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1.
J Virol ; 95(19): e0068621, 2021 09 09.
Artículo en Inglés | MEDLINE | ID: mdl-34232709

RESUMEN

During persistent human papillomavirus infection, the viral genome replicates as an extrachromosomal plasmid that is efficiently partitioned to daughter cells during cell division. We have previously shown that an element which overlaps the human papillomavirus 18 (HPV18) transcriptional enhancer promotes stable DNA replication of replicons containing the viral replication origin. Here, we perform comprehensive analyses to elucidate the function of this maintenance element. We conclude that no unique element or binding site in this region is absolutely required for persistent replication and partitioning and instead propose that the overall chromatin architecture of this region is important to promote efficient use of the replication origin. These results have important implications for the genome partitioning mechanism of papillomaviruses. IMPORTANCE Persistent infection with oncogenic human papillomaviruses (HPVs) is responsible for ∼5% of human cancers. The viral DNA replicates as an extrachromosomal plasmid and is partitioned to daughter cells in dividing keratinocytes. Using a complementation assay that allows us to separate viral transcription and replication, we provide insight into viral sequences that are required for long-term replication and persistence in keratinocytes. Understanding how viral genomes replicate persistently for such long periods of time will guide the development of antiviral therapies.


Asunto(s)
Genoma Viral , Papillomavirus Humano 18/genética , Papillomavirus Humano 18/fisiología , Secuencias Reguladoras de Ácidos Nucleicos , Replicón/fisiología , Replicación Viral , Sitios de Unión , Cromatina/fisiología , Replicación del ADN , Elementos de Facilitación Genéticos , Papillomavirus Humano 16/genética , Papillomavirus Humano 16/fisiología , Papillomavirus Humano 31/genética , Papillomavirus Humano 31/fisiología , Queratinocitos/fisiología , Queratinocitos/virología , Plásmidos , Regiones Promotoras Genéticas , Origen de Réplica , Factor de Transcripción AP-1/metabolismo , Transcripción Genética
2.
J Virol ; 90(21): 9953-9966, 2016 Nov 01.
Artículo en Inglés | MEDLINE | ID: mdl-27558430

RESUMEN

Like almost all of the positive-strand RNA viruses, hepatitis C virus (HCV) induces host intracellular membrane modification to form the membrane-bound viral replication complex (RC), within which viral replicases amplify the viral RNA genome. Despite accumulated information about how HCV co-opts host factors for viral replication, our knowledge of the molecular mechanisms by which viral proteins hijack host factors for replicase assembly has only begun to emerge. Purification of the viral replicase and identification of the replicase-associated host factors to dissect their roles in RC biogenesis will shed light on the molecular mechanisms of RC assembly. To purify the viral replicase in the context of genuine viral replication, we developed an HCV subgenomic replicon system in which two different affinity tags were simultaneously inserted in frame into HCV NS5A and NS5B. After solubilizing the replicon cells, we purified the viral replicase by two-step affinity purification and identified the associated host factors by mass spectrometry. We identified valosin-containing protein (VCP), a member of the ATPases associated with diverse cellular activities (AAA+ATPase) family, as an active viral replication modulator whose ATPase activity is required for viral replication. A transient replication assay indicated that VCP is involved mainly in viral genome amplification. VCP associated with viral replicase and colocalized with a viral RC marker. Further, in an HCV replicase formation surrogate system, abolishing VCP function resulted in aberrant distribution of HCV NS5A. We propose that HCV may co-opt a host AAA+ATPase for its replicase assembly. IMPORTANCE: Almost all of the positive-strand RNA viruses share a replication strategy in which viral proteins modify host membranes to form the membrane-associated viral replicase. Viruses hijack host factors to facilitate this energy-unfavorable process. Understanding of this fundamental process is hampered by the challenges of purifying the replicase because of the technical difficulties involved. In this study, we developed an HCV subgenomic replicon system in which two different affinity tags were simultaneously inserted in frame into two replicase components. Using this dual-affinity-tagged replicon system, we purified the viral replicase and identified valosin-containing protein (VCP) AAA+ATPase as a pivotal viral replicase-associated host factor that is required for viral genome replication. Abolishing VCP function resulted in aberrant viral protein distribution. We propose that HCV hijacks a host AAA+ATPase for its replicase assembly. Understanding the molecular mechanism of VCP regulates viral replicase assembly may lead to novel antiviral strategies targeting the most conserved viral replication step.


