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1.
Lancet Microbe ; 5(3): e247-e260, 2024 03.
Artículo en Inglés | MEDLINE | ID: mdl-38280387

RESUMEN

BACKGROUND: COVID-19-associated pulmonary aspergillosis (CAPA) is a severe superinfection with the fungus Aspergillus affecting patients who are critically ill with COVID-19. The pathophysiology and the role of neutrophil extracellular traps (NETs) in this infection are largely unknown. We aimed to characterise the immune profile, with a focus on neutrophils and NET concentrations, of critically ill patients with COVID-19, with or without CAPA. METHODS: We conducted a single-centre, retrospective, observational study in two patient cohorts, both recruited at University Hospitals Leuven, Belgium. We included adults aged 18 years or older who were admitted to the intensive care unit because of COVID-19 between March 31, 2020, and May 18, 2021, and who were included in the previous Contagious trial (NCT04327570). We investigated the immune cellular landscape of CAPA versus COVID-19 only by performing single-cell RNA sequencing (scRNA-seq) on bronchoalveolar lavage fluid. Bronchoalveolar lavage immune cell fractions were compared between patients with CAPA and patients with COVID-19 only. Additionally, we determined lower respiratory tract NET concentrations using biochemical assays in patients aged 18 years and older who were admitted to the intensive care unit because of severe COVID-19 between March 15, 2020, and Dec 31, 2021, for whom bronchoalveolar lavage was available in the hospital biobank. Bronchoalveolar lavage NET concentrations were compared between patients with CAPA and patients with COVID-19 only and integrated with existing data on immune mediators in bronchoalveolar lavage and 90-day mortality. FINDINGS: We performed scRNA-seq of bronchoalveolar lavage on 43 samples from 39 patients, of whom 36 patients (30 male and six female; 14 with CAPA) were included in downstream analyses. We performed bronchoalveolar lavage NET analyses in 59 patients (46 male and 13 female), of whom 26 had CAPA. By scRNA-seq, patients with CAPA had significantly lower neutrophil fractions than patients with COVID-19 only (16% vs 33%; p=0·0020). The remaining neutrophils in patients with CAPA preferentially followed a hybrid maturation trajectory characterised by expression of genes linked to antigen presentation, with enhanced transcription of antifungal effector pathways. Patients with CAPA also showed depletion of mucosal-associated invariant T cells, reduced T helper 1 and T helper 17 differentiation, and transcriptional defects in specific aspects of antifungal immunity in macrophages and monocytes. We observed increased formation of NETs in patients with CAPA compared with patients with COVID-19 only (DNA complexed with citrullinated histone H3 median 15 898 ng/mL [IQR 4588-86 419] vs 7062 ng/mL [775-14 088]; p=0·042), thereby explaining decreased neutrophil fractions by scRNA-seq. Low bronchoalveolar lavage NET concentrations were associated with increased 90-day mortality in patients with CAPA. INTERPRETATION: Qualitative and quantitative disturbances in monocyte, macrophage, B-cell, and T-cell populations could predispose patients with severe COVID-19 to develop CAPA. Hybrid neutrophils form a specialised response to CAPA, and an adequate neutrophil response to CAPA is a major determinant for survival in these patients. Therefore, measuring bronchoalveolar lavage NETs could have diagnostic and prognostic value in patients with CAPA. Clinicians should be wary of aspergillosis when using immunomodulatory therapy that might inhibit NETosis to treat patients with severe COVID-19. FUNDING: Research Foundation Flanders, KU Leuven, UZ Leuven, VIB, the Fundação para a Ciência e a Tecnologia, the European Regional Development Fund, la Caixa Foundation, the Flemish Government, and Horizon 2020.


Asunto(s)
COVID-19 , Trampas Extracelulares , Aspergilosis Pulmonar , Adulto , Humanos , Femenino , Masculino , Estudios Retrospectivos , Antifúngicos , Enfermedad Crítica , COVID-19/complicaciones , Sistema Respiratorio , Análisis de Secuencia de ARN
2.
Cardiovasc Res ; 119(2): 520-535, 2023 03 31.
Artículo en Inglés | MEDLINE | ID: mdl-35998078

