool

This presentation, hosted by the Community Engagement and Research Section, University of Massachusetts Medical School Center for Clinical and Translational Science, describes the development of siRNA-based approaches for modulation of COVID-19 in the lung in a three-month time frame. This talk was the second in the COVID-19 Research Community Forum webinar series, a collaboration of the four federally-funded Clinical and Translational Science Awardees (CTSA) in Massachusetts, that provided an opportunity for community members, institutions and other organizations to be part of the discussions surrounding the COVID-19 pandemic. The MA CTSAs, consisting of the UMass Center for Clinical and Translational Science, Tufts Clinical and Translational Science Institute, Harvard Catalyst, and Boston University Clinical and Translational Science Institute, offered community forums with researchers to hear about COVID-19 research happening here in Massachusetts

A era dos medicamentos de ARN interferência: o panorama clínico dos fármacos para silenciamento génico

ABSTRACT - Therapeutic oligonucleotides, such as small interfering RNAs (siRNAs), provide a simple and effective tool to modulate the expression of any gene. siRNAs harness the RNA interference (RNAi) pathway to degrade disease-associated messenger RNAs (mRNAs). The inherent sequence specificity and potency of siRNAs makes them ideal drug candidates that are expected to transform drug development and our approach to human health. However, the first wave of clinical trials was not immediately successful and temporarily dampened the excitement over this newly discovered technology. Most studies did not meet the desired efficacy and failed to achieve clinically-relevant endpoints. Poor chemical design, lack of enzymatic stability and inadequate delivery strategies were found to be the main issues stifling success. Recent advancements in RNA chemistry, biology, and mechanistic understanding of factors that define oligonucleotide pharmacokinetic/pharmacodynamic behavior have resulted in a fundamental shift in the clinical landscape of this novel class of therapeutic modalities. As a result, there has been a dramatic increase in both the numbers of clinical trials and, more importantly, the level of observed clinical efficacy. In 2018, we witnessed a major landmark for the field with the first RNAi-based therapeutics, Patisiran (OnpattroTM), being approved by the Food and Drug Administration and the European Medicines Agency. Several other lead compounds have achieved unprecedented levels of activity following a single treatment dose, and hold great promise as new therapeutic strategies for liver diseases. This review gives an overview of the clinical landscape of synthetic RNAi drugs, contextualizing how advances in RNAi chemistry and formulation strategies have helped define the clinical utility of this promising class of drugs.RESUMO - Oligonucleotídeos sintéticos, como os small interfering RNAs (siRNAs), providenciam uma forma simples e eficiente de modular a expressão de qualquer gene. siRNAs utilizam um mecanismo endógeno, chamado ARN interferência, para degradar ARN mensageiros que estejam associados a condições patológicas. A capacidade de silenciar genes com elevada especificidade e potência faz dos siRNAs fármacos ideais com um elevado potencial para transformar o ramo da medicina e a forma como se faz desenvolvimento farmacêutico. Contudo, os primeiros ensaios clínicos com esta tecnologia não tiveram sucesso imediato, o que reduziu temporariamente o entusiasmo da comunidade científica. A maioria destes estudos iniciais não atingiram a eficácia clínica desejada. A introdução prematura de fármacos que não se encontravam devidamente estabilizados e a utilização de estratégias de administração inadequadas foram as principais causas dos primeiros fracassos. Avanços recentes na síntese química de oligonucleotídeos, como a melhor compreensão dos processos biológicos que definem a farmacocinética/farmacodinâmica destes fármacos, resultou numa mudança drástica no panorama clínico desta nova modalidade terapêutica. O número de ensaios clínicos tem aumentado significativamente ao longo dos últimos anos, em paralelo com o aumento da eficácia terapêutica destes medicamentos. Em 2018 foi testemunhado um marco importante para o ramo de desenvolvimento destes fármacos, com a aprovação do primeiro produto baseado em liposomas, Patisiran (OnpattroTM), pela Food and Drug Administration e pela European Medicines Agency. Aproximadamente um ano mais tarde foi aprovado o primeiro fármaco que utiliza a estratégia de conjugados que possibilita a internalização específica em hepatócitos, Givosiran (GIVLAARITM). A recente aprovação destes dois fármacos trouxe uma esperança renovada ao ramo de ARN interferência, alimentando o interesse nesta estratégia como poderosa ferramenta terapêutica para doenças do foro genético. Este artigo de revisão pretende providenciar uma perspetiva geral sobre o panorama clínico dos fármacos para silenciamento génico, contextualizando o papel dos avanços tecnológicos que permitiram a definição desta modalidade como uma nova classe farmacêutica.info:eu-repo/semantics/publishedVersio

Single-Stranded Phosphorothioated Regions Enhance Cellular Uptake of Cholesterol-Conjugated siRNA but Not Silencing Efficacy