Asunto(s)
Adenosina Trifosfatasas/química , Adenosina Trifosfatasas/metabolismo , Hepacivirus/metabolismo , ARN Polimerasa Dependiente del ARN/química , ARN Polimerasa Dependiente del ARN/metabolismo , Replicación Viral/fisiología , Cromatografía de Afinidad/métodos , Genoma Viral/genética , Humanos , Membranas Intracelulares/metabolismo , Membranas Intracelulares/virología , ARN Viral/genética , Replicón/fisiología , Proteínas no Estructurales Virales/química , Proteínas no Estructurales Virales/metabolismo
3.
Arch Virol ; 162(11): 3417-3423, 2017 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-28779235

RESUMEN

Japanese encephalitis virus (JEV), an important pathogen in Eastern and Southern Asia and the Pacific, has spread to Australia and other territories in recent years. Although the vaccine for JEV has been used in some countries, development of efficient antiviral drugs is still an urgent requirement. Replicon systems have been widely used in the research of viral replication and antiviral screening for West Nile virus (WNV), yellow fever virus (YFV) and dengue virus (DENV). Here, a novel JEV replicon harboring the Rluc and Pac gene (JEV-Pac-Rluc-Rep) was constructed. Furthermore, we established a BHK-21 cell line harboring JEV-Pac-Rluc-Rep (BHK-21/PAC/Rluc cell line) through continuous puromycin selection. Characterization of cell line stability showed that the replicon RNA could persistently replicate in this cell line for at least up to 10 rounds of passage. Using a known flavivirus inhibitor, the JEV replicon cell line was validated for antiviral screening. The JEV replicon cell line will be a valuable tool for both compound screening and viral replication studies.


Asunto(s)
Antivirales/uso terapéutico , Virus de la Encefalitis Japonesa (Especie)/fisiología , Animales , Línea Celular , Cricetinae , Puromicina , Replicón/genética , Replicón/fisiología , Replicación Viral
4.
Adv Exp Med Biol ; 1042: 229-257, 2017.
Artículo en Inglés | MEDLINE | ID: mdl-29357061

RESUMEN

DNA replication occurs in a defined temporal order during S phase, known as the replication timing programme, which is regulated not only during the cell cycle but also during the process of development and differentiation. The units of replication timing regulation, known as replication domains (RDs), frequently comprise several nearly synchronously firing replication origins. Replication domains correspond to topologically associating domains (TADs) mapped by chromatin conformation capture methods and are likely to be the molecular equivalents of replication foci observed using cytogenetic methods. Both TAD and replication foci are considered to be stable structural units of chromosomes, conserved through the cell cycle and development, and accordingly, the boundaries of RDs also appear to be stable in different cell types. During both normal development and progression of disease, distinct cell states are characterized by unique replication timing signatures, with approximately half of genomic RDs switching replication timing between these cell states. Advances in functional genomics provide hope that we can soon gain an understanding of the cause and consequence of the replication timing programme and its myriad correlations with chromatin context and gene regulation.


Asunto(s)
Cromatina , Replicación del ADN/fisiología , Genoma/genética , Replicón/fisiología , Animales , Sitios de Unión/genética , Cromatina/química , Cromatina/genética , Cromatina/metabolismo , Ensamble y Desensamble de Cromatina , Momento de Replicación del ADN , Proteínas de Unión al ADN/metabolismo , Regulación de la Expresión Génica , Genoma/fisiología , Humanos
5.
Microbiol Immunol ; 60(6): 407-17, 2016 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-27080060

RESUMEN

Hepatitis C virus (HCV) non-structural protein 5A (NS5A) is a multifunctional protein that is involved in the HCV life cycle and pathogenesis. In this study, a host protein(s) interacting with NS5A by tandem affinity purification were searched for with the aim of elucidating the role of NS5A. An NS5A-interacting protein, SET and MYND domain-containing 3 (SMYD3), a lysine methyltransferase reportedly involved in the development of cancer, was identified. The interaction between NS5A and SMYD3 was confirmed in ectopically expressing, HCV RNA replicon-harboring and HCV-infected cells. The other HCV proteins did not bind to SMYD3. SMYD3 bound to NS5A of HCV genotypes 1b and 2a. Deletion mutational analysis revealed that domains II and III of NS5A (amino acids [aa] 250 to 447) and the MYND and N-SET domains of SMYD3 (aa 1 to 87) are involved in the full extent of NS5A-SMYD3 interaction. NS5A co-localized with SMYD3 exclusively in the cytoplasm, thereby inhibiting nuclear localization of SMYD3. Moreover, NS5A formed a complex with SMYD3 and heat shock protein 90 (HSP90), which is a positive regulator of SMYD3. The intensity of binding between SMYD3 and HSP90 was enhanced by NS5A. Luciferase reporter assay demonstrated that NS5A significantly induces activator protein 1 (AP-1) activity, this being potentiated by co-expression of SMYD3 with NS5A. Taken together, the present results suggest that NS5A interacts with SMYD3 and induces AP-1 activation, possibly by facilitating binding between HSP90 and SMYD3. This may be a novel mechanism of AP-1 activation in HCV-infected cells.