RESUMEN

AIMS: Severe acute respiratory syndrome coronavirus-2 infection causes COVID-19, which in severe cases evokes life-threatening acute respiratory distress syndrome (ARDS). Transcriptome signatures and the functional relevance of non-vascular cell types (e.g. immune and epithelial cells) in COVID-19 are becoming increasingly evident. However, despite its known contribution to vascular inflammation, recruitment/invasion of immune cells, vascular leakage, and perturbed haemostasis in the lungs of severe COVID-19 patients, an in-depth interrogation of the endothelial cell (EC) compartment in lethal COVID-19 is lacking. Moreover, progressive fibrotic lung disease represents one of the complications of COVID-19 pneumonia and ARDS. Analogous features between idiopathic pulmonary fibrosis (IPF) and COVID-19 suggest partial similarities in their pathophysiology, yet, a head-to-head comparison of pulmonary cell transcriptomes between both conditions has not been implemented to date. METHODS AND RESULTS: We performed single-nucleus RNA-sequencing on frozen lungs from 7 deceased COVID-19 patients, 6 IPF explant lungs, and 12 controls. The vascular fraction, comprising 38 794 nuclei, could be subclustered into 14 distinct EC subtypes. Non-vascular cell types, comprising 137 746 nuclei, were subclustered and used for EC-interactome analyses. Pulmonary ECs of deceased COVID-19 patients showed an enrichment of genes involved in cellular stress, as well as signatures suggestive of dampened immunomodulation and impaired vessel wall integrity. In addition, increased abundance of a population of systemic capillary and venous ECs was identified in COVID-19 and IPF. COVID-19 systemic ECs closely resembled their IPF counterparts, and a set of 30 genes was found congruently enriched in systemic ECs across studies. Receptor-ligand interaction analysis of ECs with non-vascular cell types in the pulmonary micro-environment revealed numerous previously unknown interactions specifically enriched/depleted in COVID-19 and/or IPF. CONCLUSIONS: This study uncovered novel insights into the abundance, expression patterns, and interactomes of EC subtypes in COVID-19 and IPF, relevant for future investigations into the progression and treatment of both lethal conditions.


Asunto(s)
COVID-19 , Fibrosis Pulmonar Idiopática , Síndrome de Dificultad Respiratoria , Humanos , Fibrosis Pulmonar Idiopática/genética , Fibrosis Pulmonar Idiopática/metabolismo , Pulmón/metabolismo , Síndrome de Dificultad Respiratoria/metabolismo , Transcriptoma
3.
EBioMedicine ; 83: 104195, 2022 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-35939907

RESUMEN

BACKGROUND: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) binds to the angiotensin-converting enzyme 2 (ACE2) receptor, a critical component of the kallikrein-kinin system. Its dysregulation may lead to increased vascular permeability and release of inflammatory chemokines. Interactions between the kallikrein-kinin and the coagulation system might further contribute to thromboembolic complications in COVID-19. METHODS: In this observational study, we measured plasma and tissue kallikrein hydrolytic activity, levels of kinin peptides, and myeloperoxidase (MPO)-DNA complexes as a biomarker for neutrophil extracellular traps (NETs), in bronchoalveolar lavage (BAL) fluid from patients with and without COVID-19. FINDINGS: In BAL fluid from patients with severe COVID-19 (n = 21, of which 19 were mechanically ventilated), we observed higher tissue kallikrein activity (18·2 pM [1·2-1535·0], median [range], n = 9 vs 3·8 [0·0-22·0], n = 11; p = 0·030), higher levels of the kinin peptide bradykinin-(1-5) (89·6 [0·0-2425·0], n = 21 vs 0·0 [0·0-374·0], n = 19, p = 0·001), and higher levels of MPO-DNA complexes (699·0 ng/mL [66·0-142621·0], n = 21 vs 70·5 [9·9-960·0], n = 19, p < 0·001) compared to patients without COVID-19. INTERPRETATION: Our observations support the hypothesis that dysregulation of the kallikrein-kinin system might occur in mechanically ventilated patients with severe pulmonary disease, which might help to explain the clinical presentation of patients with severe COVID-19 developing pulmonary oedema and thromboembolic complications. Therefore, targeting the kallikrein-kinin system should be further explored as a potential treatment option for patients with severe COVID-19. FUNDING: Research Foundation-Flanders (G0G4720N, 1843418N), KU Leuven COVID research fund.


