A5078494744- RNA Research and Splicing
- Plant Virus Research Studies
- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- Hepatitis C virus research
- Viral Infections and Immunology Research
- Plant and Fungal Interactions Research
- HIV Research and Treatment
- Bacteriophages and microbial interactions
- Hepatitis B Virus Studies
- Animal Disease Management and Epidemiology
- Fungal and yeast genetics research
- Viral Infectious Diseases and Gene Expression in Insects
- HIV/AIDS drug development and treatment
- MicroRNA in disease regulation
- Fungal Plant Pathogen Control
- Trace Elements in Health
- CRISPR and Genetic Engineering
- Microbial Natural Products and Biosynthesis
- Animal Virus Infections Studies
- Plant Disease Resistance and Genetics
- Circular RNAs in diseases
- Liver Disease Diagnosis and Treatment
- RNA regulation and disease
- Genomics and Chromatin Dynamics
Universitat Pompeu Fabra
2016-2025
Universitat de Barcelona
2021
Saarland University
2007-2009
Institute of Virology of the Slovak Academy of Sciences
2003
University of Wisconsin–Madison
1997-2000
Consejo Superior de Investigaciones Científicas
1988-1999
Centro de Edafología y Biología Aplicada del Segura
1998
Howard Hughes Medical Institute
1997
Universidad Autónoma de Madrid
1988-1993
Centro de Biología Molecular Severo Ochoa
1988-1993
Abstract Despite the nuclear localization of m 6 A machinery, genomes multiple exclusively-cytoplasmic RNA viruses, such as chikungunya (CHIKV) and dengue (DENV), are reported to be extensively A-modified. However, these findings mostly based on A-Seq, an antibody-dependent technique with a high rate false positives. Here, we address presence in CHIKV DENV RNAs. For this, combine A-Seq antibody-independent SELECT nanopore direct sequencing techniques functional, molecular, mutagenesis...
Inevitably, viruses depend on host factors for their multiplication. Here, we show that hepatitis C virus (HCV) RNA translation and replication depends Rck/p54, LSm1, PatL1, which regulate the fate of cellular mRNAs from to degradation in 5'-3'-deadenylation-dependent mRNA decay pathway. The requirement these proteins efficient HCV was linked 5' 3' untranslated regions (UTRs) viral genome. Furthermore, LSm1-7 complexes specifically interacted with essential cis-acting elements located UTRs....
Zinc is an essential micronutrient that impacts host-pathogen interplay at infection. balances immune responses, and also has a proven direct antiviral action against some viruses. Importantly, zinc deficiency (ZD) common condition in elderly individuals with chronic diseases, two groups increased risk for severe coronavirus disease 2019 (COVID-19) outcomes. We hypothesize serum content (SZC) influences COVID-19 progression, thus might represent useful biomarker.
De novo gene origination has been recently established as an important mechanism for the formation of new genes. In organisms with a large genome, intergenic and intronic regions provide plenty raw material transcriptional events to occur, but little is know about how de transcripts originate in more densely-packed genomes. Here, we identify 213 originated Saccharomyces cerevisiae using deep transcriptomics genomic synteny information from multiple yeast species grown two different...
Virus and cells evolve during serial passage of cloned BHK-21 persistently infected with foot-and-mouth disease virus (FMDV). These carrier cells, termed C1-BHK-Rc1 (J.C. de la Torre, M. Dávila, F. Sobrino, J. Ortín, E. Domingo, Virology 145:24-35, 1985), become constitutively resistant to the parental FMDV C-S8c1. Curing late-passage by ribavirin treatment B. Alarcón, Martínez-Salas, L. Carrasco, Virol. 61:233-235, 1987) did not restore sensitivity The resistance C-S8c1 was due an...
Biochemical studies suggest that positive-strand RNA virus replication involves host as well viral functions. Brome mosaic (BMV) is a member of the alphavirus-like superfamily animal and plant viruses. Yeast expressing BMV proteins 1a 2a supports mRNA synthesis. Using ability to replicate in yeast, we show efficient requires Lsm1p, yeast protein related core splicing factors but shown herein be cytoplasmic. Haploid with an Lsm1p mutation was defective early template selection step...
Ion channels are well placed to transduce environmental cues into signals used by cells generate a wide range of responses, but little is known about their role in the regulation RNA metabolism. Here we show that TRPV4 cation channel binds DEAD-box helicase DDX3X and regulates its function. TRPV4-mediated Ca2+ influx releases from drives nuclear translocation, process involves calmodulin (CaM) CaM-dependent kinase II. Genetic depletion or pharmacological inhibition diminishes DDX3X-dependent...
Abstract Cells responds to diverse stimuli by changing the levels of specific effector proteins. These changes are usually examined using high throughput RNA sequencing data (RNA-Seq); transcriptional regulation is generally assumed directly influence protein abundances. However, correlation between RNA-Seq and proteomics in general quite limited owing differences stability translational regulation. Here we perform RNA-Seq, ribosome profiling analyses baker’s yeast cells grown rich media...