Asunto(s)
Hepacivirus/metabolismo , N-Metiltransferasa de Histona-Lisina/metabolismo , Factor de Transcripción AP-1/biosíntesis , Factor de Transcripción AP-1/metabolismo , Proteínas no Estructurales Virales/metabolismo , Línea Celular , Citoplasma/metabolismo , Proteínas HSP90 de Choque Térmico/metabolismo , Hepacivirus/genética , Hepatitis C/virología , N-Metiltransferasa de Histona-Lisina/biosíntesis , Interacciones Huésped-Patógeno , Humanos , Mapeo de Interacción de Proteínas/métodos , Mapas de Interacción de Proteínas , Replicón/fisiología , Análisis de Secuencia de Proteína , Eliminación de Secuencia , Proteínas no Estructurales Virales/biosíntesis , Proteínas no Estructurales Virales/genética , Replicación Viral/fisiología
6.
J Gen Virol ; 94(Pt 12): 2657-2663, 2013 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-24026670

RESUMEN

The 5' untranslated region (5'UTR) of the recently described non-primate hepacivirus (NPHV) contains a region with sequence homology to the internal ribosomal entry site (IRES) of hepatitis C virus (HCV) and GB virus B (GBV-B). Here, we demonstrated internal translation initiation by the NPHV 5'UTR in a bicistronic vector. An RNA stem-loop upstream of the NPHV IRES was structurally distinct from corresponding regions in HCV and GBV-B, and was not required for IRES function. Insertion of the NPHV stem-loop into the corresponding region of the HCV 5'UTR within the HCV subgenomic replicon significantly impaired RNA replication, indicating that long-range interactions between the 5'UTR and cis-acting downstream elements within the NPHV genome are not interchangeable with those of HCV. Despite similarities in IRES structure and function between hepaciviruses, replication elements in the NPHV 5'UTR appear functionally distinct from those of HCV.


Asunto(s)
Regiones no Traducidas 5'/genética , Hepacivirus/genética , Iniciación de la Cadena Peptídica Traduccional , Ribosomas/metabolismo , Regiones no Traducidas 5'/fisiología , Animales , Línea Celular , Células HEK293 , Hepacivirus/metabolismo , Hepacivirus/fisiología , Humanos , Conformación de Ácido Nucleico , Primates/genética , Primates/metabolismo , ARN Viral/genética , ARN Viral/metabolismo , Replicón/genética , Replicón/fisiología , Replicación Viral/genética
7.
Extremophiles ; 17(1): 15-28, 2013 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-23114983

RESUMEN

Recently, the extremely thermophilic bacterium Thermus thermophilus HB8 has been demonstrated to harbor a circular plasmid designated by pVV8 in addition to two well-known plasmids, pTT8 and pTT27, and its entire sequence has been determined. The absence of any obvious replication initiation gene in the 81.2 kb plasmid prompted us to isolate its minimum replicon. By in vivo replication assays with fragments deleted in a stepwise manner, a minimum replicon containing a single ORF, TTHV001, was identified. A protein encoded by TTHV001 showed no amino acid sequence similarity to other function-known proteins. As the results of in vivo and in vitro experiments strongly suggested that the TTHV001 protein was involved in the replication initiation of pVV8, the protein and the gene were referred to as RepV and repV, respectively. The RepV protein binds to an inverted repeat sequence within its own repV gene and then triggers the unwinding of the DNA duplex in an A + T-rich region located just downstream from the inverted repeat. The in vivo replication assays with minimum replicon mutants in the RepV binding site or the unwinding region demonstrated that the unwinding in the region by the RepV binding was essential for pVV8 replication initiation.


Asunto(s)
Proteínas Bacterianas/metabolismo , ADN Helicasas/metabolismo , Replicación del ADN/fisiología , ADN Bacteriano/biosíntesis , Plásmidos/metabolismo , Thermus thermophilus/metabolismo , Transactivadores/metabolismo , Proteínas Bacterianas/genética , ADN Helicasas/genética , ADN Bacteriano/genética , Sistemas de Lectura Abierta/fisiología , Plásmidos/genética , Replicón/fisiología , Thermus thermophilus/genética , Transactivadores/genética
8.
Genetika ; 49(5): 558-68, 2013 May.
Artículo en Ruso | MEDLINE | ID: mdl-24159796

RESUMEN

A basic replicon of the naphthalene degradation plasmid pFME5 (80 kb, IncP-7) has been constructed and sequenced. The nucleotide sequence of pFME5mini is almost identical to replicons of the pND6-1 subgroup, which was separated based on the reA-oriV homology in our previous work. The basic replicon of pFME5 is capable of replication and stable maintenance exclusively in Pseudomonas species. An analysis of the deletion mutation indicated that, in contrast to the parWAB region, the parC gene is not essential for the stability of pFME5mini and can be a common feature of IncP-7 replicons. We revealed that par-defective mutants of pFME5mini were slowly eliminated from the bacterial population in a nonselective medium compared to their pCAR1-based counterparts. Designed primers specific to the repA and parC genes can be used to detect IncP-7 plasmids, while primers specific to two variants of parA can be used for intragroup classification.