Asunto(s)
COVID-19 , Sistema Calicreína-Quinina , Enzima Convertidora de Angiotensina 2 , Bradiquinina , Líquido del Lavado Bronquioalveolar , Humanos , Calicreínas/metabolismo , Peroxidasa/metabolismo , SARS-CoV-2 , Calicreínas de Tejido/metabolismo
4.
EBioMedicine ; 83: 104240, 2022 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-36041265

RESUMEN

BACKGROUND: The live-attenuated yellow fever vaccine YF17D holds great promise as alternative viral vector vaccine platform, showcased by our previously presented potent severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) vaccine candidate YF-S0. Besides protection from SARS-CoV-2, YF-S0 also induced strong yellow fever virus (YFV)-specific immunity, suggestive for full dual activity. A vaccine concomitantly protecting from SARS-CoV-2 and YFV would be of great benefit for those living in YFV-endemic areas with limited access to current SARS-CoV-2 vaccines. However, for broader applicability, pre-existing vector immunity should not impact the potency of such YF17D-vectored vaccines. METHODS: The immunogenicity and efficacy of YF-S0 against YFV and SARS-CoV-2 in the presence of strong pre-existing YFV immunity were evaluated in mouse and hamster challenge models. FINDINGS: Here, we show that a single dose of YF-S0 is sufficient to induce strong humoral and cellular immunity against YFV as well as SARS-CoV-2 in mice and hamsters; resulting in full protection from vigorous YFV challenge in either model; in mice against lethal intracranial YF17D challenge, and in hamsters against viscerotropic infection and liver disease following challenge with highly pathogenic hamster-adapted YFV-Asibi strain. Importantly, strong pre-existing immunity against the YF17D vector did not interfere with subsequent YF-S0 vaccination in mice or hamsters; nor with protection conferred against SARS-CoV-2 strain B1.1.7 (Alpha variant) infection in hamsters. INTERPRETATION: Our findings warrant the development of YF-S0 as dual SARS-CoV-2 and YFV vaccine. Contrary to other viral vaccine platforms, use of YF17D does not suffer from pre-existing vector immunity. FUNDING: Stated in the acknowledgments.


Asunto(s)
COVID-19 , Vacunas Virales , Vacuna contra la Fiebre Amarilla , Fiebre Amarilla , Animales , Anticuerpos Antivirales , COVID-19/prevención & control , Vacunas contra la COVID-19 , Cricetinae , Humanos , Ratones , SARS-CoV-2 , Vacunas Virales/genética , Fiebre Amarilla/prevención & control , Virus de la Fiebre Amarilla/genética
5.
Mol Ther Methods Clin Dev ; 25: 215-224, 2022 Jun 09.
Artículo en Inglés | MEDLINE | ID: mdl-35313504

RESUMEN

New platforms are needed for the design of novel prophylactic vaccines and advanced immune therapies. Live-attenuated yellow fever vaccine YF17D serves as a vector for several licensed vaccines and platform for novel candidates. On the basis of YF17D, we developed an exceptionally potent COVID-19 vaccine candidate called YF-S0. However, use of such live RNA viruses raises safety concerns, such as adverse events linked to original YF17D (yellow fever vaccine-associated neurotropic disease [YEL-AND] and yellow fever vaccine-associated viscerotropic disease [YEL-AVD]). In this study, we investigated the biodistribution and shedding of YF-S0 in hamsters. Likewise, we introduced hamsters deficient in signal transducer and activator of transcription 2 (STAT2) signaling as a new preclinical model of YEL-AND/AVD. Compared with YF17D, YF-S0 showed improved safety with limited dissemination to brain and visceral tissues, absent or low viremia, and no shedding of infectious virus. Considering that yellow fever virus is transmitted by Aedes mosquitoes, any inadvertent exposure to the live recombinant vector via mosquito bites is to be excluded. The transmission risk of YF-S0 was hence compared with readily transmitting YF-Asibi strain and non-transmitting YF17D vaccine, with no evidence for productive infection of mosquitoes. The overall favorable safety profile of YF-S0 is expected to translate to other vaccines based on the same YF17D platform.

6.
Nat Commun ; 12(1): 6243, 2021 10 29.
Artículo en Inglés | MEDLINE | ID: mdl-34716338

RESUMEN

Understanding the pathology of COVID-19 is a global research priority. Early evidence suggests that the respiratory microbiome may be playing a role in disease progression, yet current studies report contradictory results. Here, we examine potential confounders in COVID-19 respiratory microbiome studies by analyzing the upper (n = 58) and lower (n = 35) respiratory tract microbiome in well-phenotyped COVID-19 patients and controls combining microbiome sequencing, viral load determination, and immunoprofiling. We find that time in the intensive care unit and type of oxygen support, as well as associated treatments such as antibiotic usage, explain the most variation within the upper respiratory tract microbiome, while SARS-CoV-2 viral load has a reduced impact. Specifically, mechanical ventilation is linked to altered community structure and significant shifts in oral taxa previously associated with COVID-19. Single-cell transcriptomics of the lower respiratory tract of COVID-19 patients identifies specific oral bacteria in physical association with proinflammatory immune cells, which show higher levels of inflammatory markers. Overall, our findings suggest confounders are driving contradictory results in current COVID-19 microbiome studies and careful attention needs to be paid to ICU stay and type of oxygen support, as bacteria favored in these conditions may contribute to the inflammatory phenotypes observed in severe COVID-19 patients.