Small interfering RNAs (siRNAs) have potential to silence virtually any disease-causing gene but require chemical modifications for delivery to the tissue and cell of interest. Previously, we demonstrated that asymmetric, phosphorothioate (PS)-modified, chemically stabilized, cholesterol-conjugated siRNAs, called hsiRNAs, support rapid cellular uptake and efficient mRNA silencing both in cultured cells and in vivo. Here, we systematically evaluated the impact of number, structure, and sequence context of PS-modified backbones on cellular uptake and RNAi-mediated silencing efficacy. We find that PS enhances cellular internalization in a sequence-dependent manner but only when present in a single-stranded but not double-stranded region. Furthermore, the observed increase in cellular internalization did not correlate with functional silencing improvement, indicating that PS-mediated uptake may drive compounds to non-productive sinks. Thus, the primary contributing factor of PS modifications to functional efficacy is likely stabilization rather than enhanced cellular uptake. A better understanding of the relative impact of different chemistries on productive versus non-productive uptake will assist in improved design of therapeutic RNAs

Data on enrichment of chitosan nanoparticles for intranasal delivery of oligonucleotides to the brain

Data on preparation and characterization of chitosan-based nanoparticles (NP) carrying small interfering RNA (siRNA) for non-invasive gene therapy is presented. Polyelectrolyte complexation method was carried out in diluted concentrations to obtain relatively small (less than 200 nm) NP. To provide substantial dose of siRNA within tolerable volume of intranasal administration the NP were subjected to enrichment process. Offered here NP fabrication does two steps process comprise provisional and enriched preparations? The differences between these preparations were analyzed with hydrodynamic size distribution and zeta potential measurements. The effect of siRNA lipophilicity on NP physical instability was also tested. Biological evaluation of nanoparticles is described in our published article [1]

Rac1 Activity Is Modulated by Huntingtin and Dysregulated in Models of Huntington\u27s Disease

BACKGROUND: Previous studies suggest that Huntingtin, the protein mutated in Huntington\u27s disease (HD), is required for actin based changes in cell morphology, and undergoes stimulus induced targeting to plasma membranes where it interacts with phospholipids involved in cell signaling. The small GTPase Rac1 is a downstream target of growth factor stimulation and PI 3-kinase activity and is critical for actin dependent membrane remodeling. OBJECTIVE: To determine if Rac1 activity is impaired in HD or regulated by normal Huntingtin. METHODS: Analyses were performed in differentiated control and HD human stem cells and HD Q140/Q140 knock-in mice. Biochemical methods included SDS-PAGE, western blot, immunoprecipitation, affinity chromatography, and ELISA based Rac activity assays. RESULTS: Basal Rac1 activity increased following depletion of Huntingtin with Huntingtin specific siRNA in human primary fibroblasts and in human control neuron cultures. Human cells (fibroblasts, neural stem cells, and neurons) with the HD mutation failed to increase Rac1 activity in response to growth factors. Rac1 activity levels were elevated in striatum of 1.5-month-old HD Q140/Q140 mice and in primary embryonic cortical neurons from HD mice. Affinity chromatography analysis of striatal lysates showed that Huntingtin is in a complex with Rac1, p85alpha subunit of PI 3-kinase, and the actin bundling protein alpha-actinin and interacts preferentially with the GTP bound form of Rac1. The HD mutation reduced Huntingtin interaction with p85alpha. CONCLUSIONS: These findings suggest that Huntingtin regulates Rac1 activity as part of a coordinated response to growth factor signaling and this function is impaired early in HD

Minimal information for studies of extracellular vesicles 2018 (MISEV2018): a position statement of the International Society for Extracellular Vesicles and update of the MISEV2014 guidelines

The last decade has seen a sharp increase in the number of scientific publications describing physiological and pathological functions of extracellular vesicles (EVs), a collective term covering various subtypes of cell-released, membranous structures, called exosomes, microvesicles, microparticles, ectosomes, oncosomes, apoptotic bodies, and many other names. However, specific issues arise when working with these entities, whose size and amount often make them difficult to obtain as relatively pure preparations, and to characterize properly. The International Society for Extracellular Vesicles (ISEV) proposed Minimal Information for Studies of Extracellular Vesicles ( MISEV ) guidelines for the field in 2014. We now update these MISEV2014 guidelines based on evolution of the collective knowledge in the last four years. An important point to consider is that ascribing a specific function to EVs in general, or to subtypes of EVs, requires reporting of specific information beyond mere description of function in a crude, potentially contaminated, and heterogeneous preparation. For example, claims that exosomes are endowed with exquisite and specific activities remain difficult to support experimentally, given our still limited knowledge of their specific molecular machineries of biogenesis and release, as compared with other biophysically similar EVs. The MISEV2018 guidelines include tables and outlines of suggested protocols and steps to follow to document specific EV-associated functional activities. Finally, a checklist is provided with summaries of key points

Development of Novel Class of Therapeutic Oligonucleotides Based on Small Molecule Screening