Asunto(s)
Naftalenos/metabolismo , Plásmidos/metabolismo , Pseudomonas/metabolismo , Replicón/fisiología , Biodegradación Ambiental , Plásmidos/genética , Pseudomonas/genética
9.
Gastroenterology ; 141(3): 1057-66, 2011 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-21699799

RESUMEN

BACKGROUND & AIMS: Hepatitis C virus (HCV) has a high propensity to establish persistence; better understanding of this process requires the development of a fully permissive and immunocompetent small animal model. Mouse cells can be engineered to express the human orthologs of the entry molecules CD81 and occludin to allow entry of HCV. However, RNA replication is poor in mouse cells, and it is not clear whether they support assembly and release of infectious HCV particles. We used a trans-complementation-based system to demonstrate HCV assembly competence of mouse liver cell lines. METHODS: A panel of 3 mouse hepatoma cell lines that contain a stable subgenomic HCV replicon was used for ectopic expression of the HCV structural proteins, p7, nonstructural protein 2, and/or apolipoprotein E (apoE). Assembly and release of infectious HCV particles was determined by measuring viral RNA, proteins, and infectivity of virus released into the culture supernatant. RESULTS: Mouse replicon cells released low amounts of HCV particles, but ectopic expression of apoE increased release of infectious HCV to levels observed in the human hepatoma cell line Huh7.5. Thus, apoE is the limiting factor for assembly of HCV in mouse hepatoma cells but probably not in primary mouse hepatocytes. Products of all 3 human alleles of apoE and mouse apoE support HCV assembly with comparable efficiency. Mouse and human cell-derived HCV particles have similar biophysical properties, dependency on entry factors, and levels of association with apoE. CONCLUSIONS: Mouse hepatic cells permit HCV assembly and might be developed to create an immunocompetent and fully permissive mouse model of HCV infection.


Asunto(s)
Carcinoma Hepatocelular/patología , Carcinoma Hepatocelular/virología , Hepacivirus/fisiología , Neoplasias Hepáticas/patología , Neoplasias Hepáticas/virología , Virión/fisiología , Ensamble de Virus/fisiología , Alelos , Animales , Apolipoproteínas E/genética , Línea Celular Tumoral , Modelos Animales de Enfermedad , Hepacivirus/genética , Hepatitis C/fisiopatología , Humanos , Ratones , ARN Viral/genética , Replicón/fisiología , Replicación Viral/fisiología
10.
Hepatology ; 54(5): 1580-90, 2011 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-21793033

RESUMEN

UNLABELLED: Studies of the hepatitis C virus (HCV) life-cycle rely heavily on Huh7.5 cells, but the reasons why these cells are exceptionally permissive for HCV replication are not clear. Based on recent clinical observations, we hypothesized that the Hedgehog (Hh) pathway, which has not been previously associated with HCV replication, may be involved in the Huh7.5 phenotype of increased permissiveness. We tested this hypothesis by comparing levels of a variety of Hh-related cellular markers in Huh7.5 cells with the parental Huh7 cells, which are far less permissive. Here we demonstrate that Huh7.5 cells, when compared with Huh7 cells, have substantially decreased expression of epithelial markers, increased levels of mesenchymal markers, and markedly up-regulated Hh pathway activity: Shh, >100-fold, Gli1, >30-fold, Ptc, 2-fold. In Huh7.5 cells, we found that cyclopamine, an Hh pathway antagonist, reduced HCV RNA levels by 50% compared with vehicle and inactive isomer controls. Moreover, in Huh7 cells treatment with recombinant Shh ligand and SAG, both Hh pathway agonists, stimulated HCV replication by 2-fold and 4-fold, respectively. These effects were observed with both viral infections and a subgenomic replicon. Finally, we demonstrated that GDC-0449 decreased HCV RNA levels in a dose-response manner. CONCLUSION: We have identified a relationship between HCV and Hh signaling where up-regulated pathway activity during infection promotes an environment conducive to replication. Given that Hh activity is very low in most hepatocytes, these findings may serve to further shift the model of HCV liver infection from modest widespread replication in hepatocytes to one where a subset of cells support high-level replication. These findings also introduce Hh pathway inhibitors as potential anti-HCV therapeutics.