Asunto(s)
COVID-19/microbiología , Microbioma Gastrointestinal/genética , Microbioma Gastrointestinal/fisiología , Humanos , Microbiota/fisiología , SARS-CoV-2/patogenicidad , Transcriptoma/genética
7.
Nat Microbiol ; 6(10): 1219-1232, 2021 10.
Artículo en Inglés | MEDLINE | ID: mdl-34471255

RESUMEN

The coronavirus disease 2019 (COVID-19) pandemic has claimed millions of lives and caused a global economic crisis. No effective antiviral drugs are currently available to treat infections of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The medical need imposed by the pandemic has spurred unprecedented research efforts to study coronavirus biology. Every virus depends on cellular host factors and pathways for successful replication. These proviral host factors represent attractive targets for antiviral therapy as they are genetically more stable than viral targets and may be shared among related viruses. The application of various 'omics' technologies has led to the rapid discovery of proviral host factors that are required for the completion of the SARS-CoV-2 life cycle. In this Review, we summarize insights into the proviral host factors that are required for SARS-CoV-2 infection that were mainly obtained using functional genetic and interactome screens. We discuss cellular processes that are important for the SARS-CoV-2 life cycle, as well as parallels with non-coronaviruses. Finally, we highlight host factors that could be targeted by clinically approved molecules and molecules in clinical trials as potential antiviral therapies for COVID-19.


Asunto(s)
COVID-19/metabolismo , SARS-CoV-2/fisiología , Antivirales/farmacología , Antivirales/uso terapéutico , COVID-19/virología , Interacciones Huésped-Patógeno/efectos de los fármacos , Humanos , Péptido Hidrolasas/metabolismo , ARN Viral/metabolismo , Receptores Virales/metabolismo , SARS-CoV-2/efectos de los fármacos , Proteínas Virales/metabolismo , Internalización del Virus/efectos de los fármacos , Replicación Viral/efectos de los fármacos , Tratamiento Farmacológico de COVID-19
8.
Nat Genet ; 53(4): 435-444, 2021 04.
Artículo en Inglés | MEDLINE | ID: mdl-33686287

RESUMEN

The ongoing COVID-19 pandemic has caused a global economic and health crisis. To identify host factors essential for coronavirus infection, we performed genome-wide functional genetic screens with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and human coronavirus 229E. These screens uncovered virus-specific as well as shared host factors, including TMEM41B and PI3K type 3. We discovered that SARS-CoV-2 requires the lysosomal protein TMEM106B to infect human cell lines and primary lung cells. TMEM106B overexpression enhanced SARS-CoV-2 infection as well as pseudovirus infection, suggesting a role in viral entry. Furthermore, single-cell RNA-sequencing of airway cells from patients with COVID-19 demonstrated that TMEM106B expression correlates with SARS-CoV-2 infection. The present study uncovered a collection of coronavirus host factors that may be exploited to develop drugs against SARS-CoV-2 infection or future zoonotic coronavirus outbreaks.


Asunto(s)
COVID-19/genética , Sistemas CRISPR-Cas , Genoma Humano/genética , Estudio de Asociación del Genoma Completo/métodos , Proteínas de la Membrana/genética , Proteínas del Tejido Nervioso/genética , Líquido del Lavado Bronquioalveolar/citología , COVID-19/epidemiología , COVID-19/virología , Línea Celular Tumoral , Células Cultivadas , Coronavirus Humano 229E/genética , Epidemias , Células Epiteliales/virología , Expresión Génica , Interacciones Huésped-Patógeno , Humanos , Provirus/fisiología , SARS-CoV-2/fisiología , Internalización del Virus
9.
Cell Res ; 31(3): 272-290, 2021 03.
Artículo en Inglés | MEDLINE | ID: mdl-33473155