Highly inefficient transit of oligonucleotides from outside cells to the intracellular compartments where functional activity of oligonucleotides takes place is the most serious limitation to the practical realization of a full potential of oligonucleotide-based therapies. Several classes of oligonucleotide therapeutics (ONT), including antisense oligonucleotides (ASO), hydrophobically modified siRNAs (hsiRNA), GalNAc-conjugated siRNAs, and LNP-formulated siRNAs have validated biological efficacy and are in clinic. In all cases, the fraction of oligonucleotides reaching the intended place of biological function is surprisingly low, with the majority of molecules being trapped in wrong cellular compartments, resulting in low efficiency and clinically limiting toxicity. We have recently completed a cell-based screen using the LOPAC library and identified a panel of small molecules that alter cellular localization and dramatically enhance the efficacy of hydrophobically modified siRNAs (hsiRNAs) developed previously [4] (Navaroli et al 2013). In the presence of top two hits (Guanabenz and Phenamil), we have observed a dose-dependent enhancement of oligonucleotide efficacy, with both a significant increase in cellular uptake and decrease in EC50 values. Use of small molecules as enhancers and modulators of oligonucleotide therapeutic efficacy is a new paradigm in formulation development with wide implications on compounds in clinic and future developments

The chemical structure and phosphorothioate content of hydrophobically modified siRNAs impact extrahepatic distribution and efficacy

Small interfering RNAs (siRNAs) have revolutionized the treatment of liver diseases. However, robust siRNA delivery to other tissues represents a major technological need. Conjugating lipids (e.g. docosanoic acid, DCA) to siRNA supports extrahepatic delivery, but tissue accumulation and gene silencing efficacy are lower than that achieved in liver by clinical-stage compounds. The chemical structure of conjugated siRNA may significantly impact invivo efficacy, particularly in tissues with lower compound accumulation. Here, we report the first systematic evaluation of the impact of siRNA scaffold-i.e. structure, phosphorothioate (PS) content, linker composition-on DCA-conjugated siRNA delivery and efficacy in vivo. We found that structural asymmetry (e.g. 5- or 2-nt overhang) has no impact on accumulation, but is a principal factor for enhancing activity in extrahepatic tissues. Similarly, linker chemistry (cleavable versus stable) altered activity, but not accumulation. In contrast, increasing PS content enhanced accumulation of asymmetric compounds, but negatively impacted efficacy. Our findings suggest that siRNA tissue accumulation does not fully define efficacy, and that the impact of siRNA chemical structure on activity is driven by intracellular re-distribution and endosomal escape. Fine-tuning siRNA chemical structure for optimal extrahepatic efficacy is a critical next step for the progression of therapeutic RNAi applications beyond liver

Docosanoic acid conjugation to siRNA enables functional and safe delivery to skeletal and cardiac muscles

Oligonucleotide therapeutics hold promise for the treatment of muscle- and heart-related diseases. However, oligonucleotide delivery across the continuous endothelium of muscle tissue is challenging. Here, we demonstrate that docosanoic acid (DCA) conjugation of small interfering RNAs (siRNAs) enables efficient (~5% of injected dose), sustainable ( \u3e 1 month), and non-toxic (no cytokine induction at 100 mg/kg) gene silencing in both skeletal and cardiac muscles after systemic injection. When designed to target myostatin (muscle growth regulation gene), siRNAs induced ~55% silencing in various muscle tissues and 80% silencing in heart, translating into a ~50% increase in muscle volume within 1 week. Our study identifies compounds for RNAi-based modulation of gene expression in skeletal and cardiac muscles, paving the way for both functional genomics studies and therapeutic gene modulation in muscle and heart

Cell Type Impacts Accessibility of mRNA to Silencing by RNA Interference

RNA interference (RNAi) is a potent mechanism that silences mRNA and protein expression in all cells and tissue types. RNAi is known to exert many of its functional effects in the cytoplasm, and thus, the cellular localization of target mRNA may impact observed potency. Here, we demonstrate that cell identity has a profound impact on accessibility of apolipoprotein E (ApoE) mRNA to RNAi. We show that, whereas both neuronal and glial cell lines express detectable ApoE mRNA, in neuronal cells, ApoE mRNA is not targetable by RNAi. Screening of a panel of thirty-five chemically modified small interfering RNAs (siRNAs) did not produce a single hit in a neuronal cell line, whereas up to fifteen compounds showed strong efficacy in glial cells. Further investigation of the cellular localization of ApoE mRNA demonstrates that ApoE mRNA is partially spliced and preferentially localized to the nucleus ( approximately 80%) in neuronal cells, whereas more than 90% of ApoE mRNA is cytoplasmic in glial cells. Such an inconsistency in intracellular localization and splicing might provide an explanation for functional differences in RNAi compounds. Thus, cellular origin might have an impact on accessibility of mRNA to RNAi and should be taken into account during the screening process