Asunto(s)
Proteínas Hedgehog/metabolismo , Hepacivirus/crecimiento & desarrollo , Hepatitis C Crónica/metabolismo , Hepatitis C Crónica/virología , Transducción de Señal/fisiología , Anilidas/farmacología , Antivirales/farmacología , Biomarcadores/metabolismo , Carcinoma Hepatocelular , Línea Celular Tumoral , Hepacivirus/genética , Hepatitis C Crónica/tratamiento farmacológico , Humanos , Interferón-alfa/farmacología , Neoplasias Hepáticas , Piridinas/farmacología , Replicón/fisiología , Transducción de Señal/efectos de los fármacos , Regulación hacia Arriba/fisiología , Replicación Viral/efectos de los fármacos , Replicación Viral/fisiología
11.
Bioessays ; 32(2): 153-64, 2010 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-20091757

RESUMEN

Eukaryotic cells are often exposed to fluctuations in growth conditions as well as endogenous and exogenous stress-related agents. During development, global patterns of gene transcription change substantially, and these changes are associated with altered patterns of DNA replication and larger distances between replication origins in somatic cells compared to embryos. Conversely, when cells experience difficulties while replicating DNA, the replication program is dramatically altered and distances between replication origins decrease. Recent evidence indicates that each unit of replication, or replicon, can correspond to one or more potential replication origins, but in the case of multiple potential origins, only one is selected to initiate replication of the replicon. How one origin is selected from multiple potential origins and how origin densities are regulated during genome duplication remains unclear. The following review addresses some of the mechanisms involved in regulating replication origins during both a normal and perturbed eukaryotic cell cycle.


Asunto(s)
Células Eucariotas/metabolismo , Replicón/fisiología , Animales , Replicación del ADN/genética , Replicación del ADN/fisiología , Humanos , Modelos Biológicos , Origen de Réplica/genética , Replicón/genética
12.
Biochem Biophys Res Commun ; 414(4): 808-13, 2011 Nov 04.
Artículo en Inglés | MEDLINE | ID: mdl-22008549

RESUMEN

The advent of infectious molecular clones of Hepatitis C virus (HCV) has unlocked the understanding of HCV life cycle. However, packaging of the genomic RNA, which is crucial to generate infectious viral particles, remains poorly understood. Molecular interactions of the domain 1 (D1) of HCV Core protein and HCV RNA have been described in vitro. Since compaction of genetic information within HCV genome has hampered conventional mutational approach to study packaging in vivo, we developed a novel heterologous system to evaluate the interactions between HCV RNA and CoreD1. For this, we took advantage of the recruitment of Vpr fusion-proteins into HIV-1 particles. By fusing HCV Core D1 to Vpr we were able to package and transfer a HCV subgenomic replicon into a HIV-1 based lentiviral vector. We next examined how deletion mutants of basic sub-domains of Core D1 influenced HCV RNA recruitment. The results emphasized the crucial role of the first and third basic regions of D1 in packaging. Interestingly, the system described here allowed us to mobilise full-length JFH1 genome in CD81 defective cells, which are normally refractory to HCV infection. This finding paves the way to an evaluation of the replication capability of HCV in various cell types.


Asunto(s)
Hepacivirus/fisiología , ARN Viral/fisiología , Virión/fisiología , Ensamble de Virus , Replicación Viral , Línea Celular , Vectores Genéticos/genética , Vectores Genéticos/fisiología , Hepacivirus/genética , Humanos , Lentivirus/genética , Lentivirus/fisiología , ARN Viral/genética , Replicón/genética , Replicón/fisiología
13.
J Virol ; 84(6): 2923-34, 2010 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-20071590

RESUMEN

The RNA-dependent RNA polymerase (NS5B) of hepatitis C virus (HCV) is an unusually attractive target for drug discovery since it contains five distinct drugable sites. The success of novel antiviral therapies will require nonnucleoside inhibitors to be active in at least patients infected with HCV of subtypes 1a and 1b. Therefore, the genotypic assessment of these agents against clinical isolates derived from genotype 1-infected patients is an important prerequisite for the selection of suitable candidates for clinical development. Here we report the 1a/1b subtype profiling of polymerase inhibitors that bind at each of the four known nonnucleoside binding sites. We show that inhibition of all of the clinical isolates tested is maintained, except for inhibitors that bind at the palm-1 binding site. Subtype coverage varies across chemotypes within this class of inhibitors, and inhibition of genotype 1a improves when hydrophobic contact with the polymerase is increased. We investigated if the polymorphism of the palm-1 binding site is the sole cause of the reduced susceptibility of subtype 1a to inhibition by 1,5-benzodiazepines by using reverse genetics, X-ray crystallography, and surface plasmon resonance studies. We showed Y415F to be a key determinant in conferring resistance on subtype 1a, with this effect being mediated through an inhibitor- and enzyme-bound water molecule. Binding studies revealed that the mechanism of subtype 1a resistance is faster dissociation of the inhibitor from the enzyme.