RESUMEN

How the innate and adaptive host immune system miscommunicate to worsen COVID-19 immunopathology has not been fully elucidated. Here, we perform single-cell deep-immune profiling of bronchoalveolar lavage (BAL) samples from 5 patients with mild and 26 with critical COVID-19 in comparison to BALs from non-COVID-19 pneumonia and normal lung. We use pseudotime inference to build T-cell and monocyte-to-macrophage trajectories and model gene expression changes along them. In mild COVID-19, CD8+ resident-memory (TRM) and CD4+ T-helper-17 (TH17) cells undergo active (presumably antigen-driven) expansion towards the end of the trajectory, and are characterized by good effector functions, while in critical COVID-19 they remain more naïve. Vice versa, CD4+ T-cells with T-helper-1 characteristics (TH1-like) and CD8+ T-cells expressing exhaustion markers (TEX-like) are enriched halfway their trajectories in mild COVID-19, where they also exhibit good effector functions, while in critical COVID-19 they show evidence of inflammation-associated stress at the end of their trajectories. Monocyte-to-macrophage trajectories show that chronic hyperinflammatory monocytes are enriched in critical COVID-19, while alveolar macrophages, otherwise characterized by anti-inflammatory and antigen-presenting characteristics, are depleted. In critical COVID-19, monocytes contribute to an ATP-purinergic signaling-inflammasome footprint that could enable COVID-19 associated fibrosis and worsen disease-severity. Finally, viral RNA-tracking reveals infected lung epithelial cells, and a significant proportion of neutrophils and macrophages that are involved in viral clearance.


Asunto(s)
Inmunidad Adaptativa , Lavado Broncoalveolar , COVID-19/diagnóstico , COVID-19/inmunología , Inmunidad Innata , Análisis de la Célula Individual , Líquido del Lavado Bronquioalveolar , Linfocitos T CD4-Positivos/citología , Linfocitos T CD8-positivos/citología , Comunicación Celular , Perfilación de la Expresión Génica , Humanos , Pulmón/virología , Macrófagos Alveolares/citología , Monocitos/citología , Neutrófilos/citología , Fenotipo , Análisis de Componente Principal , RNA-Seq , Células Th17/citología
10.
RNA Biol ; 18(5): 732-744, 2021 05.
Artículo en Inglés | MEDLINE | ID: mdl-33459164

RESUMEN

Flaviviruses such as the dengue (DENV) and the Zika virus (ZIKV) are important human pathogens causing around 100 million symptomatic infections each year. During infection, small subgenomic flavivirus RNAs (sfRNAs) are formed inside the infected host cell as a result of incomplete degradation of the viral RNA genome by cellular exoribonuclease XRN1. Although the full extent of sfRNA functions is to be revealed, these non-coding RNAs are key virulence factors and their detrimental effects on multiple cellular processes seem to consistently involve molecular interactions with RNA-binding proteins (RBPs). Discovery of such sfRNA-binding host-factors has followed established biochemical pull-down approaches skewed towards highly abundant proteins hampering proteome-wide coverage. Yeast three-hybrid (Y3H) systems represent an attractive alternative approach. To facilitate proteome-wide screens for RBP, we revisited and improved existing RNA-Y3H methodology by (1) implementing full-length ORF libraries in combination with (2) efficient yeast mating to increase screening depth and sensitivity, and (3) stringent negative controls to eliminate over-representation of non-specific RNA-binders. These improvements were validated employing the well-characterized interaction between DDX6 (DEAD-box helicase 6) and sfRNA of DENV as paradigm. Our advanced Y3H system was used to screen for human proteins binding to DENV and ZIKV sfRNA, resulting in a list of 69 putative sfRNA-binders, including several previously reported as well as numerous novel RBP host factors. Our methodology requiring no sophisticated infrastructure or analytic pipeline may be employed for the discovery of meaningful RNA-protein interactions at large scale in other fields.


Asunto(s)
Interacciones Huésped-Patógeno , Mapas de Interacción de Proteínas , ARN Viral/metabolismo , Proteínas de Unión al ARN/aislamiento & purificación , Células Cultivadas , Dengue/genética , Dengue/metabolismo , Virus del Dengue/genética , Genoma Humano , Humanos , Sistemas de Lectura Abierta/genética , Organismos Modificados Genéticamente , Unión Proteica , Estabilidad del ARN , ARN Viral/genética , Proteínas de Unión al ARN/análisis , Proteínas de Unión al ARN/metabolismo , Saccharomyces cerevisiae , Técnicas del Sistema de Dos Híbridos , Virus Zika/genética , Infección por el Virus Zika/genética , Infección por el Virus Zika/metabolismo
11.
Nature ; 590(7845): 320-325, 2021 02.
Artículo en Inglés | MEDLINE | ID: mdl-33260195