Abstract The highly conserved 5’–3’ exonuclease Xrn1 regulates gene expression in eukaryotes by coupling nuclear DNA transcription to cytosolic mRNA decay. By integrating transcriptome-wide analyses of translation with biochemical and functional studies, we demonstrate an unanticipated regulatory role protein synthesis. promotes a specific group transcripts encoding membrane proteins. Xrn1-dependence for is linked poor structural RNA contexts initiation, mediated interactions components the...
Ample evidence indicates that codon usage bias regulates gene expression. How viruses, such as the emerging mosquito-borne Chikungunya virus (CHIKV), express their genomes at high levels despite an enrichment in rare codons remains a puzzling question. Using ribosome footprinting, we analyze translational changes occur upon CHIKV infection. We show infection induces codon-specific reprogramming of host translation machinery to favor viral RNA over mRNAs with otherwise optimal usage. This was...
Maintenance of a persistent foot-and-mouth disease virus (FMDV) infection in BHK-21 cells involves coevolution and (J. C. de la Torre, E. Martínez-Salas, J. Díez, A. Villaverde, F. Gebauer, Rocha, M. Dávila, Domingo, Virol. 62:2050-2058, 1988). The resident FMDV undergoes number phenotypic changes, including gradual decrease virion stability. Here we report the nucleotide sequence P1 genomic segment rescued after 100 passages carrier (R100). Only 5 15 mutations R100 were silent. Nine amino...
The impact of RNA structures in coding sequences (CDS) within mRNAs is poorly understood. Here, we identify a novel and highly conserved mechanism translational control involving the DEAD-box helicase Dhh1. Using yeast genetics genome-wide ribosome profiling analyses, show that this mechanism, initially derived from studies Brome Mosaic virus genome, extends to human enriched membrane secreted proteins. All Dhh1-dependent mRNAs, viral cellular, share key common features. First, they contain...
Viruses subvert macromolecular pathways in infected host cells to aid viral gene amplification or counteract innate immune responses. Roles for host-encoded, noncoding RNAs, including microRNAs, have been found provide pro- and anti-viral functions. Recently, circular RNAs (circRNAs), that are generated by a nuclear back-splicing mechanism of pre-mRNAs, implicated roles DNA virus-infected cells. This study examines the RNA landscape uninfected hepatitis C virus (HCV)-infected liver Results...
Abstract Latency is a major barrier towards virus elimination in HIV-1-infected individuals. Yet, the mechanisms that contribute to maintenance of HIV-1 latency are incompletely understood. Here we describe Schlafen 12 protein (SLFN12) as an restriction factor establishes post-transcriptional block cells and thereby inhibits replication reactivation from latently infected cells. The inhibitory activity dependent on codon usage SLFN12 RNase active sites. Within individuals, expression PBMCs...
Previously, we used the ability of higher eukaryotic positive-strand RNA virus brome mosaic (BMV) to replicate in yeast show that LSM1 gene is required for recruiting BMV from translation replication. Here extend this observation Lsm1p and other components Lsm1p-Lsm7p/Pat1p deadenylation-dependent mRNA decapping complex were also translating RNAs. Inhibition was selective, with no effect on general cellular translation. We viral genomic RNAs suitable replication already distinguished...
The replication of positive-strand RNA viruses involves not only viral proteins but also multiple cellular and intracellular membranes. In both plant cells the yeast Saccharomyces cerevisiae, brome mosaic virus (BMV), a member alphavirus-like superfamily, replicates its in endoplasmic reticulum (ER)-associated complexes containing 1a 2a proteins. Prior to negative-strand synthesis, localizes ER membranes recruits BMV templates polymerase-like protein Here, we show that S. cerevisiae is...
ABSTRACT Hepatitis C virus (HCV) infection is the leading cause of chronic liver diseases. Water extracts leaves wild Egyptian artichoke (WEA) [ Cynara cardunculus L. var. sylvestris (Lam.) Fiori] have been used for centuries in Sinai Peninsula to treat hepatitis symptoms. Here we isolated and characterized six compounds from water WEA evaluated their HCV inhibition capacities vitro . Importantly, two these compounds, grosheimol cynaropicrin, inhibited with half-maximal effective...
The transient receptor potential vanilloid 4 (TRPV4) cation channel participates in multiple physiological processes and is also at the core of different diseases, making this an interesting pharmacological target with therapeutic potential. However, little known about structural elements governing its inhibition.We have now combined silico drug discovery molecular dynamics simulation based on Xenopus tropicalis xTRPV4 structure functional studies measuring cell Ca2+ influx mediated by human...
Chronic inflammation is a major cause of disease. Inflammation resolution in part directed by the differential stability mRNAs encoding pro-inflammatory and anti-inflammatory factors. In particular, tristetraprolin (TTP)-directed mRNA deadenylation destabilizes AU-rich element (ARE)-containing mRNAs. However, this mechanism alone cannot explain variety expression kinetics that are required to uncouple degradation from sustained Here, we show RNA-binding protein CPEB4 acts an opposing manner...
The zoonotic transmission of bat coronaviruses poses a threat to human health. However, the diversity bat-borne remains poorly characterized in many geographical areas. Here, we recovered six complete coronavirus genomes by performing metagenomic analysis fecal samples from hundreds individual bats captured Spain, country with high species diversity. Three these corresponded potentially novel belonging alphacoronavirus genus. Phylogenetic analyses revealed that some viruses are closely...