Asunto(s)
Antivirales/uso terapéutico , Hepacivirus/enzimología , Hepatitis C/tratamiento farmacológico , Isoenzimas/antagonistas & inhibidores , ARN Polimerasa Dependiente del ARN/antagonistas & inhibidores , Proteínas no Estructurales Virales/antagonistas & inhibidores , Antivirales/química , Benzodiazepinas/química , Benzodiazepinas/metabolismo , Sitios de Unión , Cristalografía por Rayos X , Descubrimiento de Drogas , Hepacivirus/genética , Humanos , Isoenzimas/genética , Isoenzimas/metabolismo , Modelos Moleculares , Estructura Molecular , Unión Proteica , Conformación Proteica , ARN Polimerasa Dependiente del ARN/química , ARN Polimerasa Dependiente del ARN/genética , ARN Polimerasa Dependiente del ARN/metabolismo , Proteínas Recombinantes de Fusión/química , Proteínas Recombinantes de Fusión/genética , Proteínas Recombinantes de Fusión/metabolismo , Replicón/fisiología , Proteínas no Estructurales Virales/química , Proteínas no Estructurales Virales/genética , Proteínas no Estructurales Virales/metabolismo
14.
Science ; 374(6571): 1099-1106, 2021 Nov 26.
Artículo en Inglés | MEDLINE | ID: mdl-34648371

RESUMEN

Molecular virology tools are critical for basic studies of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and for developing new therapeutics. Experimental systems that do not rely on viruses capable of spread are needed for potential use in lower-containment settings. In this work, we use a yeast-based reverse genetics system to develop spike-deleted SARS-CoV-2 self-replicating RNAs. These noninfectious self-replicating RNAs, or replicons, can be trans-complemented with viral glycoproteins to generate replicon delivery particles for single-cycle delivery into a range of cell types. This SARS-CoV-2 replicon system represents a convenient and versatile platform for antiviral drug screening, neutralization assays, host factor validation, and viral variant characterization.


Asunto(s)
ARN Viral/genética , Replicón/fisiología , SARS-CoV-2/genética , Animales , Anticuerpos Neutralizantes/inmunología , Anticuerpos Antivirales/inmunología , Antivirales/farmacología , Línea Celular , Humanos , Interferones/farmacología , Pruebas de Sensibilidad Microbiana , Mutación , Plásmidos , ARN Viral/metabolismo , Replicón/genética , Genética Inversa , SARS-CoV-2/efectos de los fármacos , SARS-CoV-2/fisiología , Saccharomyces cerevisiae/genética , Glicoproteína de la Espiga del Coronavirus/genética , Proteínas no Estructurales Virales/genética , Proteínas no Estructurales Virales/metabolismo , Pseudotipado Viral , Virión/genética , Virión/fisiología , Replicación Viral
15.
Antimicrob Agents Chemother ; 54(10): 4168-77, 2010 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-20660691

RESUMEN

Acinetobacter baumannii is an opportunistic pathogen, especially in intensive care units, and multidrug-resistant isolates have increasingly been reported during the last decade. Despite recent progress in knowledge of antibiotic resistance mechanisms in A. baumannii, little is known about the genetic factors driving isolates toward multidrug resistance. In the present study, the A. baumannii plasmids were investigated through the analysis and classification of plasmid replication systems and the identification of A. baumannii-specific mobilization and addiction systems. Twenty-two replicons were identified by in silico analysis, and five other replicons were identified and cloned from previously uncharacterized A. baumannii resistance plasmids carrying the OXA-58 carbapenem-hydrolyzing oxacillinase. Replicons were classified into homology groups on the basis of their nucleotide homology. A novel PCR-based replicon typing scheme (the A. baumannii PCR-based replicon typing [AB-PBRT] method) was devised to categorize the A. baumannii plasmids into homogeneous groups on the basis of the nucleotide homology of their respective replicase genes. The AB-PBRT technique was applied to a collection of multidrug-resistant A. baumannii clinical isolates carrying the bla(OXA-58) or bla(OXA-23) carbapenemase gene. A putative complete conjugative apparatus was identified on one plasmid whose self-conjugative ability was demonstrated in vitro. We showed that this conjugative plasmid type was widely diffused in our collection, likely representing the most important vehicle promoting the horizontal transmission of A. baumannii resistance plasmids.