RESUMEN

The expanding pandemic of coronavirus disease 2019 (COVID-19) requires the development of safe, efficacious and fast-acting vaccines. Several vaccine platforms are being leveraged for a rapid emergency response1. Here we describe the development of a candidate vaccine (YF-S0) for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) that uses live-attenuated yellow fever 17D (YF17D) vaccine as a vector to express a noncleavable prefusion form of the SARS-CoV-2 spike antigen. We assess vaccine safety, immunogenicity and efficacy in several animal models. YF-S0 has an excellent safety profile and induces high levels of SARS-CoV-2 neutralizing antibodies in hamsters (Mesocricetus auratus), mice (Mus musculus) and cynomolgus macaques (Macaca fascicularis), and-concomitantly-protective immunity against yellow fever virus. Humoral immunity is complemented by a cellular immune response with favourable T helper 1 polarization, as profiled in mice. In a hamster model2 and in macaques, YF-S0 prevents infection with SARS-CoV-2. Moreover, a single dose conferred protection from lung disease in most of the vaccinated hamsters within as little as 10 days. Taken together, the quality of the immune responses triggered and the rapid kinetics by which protective immunity can be attained after a single dose warrant further development of this potent SARS-CoV-2 vaccine candidate.


Asunto(s)
Vacunas contra la COVID-19/inmunología , COVID-19/inmunología , COVID-19/prevención & control , Vectores Genéticos/genética , SARS-CoV-2/inmunología , Vacunas Atenuadas/inmunología , Vacuna contra la Fiebre Amarilla/genética , Animales , Vacunas contra la COVID-19/administración & dosificación , Vacunas contra la COVID-19/efectos adversos , Vacunas contra la COVID-19/genética , Cricetinae , Modelos Animales de Enfermedad , Femenino , Glicosilación , Macaca fascicularis/genética , Macaca fascicularis/inmunología , Macaca fascicularis/virología , Masculino , Mesocricetus/genética , Mesocricetus/inmunología , Mesocricetus/virología , Ratones , Seguridad , Glicoproteína de la Espiga del Coronavirus/química , Glicoproteína de la Espiga del Coronavirus/genética , Glicoproteína de la Espiga del Coronavirus/inmunología , Glicoproteína de la Espiga del Coronavirus/metabolismo , Vacunas Atenuadas/administración & dosificación , Vacunas Atenuadas/efectos adversos , Vacunas Atenuadas/genética
12.
Nat Commun ; 11(1): 5838, 2020 11 17.
Artículo en Inglés | MEDLINE | ID: mdl-33203860

RESUMEN

Emergence of SARS-CoV-2 causing COVID-19 has resulted in hundreds of thousands of deaths. In search for key targets of effective therapeutics, robust animal models mimicking COVID-19 in humans are urgently needed. Here, we show that Syrian hamsters, in contrast to mice, are highly permissive to SARS-CoV-2 and develop bronchopneumonia and strong inflammatory responses in the lungs with neutrophil infiltration and edema, further confirmed as consolidations visualized by micro-CT alike in clinical practice. Moreover, we identify an exuberant innate immune response as key player in pathogenesis, in which STAT2 signaling plays a dual role, driving severe lung injury on the one hand, yet restricting systemic virus dissemination on the other. Our results reveal the importance of STAT2-dependent interferon responses in the pathogenesis and virus control during SARS-CoV-2 infection and may help rationalizing new strategies for the treatment of COVID-19 patients.


Asunto(s)
Betacoronavirus/fisiología , Infecciones por Coronavirus/patología , Infecciones por Coronavirus/virología , Modelos Animales de Enfermedad , Neumonía Viral/patología , Neumonía Viral/virología , Factor de Transcripción STAT2/metabolismo , Transducción de Señal , Animales , Betacoronavirus/patogenicidad , COVID-19 , Infecciones por Coronavirus/inmunología , Infecciones por Coronavirus/metabolismo , Cricetinae , Inmunidad Innata , Interferón Tipo I/genética , Interferón Tipo I/metabolismo , Pulmón/patología , Pulmón/virología , Ratones , Pandemias , Neumonía Viral/inmunología , Neumonía Viral/metabolismo , SARS-CoV-2 , Factor de Transcripción STAT2/genética , Replicación Viral
13.
J Proteome Res ; 19(7): 2529-2538, 2020 07 02.
Artículo en Inglés | MEDLINE | ID: mdl-32216351