Asunto(s)
Acinetobacter baumannii/efectos de los fármacos , Acinetobacter baumannii/genética , Carbapenémicos/metabolismo , Plásmidos/genética , Reacción en Cadena de la Polimerasa/métodos , Replicón/fisiología , Acinetobacter baumannii/metabolismo , Antibacterianos/farmacología , Farmacorresistencia Bacteriana Múltiple/genética , Replicón/genética , beta-Lactamasas/genética
16.
Antimicrob Agents Chemother ; 54(8): 3099-106, 2010 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-20516274

RESUMEN

The hepatitis C virus (HCV) subgenomic replicon is the primary tool for evaluating the activity of anti-HCV compounds in drug discovery research. Despite the prevalence of HCV genotype 1a (approximately 70% of U.S. HCV patients), few genotype 1a reporter replicon cell lines have been described; this is presumably due to the low replication capacity of such constructs in available Huh-7 cells. In this report, we describe the selection of highly permissive Huh-7 cell lines that support robust replication of genotype 1a subgenomic replicons harboring luciferase reporter genes. These novel cell lines support the replication of multiple genotype 1a replicons (including the H77 and SF9 strains), are significantly more permissive to genotype 1a HCV replication than parental Huh7-Lunet cells, and maintain stable genotype 1a replication levels suitable for antiviral screening. We found that the sensitivity of genotype 1a luciferase replicons to known antivirals was highly consistent between individual genotype 1a clonal cell lines but could vary significantly between genotypes 1a and 1b. Sequencing of the nonstructural region of 12 stable replicon cell clones suggested that the enhanced permissivity is likely due to cellular component(s) in these new cell lines rather than the evolution of novel adaptive mutations in the replicons. These new reagents will enhance drug discovery efforts targeting genotype 1a and facilitate the profiling of compound activity among different HCV genotypes and subtypes.


Asunto(s)
Antivirales/farmacología , Genes Reporteros , Hepacivirus/clasificación , Hepacivirus/efectos de los fármacos , Replicón/genética , Línea Celular Tumoral , Genotipo , Hepacivirus/genética , Hepacivirus/fisiología , Humanos , Luciferasas/genética , Luciferasas/metabolismo , Pruebas de Sensibilidad Microbiana , ARN Viral/genética , ARN Viral/metabolismo , Replicón/fisiología , Replicación Viral/efectos de los fármacos
17.
Antimicrob Agents Chemother ; 54(8): 3179-86, 2010 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-20498328

RESUMEN

Splicing of messenger RNAs is regulated by site-specific binding of members of the serine-arginine-rich (SR) protein family, and SR protein kinases (SRPK) 1 and 2 regulate overall activity of the SR proteins by phosphorylation of their RS domains. We have reported that specifically designed SRPK inhibitors suppressed effectively several DNA and RNA viruses in vitro and in vivo. Here, we show that an SRPK inhibitor, SRPIN340, suppressed in a dose-dependent fashion expression of a hepatitis C virus (HCV) subgenomic replicon and replication of the HCV-JFH1 clone in vitro. The inhibitory effects were not associated with antiproliferative or nonspecific cytotoxic effects on the host cells. Overexpression of SRPK1 or SRPK2 resulted in augmentation of HCV replication, while small interfering RNA (siRNA) knockdown of the SRPKs suppressed HCV replication significantly. Immunocytochemistry showed that SRPKs and the HCV core and NS5A proteins colocalized to some extent in the perinuclear area. Our results demonstrate that SRPKs are host factors essential for HCV replication and that functional inhibitors of these kinases may constitute a new class of antiviral agents against HCV infection.


Asunto(s)
Antivirales/farmacología , Hepacivirus/efectos de los fármacos , Proteínas Serina-Treonina Quinasas/antagonistas & inhibidores , Replicación Viral/efectos de los fármacos , Farmacorresistencia Viral , Hepacivirus/genética , Hepacivirus/fisiología , Antígenos de la Hepatitis C/genética , Antígenos de la Hepatitis C/metabolismo , Humanos , Proteínas Serina-Treonina Quinasas/genética , Proteínas Serina-Treonina Quinasas/metabolismo , ARN Interferente Pequeño/genética , ARN Interferente Pequeño/metabolismo , Replicón/efectos de los fármacos , Replicón/fisiología , Proteínas del Núcleo Viral/genética , Proteínas del Núcleo Viral/metabolismo , Proteínas no Estructurales Virales/genética , Proteínas no Estructurales Virales/metabolismo
18.
Hepatology ; 50(5): 1370-9, 2009 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-19711428