RESUMEN

RNA-protein interactions are essential for the regulation of mRNA and noncoding RNA functions and are implicated in many diseases, such as cancer and neurodegenerative disorders. A method that can detect RNA-protein interactions in living mammalian cells on a proteome-wide scale will be an important asset to identify and study these interactions. Here we show that a combination of the mammalian two-hybrid protein-protein detection method KISS (kinase substrate sensor) and the yeast RNA three-hybrid method, utilizing the specific interaction between the MS2 RNA and MS2 coat protein, is capable of detecting RNA-protein interactions in living mammalian cells. For conceptional proof we used the subgenomic flavivirus RNA (sfRNA) of the dengue virus (DENV), a highly structured noncoding RNA derived from the DENV genome known to target host cell proteins involved in innate immunity and antiviral defense, as bait. Using RNA-KISS, we could confirm the previously established interaction between the RNA-binding domain of DDX6 and the DENV sfRNA. Finally, we performed a human proteome-wide screen for DENV sfRNA-binding host factors, identifying several known flavivirus host factors such as DDX6 and PACT, further validating the RNA-KISS method as a robust and high-throughput cell-based RNA-protein interaction screening tool.


Asunto(s)
Flavivirus , ARN Viral , Animales , ARN Helicasas DEAD-box , Flavivirus/genética , Humanos , Proteínas Proto-Oncogénicas , ARN no Traducido , ARN Viral/genética , Replicación Viral
14.
PLoS One ; 10(2): e0117017, 2015.
Artículo en Inglés | MEDLINE | ID: mdl-25658703

RESUMEN

In order to acquire information concerning the geometry and material of handheld objects, people tend to execute stereotypical hand movement patterns called haptic Exploratory Procedures (EPs). Manual annotation of haptic exploration trials with these EPs is a laborious task that is affected by subjectivity, attentional lapses, and viewing angle limitations. In this paper we propose an automatic EP annotation method based on position and orientation data from motion tracking sensors placed on both hands and inside a stimulus. A set of kinematic variables is computed from these data and compared to sets of predefined criteria for each of four EPs. Whenever all criteria for a specific EP are met, it is assumed that that particular hand movement pattern was performed. This method is applied to data from an experiment where blindfolded participants haptically discriminated between objects differing in hardness, roughness, volume, and weight. In order to validate the method, its output is compared to manual annotation based on video recordings of the same trials. Although mean pairwise agreement is less between human-automatic pairs than between human-human pairs (55.7% vs 74.5%), the proposed method performs much better than random annotation (2.4%). Furthermore, each EP is linked to a specific object property for which it is optimal (e.g., Lateral Motion for roughness). We found that the percentage of trials where the expected EP was found does not differ between manual and automatic annotation. For now, this method cannot yet completely replace a manual annotation procedure. However, it could be used as a starting point that can be supplemented by manual annotation.


Asunto(s)
Conducta Exploratoria/fisiología , Mano/fisiología , Tacto/fisiología , Femenino , Humanos , Masculino , Percepción del Tacto , Adulto Joven
15.
Anxiety Stress Coping ; 27(1): 100-12, 2014 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-23837827

RESUMEN

We investigated the effects of anxiety on the execution of police officers' arrest and self-defense skills. Police officers (n=13) performed three tasks in which they kicked, blocked, or restrained an opponent who attacked them with a rubber knife (low anxiety, LA) or a shock knife (high anxiety, HA) in a within-subject design. We analyzed performance (on a 5-point Likert scale), movement times, posture, and movement velocity and acceleration. Results revealed that performance was worse in the HA compared to the LA condition. Furthermore, analysis of full-body movement showed that under increased anxiety, police officers' performance contained characteristics of avoidance behavior, such as faster reactions (to reduce the time being exposed to the threat), leaning further backward (kick), and ducking down (block). In line with recent theoretical developments, it appears that under increased anxiety, police officers were less able to inhibit stimulus-driven processing (fear of getting hit) and enforce goal-directed processing (perform the skill as well as possible) leading to avoidance behavior and a decrease in performance.


Asunto(s)
Agresión/psicología , Trastornos de Ansiedad/psicología , Crimen/legislación & jurisprudencia , Crimen/psicología , Policia , Competencia Profesional , Rol Profesional/psicología , Adulto , Trastornos de Ansiedad/diagnóstico , Nivel de Alerta , Atención , Reacción de Prevención , Femenino , Frecuencia Cardíaca , Humanos , Perfil Laboral , Masculino , Desempeño Psicomotor , Tiempo de Reacción , Estrés Psicológico/complicaciones
16.
IEEE Trans Haptics ; 6(4): 464-72, 2013.
Artículo en Inglés | MEDLINE | ID: mdl-24808398

RESUMEN

Haptic exploratory procedures (EPs) are prototypical hand movements that are linked to the acquisition of specific object properties. In studies of haptic perception, hand movements are often classified into these EPs. Here, we aim to investigate several EPs in a quantitative manner to understand how hand dynamics and contact forces differ between them. These dissimilarities are then used to construct an EP identification model capable of discriminating between EPs based on the index finger position and contact force. The extent to which the instructed EPs were distinct, repeatable, and similar across subjects was confirmed by showing that more than 95 percent of the analyzed trials were classified correctly. Finally, the method is employed to investigate haptic exploratory behavior during similarity judgments based on several object properties. It seems that discrimination based on material properties (hardness, roughness, and temperature) yields more consistent classification results compared to discrimination based on the acquisition of shape information.


Asunto(s)
Conducta Exploratoria/fisiología , Mano/fisiología , Tacto/fisiología , Adulto , Femenino , Percepción de Forma/fisiología , Humanos , Masculino , Psicofísica/métodos , Estereognosis/fisiología , Percepción del Tacto/fisiología
17.
Opt Express ; 20(26): B608-14, 2012 Dec 10.
Artículo en Inglés | MEDLINE | ID: mdl-23262909

RESUMEN

DFTS-OFDM has been proposed recently as an alternative to coherent optical OFDM due to its improved transmission performance. This paper proposes spectral shaping for DFTS-OFDM which reduces the PAPR leading to further improvement in nonlinear tolerance. It is shown that for both SSMF and LEAF, the optimized spectrally shaped DFTS-OFDM outperforms DFTS-OFDM for dispersion managed and unmanaged links by ~10.8% and ~6.8%, respectively. The number of bands and the excess bandwidth parameters are also investigated to optimize the transmission performance.

18.
Opt Express ; 20(10): 10859-69, 2012 May 07.
Artículo en Inglés | MEDLINE | ID: mdl-22565711

RESUMEN

The complexities of common equalizer schemes are analytically analyzed in this paper in terms of complex multiplications per bit. Based on this approach we compare the complexity of mode-division multiplexed digital signal processing algorithms with different numbers of multiplexed modes in terms of modal dispersion and distance. It is found that training symbol based equalizers have significantly lower complexity compared to blind approaches for long-haul transmission. Among the training symbol based schemes, OFDM requires the lowest complexity for crosstalk compensation in a mode-division multiplexed receiver. The main challenge for training symbol based schemes is the additional overhead required to compensate modal crosstalk, which increases the data rate. In order to achieve 2000 km transmission, the effective modal dispersion must therefore be below 6 ps/km when the OFDM specific overhead is limited to 10%. It is concluded that for few mode transmission systems the reduction of modal delay is crucial to enable long-haul performance.

19.
Opt Express ; 20(28): 29776-83, 2012 Dec 31.
Artículo en Inglés | MEDLINE | ID: mdl-23388805

RESUMEN

Spatial-division multiplexing in the form of few-mode fibers has captured the attention of researchers since it is an attractive approach to significantly increase the channel capacity. However, the optical components employed in such systems introduce mode-dependent loss or gain (MDL) due to manufacturing imperfections, leading to significant system impairments. In this work the impact of MDL from optical amplifiers in few-mode fibers with either weak or strong mode coupling is analyzed for a 3x136-Gbit/s DP-QPSK mode-division multiplexed transmission system. It is shown that strong mode coupling reduces the impact of MDL in a similar manner as that polarization-dependent loss is reduced in single mode fibers by polarization-mode dispersion.

20.
Exp Brain Res ; 212(3): 449-56, 2011 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-21687987

RESUMEN

This study investigated how human locomotion through an obstacle environment is influenced by visual field limitation. Participants were asked to walk at a comfortable pace to a target location while avoiding multiple vertical objects. During this task, they wore goggles restricting their visual field to small (S: 40°×25°), medium (M: 80°×60°), large (L: 115°×90°), or unlimited (U) visual field sizes. Full-body motion capture was used to extract for each trial the mean speed, pathlength, mean step width, magnitude of head rotation and head mean angular speed. The results show that compared with the U condition, the M and L conditions caused participants to select a wider path around the obstacles without slowing down or altering step width. However, the S condition did slow down the participants, and increased both their step width and path length. We conclude that only for the S condition, balancing problems were substantial enough to spend more energy associated with increased step width. In all cases, participants choose to optimize safety (collision avoidance) at the cost of spending more energy.


Asunto(s)
Locomoción/fisiología , Actividad Motora/fisiología , Solución de Problemas/fisiología , Conducta Espacial/fisiología , Campos Visuales/fisiología , Adulto , Ambiente , Femenino , Movimientos de la Cabeza/fisiología , Humanos , Masculino , Persona de Mediana Edad , Orientación/fisiología , Desempeño Psicomotor/fisiología
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