RESUMEN

UNLABELLED: An unresolved question regarding the physiopathology of hepatitis C virus (HCV) infection is the remarkable efficiency with which host defenses are neutralized to establish chronic infection. Modulation of an apoptotic response is one strategy used by viruses to escape immune surveillance. We previously showed that HCV proteins down-regulate expression of BH3-only Bcl2 interacting domain (Bid) in hepatocytes of HCV transgenic mice. As a consequence, cells acquire resistance to Fas-mediated apoptosis, which in turn leads to increased persistence of experimental viral infections in vivo. This mechanism might participate in the establishment of chronic infections and the resulting pathologies, including hepatocellular carcinoma. We now report that Bid is also down-regulated in patients in the context of noncirrhotic HCV-linked tumorigenesis and in the HCV RNA replicon system. We show that the nonstructural HCV viral protein NS5A is sufficient to activate a calpain cysteine protease, leading to degradation of Bid. Moreover, pharmacological inhibitors of calpains restore both the physiological levels of Bid and the sensitivity of cells toward a death receptor-mediated apoptotic signal. Finally, human HCV-related tumors and hepatocytes from HCV transgenic mice that display low Bid expression contain activated calpains. CONCLUSION: Calpains activated by HCV proteins degrade Bid and thus dampen apoptotic signaling. These results suggest that inhibiting calpains could lead to an improved efficiency of immune-mediated elimination of HCV-infected cells.


Asunto(s)
Apoptosis/fisiología , Calpaína/metabolismo , Carcinoma Hepatocelular/patología , Hepacivirus/metabolismo , Neoplasias Hepáticas/patología , Transducción de Señal/fisiología , Proteínas Virales/metabolismo , Adulto , Anciano , Animales , Proteína Proapoptótica que Interacciona Mediante Dominios BH3/metabolismo , Carcinoma Hepatocelular/metabolismo , Células Cultivadas , Modelos Animales de Enfermedad , Femenino , Hepatitis C Crónica/patología , Hepatitis C Crónica/fisiopatología , Humanos , Hígado/metabolismo , Hígado/patología , Neoplasias Hepáticas/metabolismo , Masculino , Ratones , Ratones Transgénicos , Persona de Mediana Edad , Replicón/fisiología , Proteínas no Estructurales Virales/metabolismo
19.
Plasmid ; 64(3): 177-85, 2010 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-20621118

RESUMEN

In several rhizobia, bacteria that inhabit the soil in free-living conditions and associate in symbiosis with the root of legumes as nitrogen-fixing organisms, plasmid DNA can constitute a high percentage of the genome. We have characterized acid-tolerant isolates of rhizobia-here represented by the strain Rhizobium sp. LPU83-that have an extended nodulation-host range including alfalfa, the common bean, and Leucena leucocephala. In this study we analyzed the plasmids of R. sp. LPU83 in order to characterize their role in the evolution of Medicago symbionts and their involvement in symbiotic behavior. The pLPU83a plasmid was found to be transmissible with no associated phenotypic traits. The symbiotic plasmid pLPU83b could be transferred at very low frequencies under laboratory conditions only when pLPU83a was present; could restore nodulation to a strain cured of its symbiotic plasmid, S. meliloti A818; but could not restore the full nitrogen fixation associated with alfalfa.


Asunto(s)
Fabaceae/microbiología , Replicón/genética , Rhizobium/genética , Conjugación Genética/genética , ADN de Plantas/genética , Fabaceae/genética , Cinética , Mutagénesis Sitio-Dirigida , Fijación del Nitrógeno/genética , Fijación del Nitrógeno/fisiología , Raíces de Plantas/genética , Raíces de Plantas/microbiología , Replicón/fisiología , Rhizobium/fisiología , Simbiosis/genética
20.
Viruses ; 12(6)2020 05 30.
Artículo en Inglés | MEDLINE | ID: mdl-32486283

RESUMEN

Single-stranded positive RNA ((+) ssRNA) viruses include several important human pathogens. Some members are responsible for large outbreaks, such as Zika virus, West Nile virus, SARS-CoV, and SARS-CoV-2, while others are endemic, causing an enormous global health burden. Since vaccines or specific treatments are not available for most viral infections, the discovery of direct-acting antivirals (DAA) is an urgent need. Still, the low-throughput nature of and biosafety concerns related to traditional antiviral assays hinders the discovery of new inhibitors. With the advances of reverse genetics, reporter replicon systems have become an alternative tool for the screening of DAAs. Herein, we review decades of the use of (+) ssRNA viruses replicon systems for the discovery of antiviral agents. We summarize different strategies used to develop those systems, as well as highlight some of the most promising inhibitors identified by the method. Despite the genetic alterations introduced, reporter replicons have been shown to be reliable systems for screening and identification of viral replication inhibitors and, therefore, an important tool for the discovery of new DAAs.


Asunto(s)
Antivirales/farmacología , Descubrimiento de Drogas/métodos , Genes Reporteros/fisiología , Virus ARN/efectos de los fármacos , Replicón/fisiología , Animales , Antivirales/química , Línea Celular , Chlorocebus aethiops , Cricetinae , Humanos , Virus ARN/genética , Transfección , Células Vero
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